Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c14b' (ED25519) to the list of known hosts. You can reproduce this build on your computer by running: sudo dnf install copr-rpmbuild /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/8148102-fedora-41-i386 --chroot fedora-41-i386 Version: 1.0 PID: 8720 Logging PID: 8721 Task: {'allow_user_ssh': False, 'appstream': False, 'background': False, 'build_id': 8148102, 'buildroot_pkgs': [], 'chroot': 'fedora-41-i386', 'enable_net': False, 'fedora_review': False, 'git_hash': '6e8065ce7232e29f1f9ae630de445afd41b748d1', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/jplesnik/swig-rebuild/apbs', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'apbs', 'package_version': '3.0.0-25', 'project_dirname': 'swig-rebuild', 'project_name': 'swig-rebuild', 'project_owner': 'jplesnik', 'repo_priority': None, 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/jplesnik/swig-rebuild/fedora-41-i386/', 'id': 'copr_base', 'name': 'Copr repository', 'priority': None}], 'sandbox': 'jplesnik/swig-rebuild--jplesnik', 'source_json': {}, 'source_type': None, 'ssh_public_keys': None, 'storage': None, 'submitter': 'jplesnik', 'tags': [], 'task_id': '8148102-fedora-41-i386', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/jplesnik/swig-rebuild/apbs /var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/jplesnik/swig-rebuild/apbs', '/var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs'... Running: git checkout 6e8065ce7232e29f1f9ae630de445afd41b748d1 -- cmd: ['git', 'checkout', '6e8065ce7232e29f1f9ae630de445afd41b748d1', '--'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs rc: 0 stdout: stderr: Note: switching to '6e8065ce7232e29f1f9ae630de445afd41b748d1'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at 6e8065c automatic import of apbs Running: dist-git-client sources cmd: ['dist-git-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs rc: 0 stdout: stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD INFO: Reading stdout from command: git rev-parse HEAD INFO: Reading sources specification file: sources INFO: Downloading apbs-3.0.0.tar.gz INFO: Reading stdout from command: curl --help all INFO: Calling: curl -H Pragma: -o apbs-3.0.0.tar.gz --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/jplesnik/swig-rebuild/apbs/apbs-3.0.0.tar.gz/md5/f54dff1a670e1dc766d5ad3f775b5de8/apbs-3.0.0.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 25.9M 100 25.9M 0 0 48.7M 0 --:--:-- --:--:-- --:--:-- 48.8M INFO: Reading stdout from command: md5sum apbs-3.0.0.tar.gz /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs/apbs.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1729091030.758461 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 5.9 starting (python version = 3.12.1, NVR = mock-5.9-1.fc39), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs/apbs.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1729091030.758461 -r /var/lib/copr-rpmbuild/results/configs/child.cfg Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs/apbs.spec) Config(fedora-41-i686) Start: clean chroot Finish: clean chroot Mock Version: 5.9 INFO: Mock Version: 5.9 Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-41-i686-bootstrap-1729091030.758461/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: Guessed host environment type: unknown INFO: Using bootstrap image: registry.fedoraproject.org/fedora:41 INFO: Pulling image: registry.fedoraproject.org/fedora:41 INFO: Copy content of container registry.fedoraproject.org/fedora:41 to /var/lib/mock/fedora-41-i686-bootstrap-1729091030.758461/root INFO: Checking that registry.fedoraproject.org/fedora:41 image matches host's architecture INFO: mounting registry.fedoraproject.org/fedora:41 with podman image mount INFO: image registry.fedoraproject.org/fedora:41 as /var/lib/containers/storage/overlay/9c5d06f43e17c2c92b21878e872a55cfd1ff54cdf43139ea183ef7c41c96ff15/merged INFO: umounting image registry.fedoraproject.org/fedora:41 (/var/lib/containers/storage/overlay/9c5d06f43e17c2c92b21878e872a55cfd1ff54cdf43139ea183ef7c41c96ff15/merged) with podman image umount INFO: Package manager dnf5 detected and used (fallback) INFO: Not updating bootstrap chroot, bootstrap_image_ready=True Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-41-i686-1729091030.758461/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Package manager dnf5 detected and used (direct choice) INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.20.0-1.fc41.x86_64 rpm-sequoia-1.7.0-2.fc41.x86_64 dnf5-5.2.6.2-1.fc41.x86_64 dnf5-plugins-5.2.6.2-1.fc41.x86_64 Start: installing minimal buildroot with dnf5 Updating and loading repositories: local 100% | 48.7 MiB/s | 12.6 MiB | 00m00s Copr repository 100% | 3.2 MiB/s | 618.2 KiB | 00m00s Repositories loaded. Package Arch Version Repository Size Installing group/module packages: bash i686 5.2.32-1.fc41 local 8.3 MiB bzip2 i686 1.0.8-19.fc41 local 93.9 KiB coreutils i686 9.5-10.fc41 local 5.6 MiB cpio i686 2.15-2.fc41 local 1.1 MiB diffutils i686 3.10-8.fc41 local 1.6 MiB fedora-release noarch 41-0.21 local 0.0 B findutils i686 1:4.10.0-4.fc41 local 1.9 MiB gawk i686 5.3.0-4.fc41 local 1.7 MiB glibc-minimal-langpack i686 2.40-3.fc41 local 0.0 B grep i686 3.11-9.fc41 local 1.0 MiB gzip i686 1.13-2.fc41 local 388.1 KiB info i686 7.1-3.fc41 local 360.4 KiB patch i686 2.7.6-25.fc41 local 298.0 KiB redhat-rpm-config noarch 293-1.fc41 local 183.5 KiB rpm-build i686 4.20.0-1.fc41 local 178.2 KiB sed i686 4.9-3.fc41 local 860.6 KiB shadow-utils i686 2:4.15.1-12.fc41 local 4.0 MiB tar i686 2:1.35-4.fc41 local 3.0 MiB unzip i686 6.0-64.fc41 local 396.3 KiB util-linux i686 2.40.2-4.fc41 local 3.5 MiB which i686 2.21-42.fc41 local 78.9 KiB xz i686 1:5.6.2-2.fc41 local 1.2 MiB Installing dependencies: add-determinism i686 0.3.6-1.fc41 local 2.1 MiB alternatives i686 1.30-1.fc41 local 65.5 KiB ansible-srpm-macros noarch 1-16.fc41 local 35.7 KiB audit-libs i686 4.0.2-1.fc41 copr_base 341.8 KiB authselect i686 1.5.0-8.fc41 local 160.6 KiB authselect-libs i686 1.5.0-8.fc41 local 825.4 KiB basesystem noarch 11-21.fc41 local 0.0 B binutils i686 2.43.1-2.fc41 local 25.4 MiB build-reproducibility-srpm-macros noarch 0.3.6-1.fc41 local 735.0 B bzip2-libs i686 1.0.8-19.fc41 local 76.0 KiB ca-certificates noarch 2024.2.69_v8.0.401-1.0.fc41 local 2.4 MiB coreutils-common i686 9.5-10.fc41 local 11.2 MiB cracklib i686 2.9.11-6.fc41 local 235.8 KiB crypto-policies noarch 20241010-1.git8baf557.fc41 local 136.9 KiB curl i686 8.9.1-2.fc41 local 799.4 KiB cyrus-sasl-lib i686 2.1.28-27.fc41 local 2.5 MiB debugedit i686 5.0-17.fc41 local 192.9 KiB dwz i686 0.15-8.fc41 local 328.9 KiB ed i686 1.20.2-2.fc41 local 141.7 KiB efi-srpm-macros noarch 5-12.fc41 local 40.1 KiB elfutils i686 0.191-8.fc41 local 2.5 MiB elfutils-debuginfod-client i686 0.191-8.fc41 local 55.3 KiB elfutils-default-yama-scope noarch 0.191-8.fc41 local 1.8 KiB elfutils-libelf i686 0.191-8.fc41 local 1.2 MiB elfutils-libs i686 0.191-8.fc41 local 700.8 KiB fedora-gpg-keys noarch 41-0.5 local 126.4 KiB fedora-release-common noarch 41-0.21 local 19.4 KiB fedora-release-identity-basic noarch 41-0.21 local 684.0 B fedora-repos noarch 41-0.5 local 4.9 KiB file i686 5.45-7.fc41 local 94.5 KiB file-libs i686 5.45-7.fc41 local 9.9 MiB filesystem i686 3.18-23.fc41 local 88.0 B fonts-srpm-macros noarch 1:2.0.5-17.fc41 local 55.8 KiB forge-srpm-macros noarch 0.3.2-1.fc41 local 39.0 KiB fpc-srpm-macros noarch 1.3-13.fc41 local 144.0 B gdb-minimal i686 15.1-1.fc41 local 13.6 MiB gdbm i686 1:1.23-7.fc41 local 449.8 KiB gdbm-libs i686 1:1.23-7.fc41 local 124.6 KiB ghc-srpm-macros noarch 1.9.1-2.fc41 local 747.0 B glibc i686 2.40-3.fc41 local 5.5 MiB glibc-common i686 2.40-3.fc41 local 1.0 MiB glibc-gconv-extra i686 2.40-3.fc41 local 7.4 MiB gmp i686 1:6.3.0-2.fc41 local 738.5 KiB gnat-srpm-macros noarch 6-6.fc41 local 1.0 KiB go-srpm-macros noarch 3.6.0-3.fc41 local 60.8 KiB jansson i686 2.13.1-10.fc41 local 87.6 KiB kernel-srpm-macros noarch 1.0-24.fc41 local 1.9 KiB keyutils-libs i686 1.6.3-4.fc41 local 57.6 KiB krb5-libs i686 1.21.3-2.fc41 local 2.3 MiB libacl i686 2.3.2-2.fc41 local 39.3 KiB libarchive i686 3.7.4-3.fc41 local 994.4 KiB libattr i686 2.5.2-4.fc41 local 23.8 KiB libblkid i686 2.40.2-4.fc41 local 285.5 KiB libbrotli i686 1.1.0-5.fc41 local 859.5 KiB libcap i686 2.70-4.fc41 local 205.1 KiB libcap-ng i686 0.8.5-3.fc41 copr_base 71.6 KiB libcom_err i686 1.47.1-3.fc41 local 58.4 KiB libcurl i686 8.9.1-2.fc41 local 846.1 KiB libeconf i686 0.6.2-3.fc41 local 61.2 KiB libevent i686 2.1.12-14.fc41 local 952.1 KiB libfdisk i686 2.40.2-4.fc41 local 410.4 KiB libffi i686 3.4.6-3.fc41 local 81.5 KiB libgcc i686 14.2.1-3.fc41 local 301.7 KiB libgomp i686 14.2.1-3.fc41 local 522.6 KiB libidn2 i686 2.3.7-2.fc41 local 324.3 KiB libmount i686 2.40.2-4.fc41 local 387.0 KiB libnghttp2 i686 1.62.1-2.fc41 local 173.5 KiB libnsl2 i686 2.0.1-2.fc41 local 57.2 KiB libpkgconf i686 2.3.0-1.fc41 local 80.7 KiB libpsl i686 0.21.5-4.fc41 local 75.8 KiB libpwquality i686 1.4.5-11.fc41 local 410.6 KiB libselinux i686 3.7-7.fc41 copr_base 196.2 KiB libsemanage i686 3.7-4.fc41 copr_base 312.0 KiB libsepol i686 3.7-2.fc41 local 873.4 KiB libsmartcols i686 2.40.2-4.fc41 local 179.7 KiB libssh i686 0.10.6-8.fc41 local 547.3 KiB libssh-config noarch 0.10.6-8.fc41 local 277.0 B libstdc++ i686 14.2.1-3.fc41 local 2.8 MiB libtasn1 i686 4.19.0-9.fc41 local 179.0 KiB libtirpc i686 1.3.5-0.fc41 local 213.8 KiB libtool-ltdl i686 2.4.7-12.fc41 local 69.4 KiB libunistring i686 1.1-8.fc41 local 1.7 MiB libutempter i686 1.2.1-15.fc41 local 56.2 KiB libuuid i686 2.40.2-4.fc41 local 44.7 KiB libverto i686 0.3.2-9.fc41 local 28.8 KiB libxcrypt i686 4.4.36-7.fc41 local 278.2 KiB libxml2 i686 2.12.8-2.fc41 local 1.8 MiB libzstd i686 1.5.6-2.fc41 local 727.1 KiB lua-libs i686 5.4.6-6.fc41 local 308.6 KiB lua-srpm-macros noarch 1-14.fc41 local 1.3 KiB lz4-libs i686 1.10.0-1.fc41 local 144.8 KiB mpfr i686 4.2.1-5.fc41 local 966.6 KiB ncurses-base noarch 6.5-2.20240629.fc41 local 326.3 KiB ncurses-libs i686 6.5-2.20240629.fc41 local 971.0 KiB ocaml-srpm-macros noarch 10-3.fc41 local 1.9 KiB openblas-srpm-macros noarch 2-18.fc41 local 112.0 B openldap i686 2.6.8-5.fc41 local 677.7 KiB openssl-libs i686 1:3.2.2-9.fc41 local 6.3 MiB p11-kit i686 0.25.5-3.fc41 local 2.3 MiB p11-kit-trust i686 0.25.5-3.fc41 local 361.6 KiB package-notes-srpm-macros noarch 0.5-12.fc41 local 1.6 KiB pam i686 1.6.1-5.fc41 local 1.8 MiB pam-libs i686 1.6.1-5.fc41 local 132.7 KiB pcre2 i686 10.44-1.fc41.1 local 660.1 KiB pcre2-syntax noarch 10.44-1.fc41.1 local 251.6 KiB perl-srpm-macros noarch 1-56.fc41 local 861.0 B pkgconf i686 2.3.0-1.fc41 local 87.0 KiB pkgconf-m4 noarch 2.3.0-1.fc41 local 14.4 KiB pkgconf-pkg-config i686 2.3.0-1.fc41 local 979.0 B popt i686 1.19-7.fc41 local 136.0 KiB publicsuffix-list-dafsa noarch 20240107-4.fc41 local 67.5 KiB pyproject-srpm-macros noarch 1.15.1-1.fc41 local 1.9 KiB python-srpm-macros noarch 3.13-3.fc41 local 51.0 KiB qt5-srpm-macros noarch 5.15.15-1.fc41 local 500.0 B qt6-srpm-macros noarch 6.7.2-3.fc41 local 456.0 B readline i686 8.2-10.fc41 local 465.5 KiB rpm i686 4.20.0-1.fc41 local 3.0 MiB rpm-build-libs i686 4.20.0-1.fc41 local 209.4 KiB rpm-libs i686 4.20.0-1.fc41 local 768.8 KiB rpm-sequoia i686 1.7.0-2.fc41 local 2.6 MiB rust-srpm-macros noarch 26.3-3.fc41 local 4.8 KiB setup noarch 2.15.0-5.fc41 local 720.7 KiB sqlite-libs i686 3.46.1-1.fc41 local 1.5 MiB systemd-libs i686 256.7-1.fc41 local 2.0 MiB util-linux-core i686 2.40.2-4.fc41 local 1.4 MiB xxhash-libs i686 0.8.2-4.fc41 local 115.8 KiB xz-libs i686 1:5.6.2-2.fc41 local 229.8 KiB zig-srpm-macros noarch 1-3.fc41 local 1.1 KiB zip i686 3.0-41.fc41 local 707.1 KiB zlib-ng-compat i686 2.1.7-3.fc41 local 149.4 KiB zstd i686 1.5.6-2.fc41 local 1.6 MiB Installing groups: build Transaction Summary: Installing: 153 packages Total size of inbound packages is 53 MiB. Need to download 53 MiB. After this operation, 176 MiB extra will be used (install 176 MiB, remove 0 B). [ 1/153] bzip2-0:1.0.8-19.fc41.i686 100% | 850.9 KiB/s | 52.8 KiB | 00m00s [ 2/153] bash-0:5.2.32-1.fc41.i686 100% | 18.1 MiB/s | 1.8 MiB | 00m00s [ 3/153] coreutils-0:9.5-10.fc41.i686 100% | 10.6 MiB/s | 1.2 MiB | 00m00s [ 4/153] cpio-0:2.15-2.fc41.i686 100% | 5.8 MiB/s | 290.8 KiB | 00m00s [ 5/153] diffutils-0:3.10-8.fc41.i686 100% | 28.1 MiB/s | 403.3 KiB | 00m00s [ 6/153] fedora-release-0:41-0.21.noar 100% | 1.3 MiB/s | 12.1 KiB | 00m00s [ 7/153] glibc-minimal-langpack-0:2.40 100% | 8.6 MiB/s | 124.0 KiB | 00m00s [ 8/153] gawk-0:5.3.0-4.fc41.i686 100% | 37.4 MiB/s | 1.0 MiB | 00m00s [ 9/153] grep-0:3.11-9.fc41.i686 100% | 24.0 MiB/s | 295.5 KiB | 00m00s [ 10/153] findutils-1:4.10.0-4.fc41.i68 100% | 13.8 MiB/s | 551.1 KiB | 00m00s [ 11/153] gzip-0:1.13-2.fc41.i686 100% | 15.9 MiB/s | 162.6 KiB | 00m00s [ 12/153] info-0:7.1-3.fc41.i686 100% | 14.0 MiB/s | 186.0 KiB | 00m00s [ 13/153] patch-0:2.7.6-25.fc41.i686 100% | 11.6 MiB/s | 142.2 KiB | 00m00s [ 14/153] redhat-rpm-config-0:293-1.fc4 100% | 7.4 MiB/s | 75.5 KiB | 00m00s [ 15/153] rpm-build-0:4.20.0-1.fc41.i68 100% | 7.4 MiB/s | 76.1 KiB | 00m00s [ 16/153] sed-0:4.9-3.fc41.i686 100% | 13.2 MiB/s | 311.4 KiB | 00m00s [ 17/153] shadow-utils-2:4.15.1-12.fc41 100% | 38.0 MiB/s | 1.3 MiB | 00m00s [ 18/153] tar-2:1.35-4.fc41.i686 100% | 27.3 MiB/s | 866.7 KiB | 00m00s [ 19/153] unzip-0:6.0-64.fc41.i686 100% | 9.3 MiB/s | 180.7 KiB | 00m00s [ 20/153] which-0:2.21-42.fc41.i686 100% | 4.5 MiB/s | 41.5 KiB | 00m00s [ 21/153] util-linux-0:2.40.2-4.fc41.i6 100% | 48.1 MiB/s | 1.2 MiB | 00m00s [ 22/153] xz-1:5.6.2-2.fc41.i686 100% | 12.2 MiB/s | 462.9 KiB | 00m00s [ 23/153] filesystem-0:3.18-23.fc41.i68 100% | 28.1 MiB/s | 1.1 MiB | 00m00s [ 24/153] bzip2-libs-0:1.0.8-19.fc41.i6 100% | 3.7 MiB/s | 41.3 KiB | 00m00s [ 25/153] ncurses-libs-0:6.5-2.20240629 100% | 15.1 MiB/s | 355.3 KiB | 00m00s [ 26/153] glibc-0:2.40-3.fc41.i686 100% | 44.0 MiB/s | 2.0 MiB | 00m00s [ 27/153] libacl-0:2.3.2-2.fc41.i686 100% | 2.1 MiB/s | 26.0 KiB | 00m00s [ 28/153] gmp-1:6.3.0-2.fc41.i686 100% | 19.0 MiB/s | 311.3 KiB | 00m00s [ 29/153] libattr-0:2.5.2-4.fc41.i686 100% | 1.8 MiB/s | 18.5 KiB | 00m00s [ 30/153] libcap-0:2.70-4.fc41.i686 100% | 7.8 MiB/s | 88.3 KiB | 00m00s [ 31/153] fedora-release-common-0:41-0. 100% | 2.5 MiB/s | 22.8 KiB | 00m00s [ 32/153] mpfr-0:4.2.1-5.fc41.i686 100% | 28.9 MiB/s | 385.0 KiB | 00m00s [ 33/153] coreutils-common-0:9.5-10.fc4 100% | 34.4 MiB/s | 2.1 MiB | 00m00s [ 34/153] readline-0:8.2-10.fc41.i686 100% | 16.4 MiB/s | 218.8 KiB | 00m00s [ 35/153] glibc-common-0:2.40-3.fc41.i6 100% | 17.6 MiB/s | 414.9 KiB | 00m00s [ 36/153] pcre2-0:10.44-1.fc41.1.i686 100% | 16.7 MiB/s | 240.0 KiB | 00m00s [ 37/153] ed-0:1.20.2-2.fc41.i686 100% | 6.6 MiB/s | 81.2 KiB | 00m00s [ 38/153] ansible-srpm-macros-0:1-16.fc 100% | 1.8 MiB/s | 20.8 KiB | 00m00s [ 39/153] build-reproducibility-srpm-ma 100% | 883.6 KiB/s | 10.6 KiB | 00m00s [ 40/153] dwz-0:0.15-8.fc41.i686 100% | 10.2 MiB/s | 146.5 KiB | 00m00s [ 41/153] efi-srpm-macros-0:5-12.fc41.n 100% | 2.2 MiB/s | 22.4 KiB | 00m00s [ 42/153] file-0:5.45-7.fc41.i686 100% | 4.8 MiB/s | 49.1 KiB | 00m00s [ 43/153] fonts-srpm-macros-1:2.0.5-17. 100% | 1.8 MiB/s | 27.0 KiB | 00m00s [ 44/153] forge-srpm-macros-0:0.3.2-1.f 100% | 1.5 MiB/s | 19.7 KiB | 00m00s [ 45/153] fpc-srpm-macros-0:1.3-13.fc41 100% | 663.5 KiB/s | 8.0 KiB | 00m00s [ 46/153] ghc-srpm-macros-0:1.9.1-2.fc4 100% | 754.7 KiB/s | 9.1 KiB | 00m00s [ 47/153] openssl-libs-1:3.2.2-9.fc41.i 100% | 17.6 MiB/s | 2.3 MiB | 00m00s [ 48/153] gnat-srpm-macros-0:6-6.fc41.n 100% | 895.2 KiB/s | 9.0 KiB | 00m00s [ 49/153] go-srpm-macros-0:3.6.0-3.fc41 100% | 2.5 MiB/s | 28.0 KiB | 00m00s [ 50/153] lua-srpm-macros-0:1-14.fc41.n 100% | 986.5 KiB/s | 8.9 KiB | 00m00s [ 51/153] kernel-srpm-macros-0:1.0-24.f 100% | 986.8 KiB/s | 9.9 KiB | 00m00s [ 52/153] ocaml-srpm-macros-0:10-3.fc41 100% | 919.9 KiB/s | 9.2 KiB | 00m00s [ 53/153] openblas-srpm-macros-0:2-18.f 100% | 964.4 KiB/s | 7.7 KiB | 00m00s [ 54/153] package-notes-srpm-macros-0:0 100% | 1.1 MiB/s | 9.8 KiB | 00m00s [ 55/153] perl-srpm-macros-0:1-56.fc41. 100% | 851.3 KiB/s | 8.5 KiB | 00m00s [ 56/153] pyproject-srpm-macros-0:1.15. 100% | 1.6 MiB/s | 13.3 KiB | 00m00s [ 57/153] python-srpm-macros-0:3.13-3.f 100% | 2.6 MiB/s | 23.7 KiB | 00m00s [ 58/153] qt5-srpm-macros-0:5.15.15-1.f 100% | 988.7 KiB/s | 8.9 KiB | 00m00s [ 59/153] qt6-srpm-macros-0:6.7.2-3.fc4 100% | 1.0 MiB/s | 9.1 KiB | 00m00s [ 60/153] rust-srpm-macros-0:26.3-3.fc4 100% | 1.3 MiB/s | 12.1 KiB | 00m00s [ 61/153] zig-srpm-macros-0:1-3.fc41.no 100% | 1.0 MiB/s | 8.1 KiB | 00m00s [ 62/153] zip-0:3.0-41.fc41.i686 100% | 21.8 MiB/s | 267.5 KiB | 00m00s [ 63/153] rpm-0:4.20.0-1.fc41.i686 100% | 18.9 MiB/s | 522.1 KiB | 00m00s [ 64/153] debugedit-0:5.0-17.fc41.i686 100% | 6.1 MiB/s | 81.1 KiB | 00m00s [ 65/153] elfutils-libelf-0:0.191-8.fc4 100% | 13.1 MiB/s | 214.0 KiB | 00m00s [ 66/153] elfutils-0:0.191-8.fc41.i686 100% | 15.2 MiB/s | 561.9 KiB | 00m00s [ 67/153] libarchive-0:3.7.4-3.fc41.i68 100% | 21.0 MiB/s | 451.3 KiB | 00m00s [ 68/153] pkgconf-pkg-config-0:2.3.0-1. 100% | 995.3 KiB/s | 10.0 KiB | 00m00s [ 69/153] popt-0:1.19-7.fc41.i686 100% | 6.7 MiB/s | 61.5 KiB | 00m00s [ 70/153] rpm-build-libs-0:4.20.0-1.fc4 100% | 10.2 MiB/s | 104.9 KiB | 00m00s [ 71/153] rpm-libs-0:4.20.0-1.fc41.i686 100% | 15.8 MiB/s | 340.2 KiB | 00m00s [ 72/153] zstd-0:1.5.6-2.fc41.i686 100% | 20.2 MiB/s | 455.8 KiB | 00m00s [ 73/153] libeconf-0:0.6.2-3.fc41.i686 100% | 3.7 MiB/s | 34.1 KiB | 00m00s [ 74/153] libxcrypt-0:4.4.36-7.fc41.i68 100% | 10.7 MiB/s | 120.6 KiB | 00m00s [ 75/153] pam-libs-0:1.6.1-5.fc41.i686 100% | 5.3 MiB/s | 59.7 KiB | 00m00s [ 76/153] setup-0:2.15.0-5.fc41.noarch 100% | 12.1 MiB/s | 148.3 KiB | 00m00s [ 77/153] binutils-0:2.43.1-2.fc41.i686 100% | 47.9 MiB/s | 5.9 MiB | 00m00s [ 78/153] libblkid-0:2.40.2-4.fc41.i686 100% | 11.2 MiB/s | 137.3 KiB | 00m00s [ 79/153] authselect-libs-0:1.5.0-8.fc4 100% | 10.7 MiB/s | 207.7 KiB | 00m00s [ 80/153] libfdisk-0:2.40.2-4.fc41.i686 100% | 17.2 MiB/s | 176.0 KiB | 00m00s [ 81/153] libmount-0:2.40.2-4.fc41.i686 100% | 15.9 MiB/s | 163.0 KiB | 00m00s [ 82/153] libsmartcols-0:2.40.2-4.fc41. 100% | 8.4 MiB/s | 86.3 KiB | 00m00s [ 83/153] libutempter-0:1.2.1-15.fc41.i 100% | 2.9 MiB/s | 26.9 KiB | 00m00s [ 84/153] libuuid-0:2.40.2-4.fc41.i686 100% | 3.3 MiB/s | 30.6 KiB | 00m00s [ 85/153] systemd-libs-0:256.7-1.fc41.i 100% | 30.2 MiB/s | 773.5 KiB | 00m00s [ 86/153] util-linux-core-0:2.40.2-4.fc 100% | 24.9 MiB/s | 536.5 KiB | 00m00s [ 87/153] pam-0:1.6.1-5.fc41.i686 100% | 17.9 MiB/s | 531.6 KiB | 00m00s [ 88/153] zlib-ng-compat-0:2.1.7-3.fc41 100% | 8.0 MiB/s | 81.9 KiB | 00m00s [ 89/153] xz-libs-1:5.6.2-2.fc41.i686 100% | 12.0 MiB/s | 122.7 KiB | 00m00s [ 90/153] basesystem-0:11-21.fc41.noarc 100% | 819.1 KiB/s | 7.4 KiB | 00m00s [ 91/153] libgcc-0:14.2.1-3.fc41.i686 100% | 12.3 MiB/s | 151.3 KiB | 00m00s [ 92/153] ncurses-base-0:6.5-2.20240629 100% | 6.2 MiB/s | 63.8 KiB | 00m00s [ 93/153] crypto-policies-0:20241010-1. 100% | 7.1 MiB/s | 72.6 KiB | 00m00s [ 94/153] ca-certificates-0:2024.2.69_v 100% | 31.5 MiB/s | 871.2 KiB | 00m00s [ 95/153] fedora-repos-0:41-0.5.noarch 100% | 833.3 KiB/s | 9.2 KiB | 00m00s [ 96/153] pcre2-syntax-0:10.44-1.fc41.1 100% | 12.2 MiB/s | 149.9 KiB | 00m00s [ 97/153] add-determinism-0:0.3.6-1.fc4 100% | 32.6 MiB/s | 868.7 KiB | 00m00s [ 98/153] glibc-gconv-extra-0:2.40-3.fc 100% | 20.2 MiB/s | 1.7 MiB | 00m00s [ 99/153] file-libs-0:5.45-7.fc41.i686 100% | 25.1 MiB/s | 770.6 KiB | 00m00s [100/153] curl-0:8.9.1-2.fc41.i686 100% | 19.6 MiB/s | 321.3 KiB | 00m00s [101/153] alternatives-0:1.30-1.fc41.i6 100% | 3.8 MiB/s | 42.8 KiB | 00m00s [102/153] elfutils-debuginfod-client-0: 100% | 4.1 MiB/s | 37.6 KiB | 00m00s [103/153] jansson-0:2.13.1-10.fc41.i686 100% | 3.4 MiB/s | 45.9 KiB | 00m00s [104/153] elfutils-libs-0:0.191-8.fc41. 100% | 21.9 MiB/s | 290.9 KiB | 00m00s [105/153] libzstd-0:1.5.6-2.fc41.i686 100% | 23.3 MiB/s | 285.8 KiB | 00m00s [106/153] lz4-libs-0:1.10.0-1.fc41.i686 100% | 6.5 MiB/s | 73.5 KiB | 00m00s [107/153] pkgconf-0:2.3.0-1.fc41.i686 100% | 3.7 MiB/s | 45.5 KiB | 00m00s [108/153] libstdc++-0:14.2.1-3.fc41.i68 100% | 16.4 MiB/s | 954.7 KiB | 00m00s [109/153] libxml2-0:2.12.8-2.fc41.i686 100% | 19.3 MiB/s | 730.6 KiB | 00m00s [110/153] pkgconf-m4-0:2.3.0-1.fc41.noa 100% | 1.4 MiB/s | 14.3 KiB | 00m00s [111/153] lua-libs-0:5.4.6-6.fc41.i686 100% | 13.2 MiB/s | 149.0 KiB | 00m00s [112/153] rpm-sequoia-0:1.7.0-2.fc41.i6 100% | 39.9 MiB/s | 980.1 KiB | 00m00s [113/153] libgomp-0:14.2.1-3.fc41.i686 100% | 11.6 MiB/s | 356.5 KiB | 00m00s [114/153] authselect-0:1.5.0-8.fc41.i68 100% | 10.7 MiB/s | 142.3 KiB | 00m00s [115/153] sqlite-libs-0:3.46.1-1.fc41.i 100% | 18.9 MiB/s | 756.0 KiB | 00m00s [116/153] gdbm-1:1.23-7.fc41.i686 100% | 7.0 MiB/s | 149.5 KiB | 00m00s [117/153] gdbm-libs-1:1.23-7.fc41.i686 100% | 6.5 MiB/s | 59.8 KiB | 00m00s [118/153] libnsl2-0:2.0.1-2.fc41.i686 100% | 3.3 MiB/s | 30.7 KiB | 00m00s [119/153] libpwquality-0:1.4.5-11.fc41. 100% | 10.6 MiB/s | 109.0 KiB | 00m00s [120/153] libtirpc-0:1.3.5-0.fc41.i686 100% | 10.0 MiB/s | 102.0 KiB | 00m00s [121/153] libffi-0:3.4.6-3.fc41.i686 100% | 4.1 MiB/s | 38.0 KiB | 00m00s [122/153] p11-kit-trust-0:0.25.5-3.fc41 100% | 12.2 MiB/s | 137.8 KiB | 00m00s [123/153] p11-kit-0:0.25.5-3.fc41.i686 100% | 23.5 MiB/s | 481.9 KiB | 00m00s [124/153] fedora-gpg-keys-0:41-0.5.noar 100% | 11.0 MiB/s | 123.4 KiB | 00m00s [125/153] elfutils-default-yama-scope-0 100% | 1.3 MiB/s | 12.3 KiB | 00m00s [126/153] libpkgconf-0:2.3.0-1.fc41.i68 100% | 4.5 MiB/s | 41.7 KiB | 00m00s [127/153] cracklib-0:2.9.11-6.fc41.i686 100% | 8.1 MiB/s | 82.5 KiB | 00m00s [128/153] libcom_err-0:1.47.1-3.fc41.i6 100% | 2.0 MiB/s | 26.9 KiB | 00m00s [129/153] libtasn1-0:4.19.0-9.fc41.i686 100% | 6.1 MiB/s | 75.3 KiB | 00m00s [130/153] krb5-libs-0:1.21.3-2.fc41.i68 100% | 24.6 MiB/s | 804.5 KiB | 00m00s [131/153] keyutils-libs-0:1.6.3-4.fc41. 100% | 2.8 MiB/s | 32.0 KiB | 00m00s [132/153] libverto-0:0.3.2-9.fc41.i686 100% | 1.9 MiB/s | 21.2 KiB | 00m00s [133/153] libsepol-0:3.7-2.fc41.i686 100% | 21.7 MiB/s | 355.7 KiB | 00m00s [134/153] libcap-ng-0:0.8.5-3.fc41.i686 100% | 932.8 KiB/s | 33.6 KiB | 00m00s [135/153] libselinux-0:3.7-7.fc41.i686 100% | 1.7 MiB/s | 93.3 KiB | 00m00s [136/153] audit-libs-0:4.0.2-1.fc41.i68 100% | 2.2 MiB/s | 129.5 KiB | 00m00s [137/153] fedora-release-identity-basic 100% | 1.0 MiB/s | 12.8 KiB | 00m00s [138/153] libsemanage-0:3.7-4.fc41.i686 100% | 7.3 MiB/s | 126.7 KiB | 00m00s [139/153] xxhash-libs-0:0.8.2-4.fc41.i6 100% | 2.7 MiB/s | 46.8 KiB | 00m00s [140/153] libbrotli-0:1.1.0-5.fc41.i686 100% | 20.7 MiB/s | 339.4 KiB | 00m00s [141/153] libcurl-0:8.9.1-2.fc41.i686 100% | 10.6 MiB/s | 389.6 KiB | 00m00s [142/153] libidn2-0:2.3.7-2.fc41.i686 100% | 10.0 MiB/s | 113.0 KiB | 00m00s [143/153] libnghttp2-0:1.62.1-2.fc41.i6 100% | 8.1 MiB/s | 82.4 KiB | 00m00s [144/153] libpsl-0:0.21.5-4.fc41.i686 100% | 2.0 MiB/s | 64.7 KiB | 00m00s [145/153] libssh-0:0.10.6-8.fc41.i686 100% | 6.3 MiB/s | 226.7 KiB | 00m00s [146/153] openldap-0:2.6.8-5.fc41.i686 100% | 5.7 MiB/s | 272.3 KiB | 00m00s [147/153] publicsuffix-list-dafsa-0:202 100% | 4.7 MiB/s | 58.3 KiB | 00m00s [148/153] libssh-config-0:0.10.6-8.fc41 100% | 660.1 KiB/s | 9.2 KiB | 00m00s [149/153] cyrus-sasl-lib-0:2.1.28-27.fc 100% | 18.7 MiB/s | 860.0 KiB | 00m00s [150/153] libunistring-0:1.1-8.fc41.i68 100% | 4.5 MiB/s | 553.3 KiB | 00m00s [151/153] libevent-0:2.1.12-14.fc41.i68 100% | 14.2 MiB/s | 277.0 KiB | 00m00s [152/153] libtool-ltdl-0:2.4.7-12.fc41. 100% | 2.2 MiB/s | 37.7 KiB | 00m00s [153/153] gdb-minimal-0:15.1-1.fc41.i68 100% | 4.1 MiB/s | 4.7 MiB | 00m01s -------------------------------------------------------------------------------- [153/153] Total 100% | 25.0 MiB/s | 53.5 MiB | 00m02s Running transaction [ 1/155] Verify package files 100% | 772.0 B/s | 153.0 B | 00m00s [ 2/155] Prepare transaction 100% | 1.8 KiB/s | 153.0 B | 00m00s [ 3/155] Installing libssh-config-0:0. 100% | 796.9 KiB/s | 816.0 B | 00m00s [ 4/155] Installing publicsuffix-list- 100% | 66.7 MiB/s | 68.3 KiB | 00m00s [ 5/155] Installing fedora-release-ide 100% | 918.0 KiB/s | 940.0 B | 00m00s [ 6/155] Installing fedora-gpg-keys-0: 100% | 18.7 MiB/s | 172.2 KiB | 00m00s [ 7/155] Installing fedora-repos-0:41- 100% | 5.6 MiB/s | 5.7 KiB | 00m00s [ 8/155] Installing fedora-release-com 100% | 3.9 MiB/s | 23.7 KiB | 00m00s [ 9/155] Installing fedora-release-0:4 100% | 0.0 B/s | 124.0 B | 00m00s [ 10/155] Installing setup-0:2.15.0-5.f 100% | 47.3 MiB/s | 726.1 KiB | 00m00s [ 11/155] Installing filesystem-0:3.18- 100% | 1.3 MiB/s | 212.0 KiB | 00m00s [ 12/155] Installing basesystem-0:11-21 100% | 0.0 B/s | 124.0 B | 00m00s [ 13/155] Installing pkgconf-m4-0:2.3.0 100% | 0.0 B/s | 14.8 KiB | 00m00s [ 14/155] Installing pcre2-syntax-0:10. 100% | 124.1 MiB/s | 254.1 KiB | 00m00s [ 15/155] Installing ncurses-base-0:6.5 100% | 31.2 MiB/s | 351.7 KiB | 00m00s [ 16/155] Installing rust-srpm-macros-0 100% | 0.0 B/s | 5.6 KiB | 00m00s [ 17/155] Installing qt6-srpm-macros-0: 100% | 0.0 B/s | 732.0 B | 00m00s [ 18/155] Installing qt5-srpm-macros-0: 100% | 0.0 B/s | 776.0 B | 00m00s [ 19/155] Installing perl-srpm-macros-0 100% | 0.0 B/s | 1.1 KiB | 00m00s [ 20/155] Installing package-notes-srpm 100% | 0.0 B/s | 2.0 KiB | 00m00s [ 21/155] Installing openblas-srpm-macr 100% | 0.0 B/s | 392.0 B | 00m00s [ 22/155] Installing ocaml-srpm-macros- 100% | 0.0 B/s | 2.2 KiB | 00m00s [ 23/155] Installing kernel-srpm-macros 100% | 0.0 B/s | 2.3 KiB | 00m00s [ 24/155] Installing gnat-srpm-macros-0 100% | 0.0 B/s | 1.3 KiB | 00m00s [ 25/155] Installing ghc-srpm-macros-0: 100% | 0.0 B/s | 1.0 KiB | 00m00s [ 26/155] Installing fpc-srpm-macros-0: 100% | 0.0 B/s | 420.0 B | 00m00s [ 27/155] Installing ansible-srpm-macro 100% | 3.2 MiB/s | 36.2 KiB | 00m00s [ 28/155] Installing coreutils-common-0 100% | 96.5 MiB/s | 11.2 MiB | 00m00s [ 29/155] Installing libgcc-0:14.2.1-3. 100% | 59.2 MiB/s | 303.4 KiB | 00m00s [ 30/155] Installing glibc-minimal-lang 100% | 0.0 B/s | 124.0 B | 00m00s [ 31/155] Installing ncurses-libs-0:6.5 100% | 136.4 MiB/s | 977.6 KiB | 00m00s warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead [ 32/155] Installing glibc-0:2.40-3.fc4 100% | 90.5 MiB/s | 5.5 MiB | 00m00s [ 33/155] Installing bash-0:5.2.32-1.fc 100% | 162.8 MiB/s | 8.3 MiB | 00m00s [ 34/155] Installing glibc-common-0:2.4 100% | 104.1 MiB/s | 1.0 MiB | 00m00s warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead [ 35/155] Installing glibc-gconv-extra- 100% | 81.1 MiB/s | 7.5 MiB | 00m00s [ 36/155] Installing zlib-ng-compat-0:2 100% | 48.9 MiB/s | 150.2 KiB | 00m00s [ 37/155] Installing bzip2-libs-0:1.0.8 100% | 75.3 MiB/s | 77.1 KiB | 00m00s [ 38/155] Installing xz-libs-1:5.6.2-2. 100% | 112.7 MiB/s | 230.9 KiB | 00m00s [ 39/155] Installing readline-0:8.2-10. 100% | 152.2 MiB/s | 467.6 KiB | 00m00s [ 40/155] Installing popt-0:1.19-7.fc41 100% | 27.8 MiB/s | 142.6 KiB | 00m00s [ 41/155] Installing libuuid-0:2.40.2-4 100% | 44.6 MiB/s | 45.7 KiB | 00m00s [ 42/155] Installing libblkid-0:2.40.2- 100% | 69.9 MiB/s | 286.5 KiB | 00m00s [ 43/155] Installing gmp-1:6.3.0-2.fc41 100% | 180.8 MiB/s | 740.7 KiB | 00m00s [ 44/155] Installing libattr-0:2.5.2-4. 100% | 24.1 MiB/s | 24.7 KiB | 00m00s [ 45/155] Installing libacl-0:2.3.2-2.f 100% | 39.2 MiB/s | 40.1 KiB | 00m00s [ 46/155] Installing libxcrypt-0:4.4.36 100% | 45.7 MiB/s | 280.9 KiB | 00m00s [ 47/155] Installing libstdc++-0:14.2.1 100% | 175.4 MiB/s | 2.8 MiB | 00m00s [ 48/155] Installing libzstd-0:1.5.6-2. 100% | 142.3 MiB/s | 728.4 KiB | 00m00s [ 49/155] Installing elfutils-libelf-0: 100% | 235.3 MiB/s | 1.2 MiB | 00m00s [ 50/155] Installing libeconf-0:0.6.2-3 100% | 61.4 MiB/s | 62.9 KiB | 00m00s [ 51/155] Installing gdbm-libs-1:1.23-7 100% | 8.2 MiB/s | 126.3 KiB | 00m00s [ 52/155] Installing crypto-policies-0: 100% | 13.3 MiB/s | 163.3 KiB | 00m00s [ 53/155] Installing dwz-0:0.15-8.fc41. 100% | 161.2 MiB/s | 330.2 KiB | 00m00s [ 54/155] Installing mpfr-0:4.2.1-5.fc4 100% | 105.1 MiB/s | 968.2 KiB | 00m00s [ 55/155] Installing gawk-0:5.3.0-4.fc4 100% | 123.7 MiB/s | 1.7 MiB | 00m00s [ 56/155] Installing unzip-0:6.0-64.fc4 100% | 130.1 MiB/s | 399.8 KiB | 00m00s [ 57/155] Installing file-libs-0:5.45-7 100% | 99.5 MiB/s | 9.9 MiB | 00m00s [ 58/155] Installing file-0:5.45-7.fc41 100% | 46.9 MiB/s | 96.0 KiB | 00m00s [ 59/155] Installing pcre2-0:10.44-1.fc 100% | 107.7 MiB/s | 661.5 KiB | 00m00s [ 60/155] Installing grep-0:3.11-9.fc41 100% | 100.6 MiB/s | 1.0 MiB | 00m00s [ 61/155] Installing xz-1:5.6.2-2.fc41. 100% | 92.9 MiB/s | 1.2 MiB | 00m00s [ 62/155] Installing libsmartcols-0:2.4 100% | 176.6 MiB/s | 180.9 KiB | 00m00s [ 63/155] Installing alternatives-0:1.3 100% | 65.4 MiB/s | 67.0 KiB | 00m00s [ 64/155] Installing lz4-libs-0:1.10.0- 100% | 28.5 MiB/s | 145.9 KiB | 00m00s [ 65/155] Installing lua-libs-0:5.4.6-6 100% | 151.3 MiB/s | 309.8 KiB | 00m00s [ 66/155] Installing libffi-0:3.4.6-3.f 100% | 81.0 MiB/s | 82.9 KiB | 00m00s [ 67/155] Installing libcom_err-0:1.47. 100% | 58.2 MiB/s | 59.6 KiB | 00m00s [ 68/155] Installing libtasn1-0:4.19.0- 100% | 88.3 MiB/s | 180.8 KiB | 00m00s [ 69/155] Installing p11-kit-0:0.25.5-3 100% | 116.6 MiB/s | 2.3 MiB | 00m00s [ 70/155] Installing libsepol-0:3.7-2.f 100% | 213.5 MiB/s | 874.4 KiB | 00m00s [ 71/155] Installing libselinux-0:3.7-7 100% | 96.4 MiB/s | 197.5 KiB | 00m00s [ 72/155] Installing sed-0:4.9-3.fc41.i 100% | 49.9 MiB/s | 868.8 KiB | 00m00s [ 73/155] Installing findutils-1:4.10.0 100% | 144.6 MiB/s | 1.9 MiB | 00m00s [ 74/155] Installing libmount-0:2.40.2- 100% | 189.5 MiB/s | 388.1 KiB | 00m00s [ 75/155] Installing libcap-ng-0:0.8.5- 100% | 71.7 MiB/s | 73.5 KiB | 00m00s [ 76/155] Installing audit-libs-0:4.0.2 100% | 28.0 MiB/s | 343.9 KiB | 00m00s [ 77/155] Installing pam-libs-0:1.6.1-5 100% | 66.0 MiB/s | 135.1 KiB | 00m00s [ 78/155] Installing libcap-0:2.70-4.fc 100% | 51.3 MiB/s | 210.0 KiB | 00m00s [ 79/155] Installing systemd-libs-0:256 100% | 168.4 MiB/s | 2.0 MiB | 00m00s [ 80/155] Installing libunistring-0:1.1 100% | 173.4 MiB/s | 1.7 MiB | 00m00s [ 81/155] Installing elfutils-default-y 100% | 170.2 KiB/s | 2.0 KiB | 00m00s [ 82/155] Installing elfutils-libs-0:0. 100% | 114.4 MiB/s | 702.6 KiB | 00m00s [ 83/155] Installing libidn2-0:2.3.7-2. 100% | 64.5 MiB/s | 330.3 KiB | 00m00s [ 84/155] Installing libpsl-0:0.21.5-4. 100% | 75.1 MiB/s | 76.9 KiB | 00m00s [ 85/155] Installing util-linux-core-0: 100% | 77.0 MiB/s | 1.4 MiB | 00m00s [ 86/155] Installing libsemanage-0:3.7- 100% | 102.1 MiB/s | 313.8 KiB | 00m00s [ 87/155] Installing shadow-utils-2:4.1 100% | 62.2 MiB/s | 4.0 MiB | 00m00s [ 88/155] Installing libutempter-0:1.2. 100% | 28.4 MiB/s | 58.1 KiB | 00m00s [ 89/155] Installing tar-2:1.35-4.fc41. 100% | 130.4 MiB/s | 3.0 MiB | 00m00s [ 90/155] Installing p11-kit-trust-0:0. 100% | 20.9 MiB/s | 363.2 KiB | 00m00s [ 91/155] Installing openssl-libs-1:3.2 100% | 118.7 MiB/s | 6.3 MiB | 00m00s [ 92/155] Installing coreutils-0:9.5-10 100% | 94.2 MiB/s | 5.7 MiB | 00m00s [ 93/155] Installing ca-certificates-0: 100% | 1.8 MiB/s | 2.4 MiB | 00m01s [ 94/155] Installing gzip-0:1.13-2.fc41 100% | 96.1 MiB/s | 393.6 KiB | 00m00s [ 95/155] Installing authselect-libs-0: 100% | 34.2 MiB/s | 840.3 KiB | 00m00s [ 96/155] Installing cracklib-0:2.9.11- 100% | 30.2 MiB/s | 247.1 KiB | 00m00s [ 97/155] Installing libpwquality-0:1.4 100% | 45.9 MiB/s | 423.0 KiB | 00m00s [ 98/155] Installing rpm-sequoia-0:1.7. 100% | 75.0 MiB/s | 2.6 MiB | 00m00s [ 99/155] Installing libevent-0:2.1.12- 100% | 186.7 MiB/s | 955.9 KiB | 00m00s [100/155] Installing zstd-0:1.5.6-2.fc4 100% | 195.4 MiB/s | 1.6 MiB | 00m00s [101/155] Installing zip-0:3.0-41.fc41. 100% | 49.6 MiB/s | 711.0 KiB | 00m00s [102/155] Installing gdbm-1:1.23-7.fc41 100% | 88.8 MiB/s | 454.7 KiB | 00m00s [103/155] Installing cyrus-sasl-lib-0:2 100% | 70.9 MiB/s | 2.5 MiB | 00m00s [104/155] Installing libfdisk-0:2.40.2- 100% | 133.9 MiB/s | 411.5 KiB | 00m00s [105/155] Installing libxml2-0:2.12.8-2 100% | 113.2 MiB/s | 1.8 MiB | 00m00s [106/155] Installing libarchive-0:3.7.4 100% | 194.6 MiB/s | 996.4 KiB | 00m00s [107/155] Installing bzip2-0:1.0.8-19.f 100% | 32.0 MiB/s | 98.4 KiB | 00m00s [108/155] Installing add-determinism-0: 100% | 121.8 MiB/s | 2.1 MiB | 00m00s [109/155] Installing build-reproducibil 100% | 0.0 B/s | 1.0 KiB | 00m00s [110/155] Installing sqlite-libs-0:3.46 100% | 187.5 MiB/s | 1.5 MiB | 00m00s [111/155] Installing rpm-libs-0:4.20.0- 100% | 188.1 MiB/s | 770.4 KiB | 00m00s [112/155] Installing ed-0:1.20.2-2.fc41 100% | 70.3 MiB/s | 144.0 KiB | 00m00s [113/155] Installing patch-0:2.7.6-25.f 100% | 97.5 MiB/s | 299.5 KiB | 00m00s [114/155] Installing cpio-0:2.15-2.fc41 100% | 122.8 MiB/s | 1.1 MiB | 00m00s [115/155] Installing diffutils-0:3.10-8 100% | 75.9 MiB/s | 1.6 MiB | 00m00s [116/155] Installing jansson-0:2.13.1-1 100% | 43.4 MiB/s | 89.0 KiB | 00m00s [117/155] Installing libgomp-0:14.2.1-3 100% | 39.4 MiB/s | 523.9 KiB | 00m00s [118/155] Installing rpm-build-libs-0:4 100% | 102.6 MiB/s | 210.2 KiB | 00m00s [119/155] Installing libpkgconf-0:2.3.0 100% | 79.9 MiB/s | 81.8 KiB | 00m00s [120/155] Installing pkgconf-0:2.3.0-1. 100% | 43.7 MiB/s | 89.5 KiB | 00m00s [121/155] Installing pkgconf-pkg-config 100% | 1.7 MiB/s | 1.8 KiB | 00m00s [122/155] Installing keyutils-libs-0:1. 100% | 57.7 MiB/s | 59.1 KiB | 00m00s [123/155] Installing libverto-0:0.3.2-9 100% | 9.9 MiB/s | 30.6 KiB | 00m00s [124/155] Installing krb5-libs-0:1.21.3 100% | 146.0 MiB/s | 2.3 MiB | 00m00s [125/155] Installing libtirpc-0:1.3.5-0 100% | 105.3 MiB/s | 215.6 KiB | 00m00s [126/155] Installing libnsl2-0:2.0.1-2. 100% | 28.4 MiB/s | 58.3 KiB | 00m00s [127/155] Installing pam-0:1.6.1-5.fc41 100% | 58.4 MiB/s | 1.8 MiB | 00m00s [128/155] Installing libssh-0:0.10.6-8. 100% | 178.8 MiB/s | 549.4 KiB | 00m00s [129/155] Installing xxhash-libs-0:0.8. 100% | 114.5 MiB/s | 117.2 KiB | 00m00s [130/155] Installing libbrotli-0:1.1.0- 100% | 84.2 MiB/s | 861.8 KiB | 00m00s [131/155] Installing libnghttp2-0:1.62. 100% | 85.3 MiB/s | 174.6 KiB | 00m00s [132/155] Installing libtool-ltdl-0:2.4 100% | 68.9 MiB/s | 70.6 KiB | 00m00s [133/155] Installing openldap-0:2.6.8-5 100% | 110.9 MiB/s | 681.5 KiB | 00m00s [134/155] Installing libcurl-0:8.9.1-2. 100% | 165.5 MiB/s | 847.2 KiB | 00m00s [135/155] Installing elfutils-debuginfo 100% | 28.0 MiB/s | 57.3 KiB | 00m00s [136/155] Installing binutils-0:2.43.1- 100% | 141.3 MiB/s | 25.4 MiB | 00m00s [137/155] Installing elfutils-0:0.191-8 100% | 158.8 MiB/s | 2.5 MiB | 00m00s [138/155] Installing gdb-minimal-0:15.1 100% | 130.7 MiB/s | 13.6 MiB | 00m00s [139/155] Installing debugedit-0:5.0-17 100% | 95.5 MiB/s | 195.6 KiB | 00m00s [140/155] Installing curl-0:8.9.1-2.fc4 100% | 34.0 MiB/s | 801.9 KiB | 00m00s [141/155] Installing rpm-0:4.20.0-1.fc4 100% | 59.2 MiB/s | 2.5 MiB | 00m00s [142/155] Installing efi-srpm-macros-0: 100% | 40.2 MiB/s | 41.2 KiB | 00m00s [143/155] Installing lua-srpm-macros-0: 100% | 1.9 MiB/s | 1.9 KiB | 00m00s [144/155] Installing zig-srpm-macros-0: 100% | 1.6 MiB/s | 1.7 KiB | 00m00s [145/155] Installing fonts-srpm-macros- 100% | 55.7 MiB/s | 57.0 KiB | 00m00s [146/155] Installing forge-srpm-macros- 100% | 39.4 MiB/s | 40.4 KiB | 00m00s [147/155] Installing go-srpm-macros-0:3 100% | 60.5 MiB/s | 62.0 KiB | 00m00s [148/155] Installing python-srpm-macros 100% | 17.0 MiB/s | 52.2 KiB | 00m00s [149/155] Installing redhat-rpm-config- 100% | 46.4 MiB/s | 190.1 KiB | 00m00s [150/155] Installing rpm-build-0:4.20.0 100% | 45.6 MiB/s | 186.9 KiB | 00m00s [151/155] Installing pyproject-srpm-mac 100% | 2.4 MiB/s | 2.5 KiB | 00m00s [152/155] Installing util-linux-0:2.40. 100% | 61.9 MiB/s | 3.5 MiB | 00m00s [153/155] Installing authselect-0:1.5.0 100% | 40.3 MiB/s | 165.0 KiB | 00m00s [154/155] Installing which-0:2.21-42.fc 100% | 39.6 MiB/s | 81.1 KiB | 00m00s warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead [155/155] Installing info-0:7.1-3.fc41. 100% | 214.1 KiB/s | 360.8 KiB | 00m02s Warning: skipped PGP checks for 153 packages from repositories: copr_base, local Complete! Finish: installing minimal buildroot with dnf5 Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: add-determinism-0.3.6-1.fc41.i686 alternatives-1.30-1.fc41.i686 ansible-srpm-macros-1-16.fc41.noarch audit-libs-4.0.2-1.fc41.i686 authselect-1.5.0-8.fc41.i686 authselect-libs-1.5.0-8.fc41.i686 basesystem-11-21.fc41.noarch bash-5.2.32-1.fc41.i686 binutils-2.43.1-2.fc41.i686 build-reproducibility-srpm-macros-0.3.6-1.fc41.noarch bzip2-1.0.8-19.fc41.i686 bzip2-libs-1.0.8-19.fc41.i686 ca-certificates-2024.2.69_v8.0.401-1.0.fc41.noarch coreutils-9.5-10.fc41.i686 coreutils-common-9.5-10.fc41.i686 cpio-2.15-2.fc41.i686 cracklib-2.9.11-6.fc41.i686 crypto-policies-20241010-1.git8baf557.fc41.noarch curl-8.9.1-2.fc41.i686 cyrus-sasl-lib-2.1.28-27.fc41.i686 debugedit-5.0-17.fc41.i686 diffutils-3.10-8.fc41.i686 dwz-0.15-8.fc41.i686 ed-1.20.2-2.fc41.i686 efi-srpm-macros-5-12.fc41.noarch elfutils-0.191-8.fc41.i686 elfutils-debuginfod-client-0.191-8.fc41.i686 elfutils-default-yama-scope-0.191-8.fc41.noarch elfutils-libelf-0.191-8.fc41.i686 elfutils-libs-0.191-8.fc41.i686 fedora-gpg-keys-41-0.5.noarch fedora-release-41-0.21.noarch fedora-release-common-41-0.21.noarch fedora-release-identity-basic-41-0.21.noarch fedora-repos-41-0.5.noarch file-5.45-7.fc41.i686 file-libs-5.45-7.fc41.i686 filesystem-3.18-23.fc41.i686 findutils-4.10.0-4.fc41.i686 fonts-srpm-macros-2.0.5-17.fc41.noarch forge-srpm-macros-0.3.2-1.fc41.noarch fpc-srpm-macros-1.3-13.fc41.noarch gawk-5.3.0-4.fc41.i686 gdb-minimal-15.1-1.fc41.i686 gdbm-1.23-7.fc41.i686 gdbm-libs-1.23-7.fc41.i686 ghc-srpm-macros-1.9.1-2.fc41.noarch glibc-2.40-3.fc41.i686 glibc-common-2.40-3.fc41.i686 glibc-gconv-extra-2.40-3.fc41.i686 glibc-minimal-langpack-2.40-3.fc41.i686 gmp-6.3.0-2.fc41.i686 gnat-srpm-macros-6-6.fc41.noarch go-srpm-macros-3.6.0-3.fc41.noarch grep-3.11-9.fc41.i686 gzip-1.13-2.fc41.i686 info-7.1-3.fc41.i686 jansson-2.13.1-10.fc41.i686 kernel-srpm-macros-1.0-24.fc41.noarch keyutils-libs-1.6.3-4.fc41.i686 krb5-libs-1.21.3-2.fc41.i686 libacl-2.3.2-2.fc41.i686 libarchive-3.7.4-3.fc41.i686 libattr-2.5.2-4.fc41.i686 libblkid-2.40.2-4.fc41.i686 libbrotli-1.1.0-5.fc41.i686 libcap-2.70-4.fc41.i686 libcap-ng-0.8.5-3.fc41.i686 libcom_err-1.47.1-3.fc41.i686 libcurl-8.9.1-2.fc41.i686 libeconf-0.6.2-3.fc41.i686 libevent-2.1.12-14.fc41.i686 libfdisk-2.40.2-4.fc41.i686 libffi-3.4.6-3.fc41.i686 libgcc-14.2.1-3.fc41.i686 libgomp-14.2.1-3.fc41.i686 libidn2-2.3.7-2.fc41.i686 libmount-2.40.2-4.fc41.i686 libnghttp2-1.62.1-2.fc41.i686 libnsl2-2.0.1-2.fc41.i686 libpkgconf-2.3.0-1.fc41.i686 libpsl-0.21.5-4.fc41.i686 libpwquality-1.4.5-11.fc41.i686 libselinux-3.7-7.fc41.i686 libsemanage-3.7-4.fc41.i686 libsepol-3.7-2.fc41.i686 libsmartcols-2.40.2-4.fc41.i686 libssh-0.10.6-8.fc41.i686 libssh-config-0.10.6-8.fc41.noarch libstdc++-14.2.1-3.fc41.i686 libtasn1-4.19.0-9.fc41.i686 libtirpc-1.3.5-0.fc41.i686 libtool-ltdl-2.4.7-12.fc41.i686 libunistring-1.1-8.fc41.i686 libutempter-1.2.1-15.fc41.i686 libuuid-2.40.2-4.fc41.i686 libverto-0.3.2-9.fc41.i686 libxcrypt-4.4.36-7.fc41.i686 libxml2-2.12.8-2.fc41.i686 libzstd-1.5.6-2.fc41.i686 lua-libs-5.4.6-6.fc41.i686 lua-srpm-macros-1-14.fc41.noarch lz4-libs-1.10.0-1.fc41.i686 mpfr-4.2.1-5.fc41.i686 ncurses-base-6.5-2.20240629.fc41.noarch ncurses-libs-6.5-2.20240629.fc41.i686 ocaml-srpm-macros-10-3.fc41.noarch openblas-srpm-macros-2-18.fc41.noarch openldap-2.6.8-5.fc41.i686 openssl-libs-3.2.2-9.fc41.i686 p11-kit-0.25.5-3.fc41.i686 p11-kit-trust-0.25.5-3.fc41.i686 package-notes-srpm-macros-0.5-12.fc41.noarch pam-1.6.1-5.fc41.i686 pam-libs-1.6.1-5.fc41.i686 patch-2.7.6-25.fc41.i686 pcre2-10.44-1.fc41.1.i686 pcre2-syntax-10.44-1.fc41.1.noarch perl-srpm-macros-1-56.fc41.noarch pkgconf-2.3.0-1.fc41.i686 pkgconf-m4-2.3.0-1.fc41.noarch pkgconf-pkg-config-2.3.0-1.fc41.i686 popt-1.19-7.fc41.i686 publicsuffix-list-dafsa-20240107-4.fc41.noarch pyproject-srpm-macros-1.15.1-1.fc41.noarch python-srpm-macros-3.13-3.fc41.noarch qt5-srpm-macros-5.15.15-1.fc41.noarch qt6-srpm-macros-6.7.2-3.fc41.noarch readline-8.2-10.fc41.i686 redhat-rpm-config-293-1.fc41.noarch rpm-4.20.0-1.fc41.i686 rpm-build-4.20.0-1.fc41.i686 rpm-build-libs-4.20.0-1.fc41.i686 rpm-libs-4.20.0-1.fc41.i686 rpm-sequoia-1.7.0-2.fc41.i686 rust-srpm-macros-26.3-3.fc41.noarch sed-4.9-3.fc41.i686 setup-2.15.0-5.fc41.noarch shadow-utils-4.15.1-12.fc41.i686 sqlite-libs-3.46.1-1.fc41.i686 systemd-libs-256.7-1.fc41.i686 tar-1.35-4.fc41.i686 unzip-6.0-64.fc41.i686 util-linux-2.40.2-4.fc41.i686 util-linux-core-2.40.2-4.fc41.i686 which-2.21-42.fc41.i686 xxhash-libs-0.8.2-4.fc41.i686 xz-5.6.2-2.fc41.i686 xz-libs-5.6.2-2.fc41.i686 zig-srpm-macros-1-3.fc41.noarch zip-3.0-41.fc41.i686 zlib-ng-compat-2.1.7-3.fc41.i686 zstd-1.5.6-2.fc41.i686 Start: buildsrpm Start: rpmbuild -bs Building target platforms: i686 Building for target i686 setting SOURCE_DATE_EPOCH=1721174400 Wrote: /builddir/build/SRPMS/apbs-3.0.0-25.fc41.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-41-i686-1729091030.758461/root/var/log/dnf5.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-omh2598f/apbs/apbs.spec) Config(child) 0 minutes 32 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot INFO: Start(/var/lib/copr-rpmbuild/results/apbs-3.0.0-25.fc41.src.rpm) Config(fedora-41-i686) Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-41-i686-bootstrap-1729091030.758461/root. INFO: reusing tmpfs at /var/lib/mock/fedora-41-i686-bootstrap-1729091030.758461/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-41-i686-1729091030.758461/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.20.0-1.fc41.x86_64 rpm-sequoia-1.7.0-2.fc41.x86_64 dnf5-5.2.6.2-1.fc41.x86_64 dnf5-plugins-5.2.6.2-1.fc41.x86_64 Finish: chroot init Start: build phase for apbs-3.0.0-25.fc41.src.rpm Start: build setup for apbs-3.0.0-25.fc41.src.rpm Building target platforms: i686 Building for target i686 setting SOURCE_DATE_EPOCH=1721174400 Wrote: /builddir/build/SRPMS/apbs-3.0.0-25.fc41.src.rpm Updating and loading repositories: Copr repository 100% | 26.4 KiB/s | 1.5 KiB | 00m00s local 100% | 102.8 KiB/s | 3.5 KiB | 00m00s Repositories loaded. Package Arch Version Repository Size Installing: chrpath i686 0.16-24.fc41 local 53.6 KiB cmake i686 3.28.3-7.fc41 local 32.4 MiB doxygen i686 2:1.12.0-1.fc41 local 19.4 MiB gcc-c++ i686 14.2.1-3.fc41 local 38.9 MiB graphviz i686 12.1.2-1.fc41 copr_base 21.3 MiB make i686 1:4.4.1-8.fc41 local 1.8 MiB maloc-devel i686 1.5-31.fc41 local 3.1 MiB python3-devel i686 3.13.0-1.fc41 local 1.8 MiB python3-numpy i686 1:1.26.4-8.fc41 local 36.6 MiB python3-sphinx noarch 1:7.3.7-2.fc41 local 10.8 MiB swig i686 4.3.0-1.fc41 copr_base 6.3 MiB texlive-adjustbox noarch 11:svn64967-73.fc41 local 104.1 KiB texlive-collection-latexrecommended noarch 11:svn65512-73.fc41 local 0.0 B texlive-etoc noarch 11:svn66299-73.fc41 local 87.0 KiB texlive-hanging noarch 11:svn15878.1.2b-73.fc41 local 23.0 KiB texlive-multirow noarch 11:svn58396-73.fc41 local 17.8 KiB texlive-newunicodechar noarch 11:svn47382-73.fc41 local 22.7 KiB texlive-sectsty noarch 11:svn15878.2.0.2-73.fc41 local 30.8 KiB texlive-stackengine noarch 11:svn60019-73.fc41 local 34.7 KiB texlive-tocloft noarch 11:svn53364-73.fc41 local 53.9 KiB texlive-ulem noarch 11:svn53365-73.fc41 local 15.3 KiB texlive-wasy noarch 11:svn53533-73.fc41 local 137.7 KiB texlive-wasysym noarch 11:svn54080-73.fc41 local 23.9 KiB zlib-ng-compat-devel i686 2.1.7-3.fc41 local 106.7 KiB Installing dependencies: abattis-cantarell-vf-fonts noarch 0.301-13.fc41 local 192.7 KiB adobe-mappings-cmap noarch 20230622-4.fc41 local 14.4 MiB adobe-mappings-cmap-deprecated noarch 20230622-4.fc41 local 582.1 KiB adobe-mappings-pdf noarch 20190401-8.fc41 local 4.4 MiB annobin-docs noarch 12.69-1.fc41 local 97.7 KiB annobin-plugin-gcc i686 12.69-1.fc41 local 984.1 KiB avahi-libs i686 0.8-29.fc41 local 183.6 KiB biber noarch 2.19-6.fc41 local 1.3 MiB cairo i686 1.18.0-4.fc41 local 1.8 MiB cairo-gobject i686 1.18.0-4.fc41 local 30.5 KiB cmake-data noarch 3.28.3-7.fc41 local 8.0 MiB cmake-filesystem i686 3.28.3-7.fc41 local 0.0 B cmake-rpm-macros noarch 3.28.3-7.fc41 local 7.5 KiB cpp i686 14.2.1-3.fc41 local 35.6 MiB cups-libs i686 1:2.4.11-1.fc41 local 677.7 KiB dbus-libs i686 1:1.14.10-4.fc41 local 396.4 KiB default-fonts-core-sans noarch 4.1-2.fc41 local 11.9 KiB emacs-filesystem noarch 1:30.0-3.fc41 local 0.0 B expat i686 2.6.3-1.fc41 local 294.0 KiB flexiblas i686 3.4.4-3.fc41 local 48.5 KiB flexiblas-netlib i686 3.4.4-3.fc41 local 11.5 MiB flexiblas-openblas-openmp i686 3.4.4-3.fc41 local 30.6 KiB fontconfig i686 2.15.0-8.fc41 local 779.2 KiB fonts-filesystem noarch 1:2.0.5-17.fc41 local 0.0 B freetype i686 2.13.3-1.fc41 local 854.4 KiB fribidi i686 1.0.15-2.fc41 local 366.4 KiB gcc i686 14.2.1-3.fc41 local 101.9 MiB gcc-plugin-annobin i686 14.2.1-3.fc41 local 55.8 KiB gd i686 2.3.3-17.fc41 local 409.1 KiB gdk-pixbuf2 i686 2.42.12-6.fc41 local 2.5 MiB ghostscript i686 10.03.1-3.fc41 local 34.0 KiB ghostscript-tools-fonts noarch 10.03.1-3.fc41 local 2.5 KiB ghostscript-tools-printing noarch 10.03.1-3.fc41 local 3.5 KiB glib2 i686 2.82.1-1.fc41 local 15.1 MiB glibc-devel i686 2.40-3.fc41 local 29.0 KiB glibc-headers-x86 noarch 2.40-3.fc41 local 2.2 MiB gnupg2 i686 2.4.5-3.fc41 local 9.7 MiB gnutls i686 3.8.6-7.fc41 local 3.4 MiB google-droid-sans-fonts noarch 20200215-21.fc41 local 6.3 MiB google-noto-fonts-common noarch 20240701-2.fc41 local 17.5 KiB google-noto-sans-vf-fonts noarch 20240701-2.fc41 local 1.2 MiB gpgme i686 1.23.2-5.fc41 copr_base 615.0 KiB gpgmepp i686 1.23.2-5.fc41 copr_base 411.5 KiB graphite2 i686 1.3.14-16.fc41 local 194.5 KiB graphviz-libs i686 12.1.2-1.fc41 copr_base 1.3 MiB groff-base i686 1.23.0-7.fc41 local 3.8 MiB gts i686 0.7.6-49.20121130.fc41 local 668.1 KiB harfbuzz i686 9.0.0-3.fc41 local 2.7 MiB jbig2dec-libs i686 0.20-5.fc41 local 176.3 KiB jbigkit-libs i686 2.1-30.fc41 local 112.2 KiB json-c i686 0.17-4.fc41 local 89.6 KiB jsoncpp i686 1.9.5-8.fc41 local 252.8 KiB kernel-headers i686 6.11.3-300.fc41 local 6.4 MiB lasi i686 1.1.3-14.fc41 local 126.0 KiB lcms2 i686 2.16-4.fc41 local 463.2 KiB libICE i686 1.1.1-4.fc41 local 184.2 KiB libSM i686 1.2.4-4.fc41 local 96.5 KiB libX11 i686 1.8.10-2.fc41 local 1.3 MiB libX11-common noarch 1.8.10-2.fc41 local 1.1 MiB libXau i686 1.0.11-7.fc41 local 62.2 KiB libXaw i686 1.0.16-2.fc41 local 469.1 KiB libXext i686 1.3.6-2.fc41 local 97.0 KiB libXft i686 2.3.8-7.fc41 local 167.6 KiB libXi i686 1.8.2-1.fc41 local 83.9 KiB libXmu i686 1.2.1-2.fc41 local 197.5 KiB libXpm i686 3.5.17-4.fc41 local 151.7 KiB libXrender i686 0.9.11-7.fc41 local 53.3 KiB libXt i686 1.3.0-4.fc41 local 435.6 KiB libaom i686 3.9.0-3.fc41 local 3.6 MiB libasan i686 14.2.1-3.fc41 local 1.7 MiB libassuan i686 2.5.7-2.fc41 local 167.1 KiB libatomic i686 14.2.1-3.fc41 local 27.5 KiB libavif i686 1.0.4-7.fc41 local 191.2 KiB libb2 i686 0.98.1-12.fc41 local 53.4 KiB libdatrie i686 0.2.13-10.fc41 local 57.2 KiB libdav1d i686 1.4.3-2.fc41 local 1.0 MiB libgcrypt i686 1.11.0-3.fc41 local 1.2 MiB libgfortran i686 14.2.1-3.fc41 local 2.9 MiB libgpg-error i686 1.50-2.fc41 local 887.9 KiB libgs i686 10.03.1-3.fc41 local 22.7 MiB libicu i686 74.2-2.fc41 local 35.3 MiB libijs i686 0.35-23.fc41 local 60.8 KiB libimagequant i686 4.0.3-5.fc41 local 678.2 KiB libjpeg-turbo i686 3.0.2-3.fc41 local 840.9 KiB libksba i686 1.6.7-2.fc41 local 397.9 KiB liblerc i686 4.0.0-7.fc41 local 646.9 KiB libmpc i686 1.3.1-6.fc41 local 168.0 KiB libpaper i686 1:2.1.1-7.fc41 local 48.2 KiB libpng i686 2:1.6.40-4.fc41 local 257.2 KiB libquadmath i686 14.2.1-3.fc41 local 513.2 KiB librsvg2 i686 2.59.1-1.fc41 local 4.8 MiB libstdc++-devel i686 14.2.1-3.fc41 local 14.9 MiB libthai i686 0.1.29-9.fc41 local 782.8 KiB libtiff i686 4.6.0-6.fc41 local 644.8 KiB libubsan i686 14.2.1-3.fc41 local 538.6 KiB libuv i686 1:1.49.0-1.fc41 local 567.0 KiB libwebp i686 1.4.0-4.fc41 local 867.4 KiB libxcb i686 1.17.0-3.fc41 local 1.1 MiB libxcrypt-devel i686 4.4.36-7.fc41 local 30.3 KiB libxslt i686 1.1.42-2.fc41 local 508.9 KiB mailcap noarch 2.1.54-7.fc41 local 86.0 KiB maloc i686 1.5-31.fc41 local 306.0 KiB mpdecimal i686 2.5.1-16.fc41 local 204.1 KiB ncurses i686 6.5-2.20240629.fc41 local 613.4 KiB netpbm i686 11.02.00-7.fc41 local 583.4 KiB nettle i686 3.10-3.fc41 local 791.2 KiB npth i686 1.7-2.fc41 local 48.9 KiB nspr i686 4.35.0-29.fc41 local 337.2 KiB nss i686 3.104.0-1.fc41 local 2.0 MiB nss-softokn i686 3.104.0-1.fc41 local 2.1 MiB nss-softokn-freebl i686 3.104.0-1.fc41 local 837.8 KiB nss-sysinit i686 3.104.0-1.fc41 local 17.4 KiB nss-util i686 3.104.0-1.fc41 local 196.4 KiB openblas i686 0.3.26-5.fc41 local 96.0 KiB openblas-openmp i686 0.3.26-5.fc41 local 22.5 MiB openjpeg i686 2.5.2-4.fc41 local 473.1 KiB pango i686 1.54.0-2.fc41 local 1.0 MiB perl-Authen-SASL noarch 2.1700-4.fc41 local 116.6 KiB perl-AutoLoader noarch 5.74-511.fc41 local 20.5 KiB perl-B i686 1.89-511.fc41 local 505.3 KiB perl-B-Hooks-EndOfScope noarch 0.28-2.fc41 local 69.3 KiB perl-Business-ISBN noarch 3.009-5.fc41 local 53.7 KiB perl-Business-ISBN-Data noarch 20240930.001-1.fc41 local 286.5 KiB perl-Business-ISMN noarch 1.204-2.fc41 local 35.9 KiB perl-Business-ISSN noarch 1.005-12.fc41 local 20.8 KiB perl-Carp noarch 1.54-511.fc41 local 46.6 KiB perl-Class-Accessor noarch 0.51-21.fc41 local 40.8 KiB perl-Class-Data-Inheritable noarch 0.09-9.fc41 local 6.3 KiB perl-Class-Inspector noarch 1.36-17.fc41 local 57.5 KiB perl-Class-Method-Modifiers noarch 2.15-5.fc41 local 102.5 KiB perl-Class-Singleton noarch 1.6-12.fc41 local 39.7 KiB perl-Class-Struct noarch 0.68-511.fc41 local 25.4 KiB perl-Clone i686 0.47-1.fc41 local 27.8 KiB perl-Compress-Raw-Bzip2 i686 2.212-512.fc41 local 68.8 KiB perl-Compress-Raw-Zlib i686 2.212-512.fc41 local 169.8 KiB perl-Convert-ASN1 noarch 0.34-4.fc41 local 170.0 KiB perl-Data-Compare noarch 1.29-5.fc41 local 55.5 KiB perl-Data-Dump noarch 1.25-11.fc41 local 50.2 KiB perl-Data-Dumper i686 2.189-512.fc41 local 119.0 KiB perl-Data-OptList noarch 0.114-5.fc41 local 50.1 KiB perl-Data-Uniqid noarch 0.12-34.fc41 local 4.2 KiB perl-Date-ISO8601 noarch 0.005-21.fc41 local 24.5 KiB perl-Date-Manip noarch 6.95-2.fc41 local 10.9 MiB perl-DateTime i686 2:1.65-6.fc41 local 386.5 KiB perl-DateTime-Calendar-Julian noarch 0.107-8.fc41 local 32.8 KiB perl-DateTime-Format-Builder noarch 0.8300-14.fc41 local 202.3 KiB perl-DateTime-Format-Strptime noarch 1:1.79-11.fc41 local 96.3 KiB perl-DateTime-Locale noarch 1.43-1.fc41 local 22.3 MiB perl-DateTime-TimeZone noarch 2.63-1.fc41 local 6.0 MiB perl-DateTime-TimeZone-SystemV noarch 0.010-22.fc41 local 28.4 KiB perl-DateTime-TimeZone-Tzfile noarch 0.011-22.fc41 local 24.6 KiB perl-Devel-CallChecker i686 0.009-7.fc41 local 36.6 KiB perl-Devel-Caller i686 2.07-7.fc41 local 26.8 KiB perl-Devel-GlobalDestruction noarch 0.14-25.fc41 local 16.6 KiB perl-Devel-LexAlias i686 0.05-38.fc41 local 18.5 KiB perl-Devel-StackTrace noarch 1:2.05-4.fc41 local 48.9 KiB perl-Digest noarch 1.20-511.fc41 local 35.3 KiB perl-Digest-HMAC noarch 1.04-11.fc41 local 28.1 KiB perl-Digest-MD5 i686 2.59-5.fc41 local 59.1 KiB perl-Digest-SHA i686 1:6.04-512.fc41 local 115.9 KiB perl-Dist-CheckConflicts noarch 0.11-31.fc41 local 31.7 KiB perl-DynaLoader i686 1.56-511.fc41 local 32.1 KiB perl-DynaLoader-Functions noarch 0.004-5.fc41 local 19.7 KiB perl-Email-Date-Format noarch 1.008-5.fc41 local 24.8 KiB perl-Encode i686 4:3.21-511.fc41 local 3.3 MiB perl-Encode-Locale noarch 1.05-30.fc41 local 19.0 KiB perl-English noarch 1.11-511.fc41 local 6.2 KiB perl-Errno i686 1.38-511.fc41 local 8.4 KiB perl-Eval-Closure noarch 0.14-24.fc41 local 33.3 KiB perl-Exception-Class noarch 1.45-11.fc41 local 92.4 KiB perl-Exporter noarch 5.78-511.fc41 local 54.3 KiB perl-ExtUtils-MM-Utils noarch 2:7.70-512.fc41 local 2.9 KiB perl-Fcntl i686 1.18-511.fc41 local 44.3 KiB perl-File-Basename noarch 2.86-511.fc41 local 14.0 KiB perl-File-Compare noarch 1.100.800-511.fc41 local 5.6 KiB perl-File-Copy noarch 2.41-511.fc41 local 19.6 KiB perl-File-Find noarch 1.44-511.fc41 local 41.9 KiB perl-File-Find-Rule noarch 0.34-29.fc41 local 42.3 KiB perl-File-Listing noarch 6.16-4.fc41 local 41.2 KiB perl-File-Path noarch 2.18-511.fc41 local 63.5 KiB perl-File-ShareDir noarch 1.118-12.fc41 local 56.2 KiB perl-File-Slurper noarch 0.014-6.fc41 local 28.7 KiB perl-File-Temp noarch 1:0.231.100-511.fc41 local 162.3 KiB perl-File-stat noarch 1.14-511.fc41 local 12.5 KiB perl-FileHandle noarch 2.05-511.fc41 local 9.3 KiB perl-Filter i686 2:1.64-512.fc41 local 158.2 KiB perl-GSSAPI i686 0.28-47.fc41 local 136.1 KiB perl-Getopt-Long noarch 1:2.58-2.fc41 local 144.5 KiB perl-Getopt-Std noarch 1.14-511.fc41 local 11.2 KiB perl-HTML-Parser i686 3.83-1.fc41 local 285.1 KiB perl-HTML-Tagset noarch 3.24-2.fc41 local 18.7 KiB perl-HTTP-Cookies noarch 6.11-4.fc41 local 73.4 KiB perl-HTTP-Date noarch 6.06-5.fc41 local 41.2 KiB perl-HTTP-Message noarch 6.46-2.fc41 local 215.3 KiB perl-HTTP-Negotiate noarch 6.01-39.fc41 local 27.6 KiB perl-HTTP-Tiny noarch 0.088-512.fc41 local 152.2 KiB perl-Hash-Util-FieldHash i686 1.27-511.fc41 local 61.9 KiB perl-I18N-LangTags noarch 0.45-511.fc41 local 82.3 KiB perl-I18N-Langinfo i686 0.24-511.fc41 local 38.1 KiB perl-IO i686 1.55-511.fc41 local 146.4 KiB perl-IO-Compress noarch 2.212-512.fc41 local 1.0 MiB perl-IO-HTML noarch 1.004-13.fc41 local 45.2 KiB perl-IO-Socket-IP noarch 0.42-512.fc41 local 98.7 KiB perl-IO-Socket-SSL noarch 2.089-1.fc41 local 703.3 KiB perl-IO-String noarch 1.08-51.fc41 local 16.8 KiB perl-IPC-Cmd noarch 2:1.04-512.fc41 local 84.9 KiB perl-IPC-Open3 noarch 1.22-511.fc41 local 22.5 KiB perl-IPC-Run3 noarch 0.049-2.fc41 local 60.3 KiB perl-IPC-SysV i686 2.09-512.fc41 local 77.1 KiB perl-IPC-System-Simple noarch 1.30-14.fc41 local 71.7 KiB perl-JSON noarch 4.10-6.fc41 local 270.5 KiB perl-LDAP noarch 1:0.68-14.fc41 local 938.1 KiB perl-LWP-MediaTypes noarch 6.04-19.fc41 local 79.0 KiB perl-LWP-Protocol-https noarch 6.14-2.fc41 local 29.7 KiB perl-Lingua-Translit noarch 0.29-7.fc41 local 177.5 KiB perl-List-AllUtils noarch 0.19-13.fc41 local 134.3 KiB perl-List-SomeUtils noarch 0.59-6.fc41 local 107.2 KiB perl-List-UtilsBy noarch 0.12-10.fc41 local 55.8 KiB perl-Locale-Maketext noarch 1.33-512.fc41 local 171.3 KiB perl-Locale-Maketext-Simple noarch 1:0.21-511.fc41 local 12.8 KiB perl-Log-Dispatch noarch 2.71-5.fc41 local 143.0 KiB perl-Log-Dispatch-FileRotate noarch 1.38-10.fc41 local 52.6 KiB perl-Log-Log4perl noarch 1.57-6.fc41 local 879.3 KiB perl-MIME-Base32 noarch 1.303-21.fc41 local 30.7 KiB perl-MIME-Base64 i686 3.16-511.fc41 local 45.4 KiB perl-MIME-Charset noarch 1.013.1-6.fc41 local 104.4 KiB perl-MIME-Lite noarch 3.033-11.fc41 local 245.9 KiB perl-MIME-Types noarch 2.26-2.fc41 local 182.4 KiB perl-MRO-Compat noarch 0.15-10.fc41 local 43.0 KiB perl-Mail-Sender noarch 1:0.903-25.fc41 local 160.6 KiB perl-Mail-Sendmail noarch 0.80-21.fc41 local 65.0 KiB perl-MailTools noarch 2.21-17.fc41 local 203.6 KiB perl-Math-BigInt noarch 1:2.0030.03-3.fc41 local 957.7 KiB perl-Math-Complex noarch 1.62-511.fc41 local 85.0 KiB perl-Module-CoreList noarch 1:5.20240920-1.fc41 local 1.2 MiB perl-Module-Implementation noarch 0.09-40.fc41 local 24.7 KiB perl-Module-Load noarch 1:0.36-511.fc41 local 14.9 KiB perl-Module-Load-Conditional noarch 0.74-511.fc41 local 28.7 KiB perl-Module-Metadata noarch 1.000038-511.fc41 local 67.5 KiB perl-Module-Runtime noarch 0.016-23.fc41 local 30.4 KiB perl-Mozilla-CA noarch 20240730-1.fc41 local 9.8 KiB perl-NTLM noarch 1.09-39.fc41 local 31.2 KiB perl-Net-HTTP noarch 6.23-5.fc41 local 74.7 KiB perl-Net-SMTP-SSL noarch 1.04-25.fc41 local 4.2 KiB perl-Net-SSLeay i686 1.94-7.fc41 local 1.4 MiB perl-Number-Compare noarch 0.03-39.fc41 local 4.5 KiB perl-Opcode i686 1.65-511.fc41 local 51.8 KiB perl-POSIX i686 2.20-511.fc41 local 234.4 KiB perl-Package-Generator noarch 1.106-32.fc41 local 29.9 KiB perl-Package-Stash noarch 0.40-8.fc41 local 55.9 KiB perl-Package-Stash-XS i686 0.30-9.fc41 local 67.6 KiB perl-PadWalker i686 2.5-15.fc41 local 44.4 KiB perl-Params-Check noarch 1:0.38-511.fc41 local 27.6 KiB perl-Params-Classify i686 0.015-24.fc41 local 50.8 KiB perl-Params-Util i686 1.102-16.fc41 local 53.9 KiB perl-Params-Validate i686 1.31-9.fc41 local 156.3 KiB perl-Params-ValidationCompiler noarch 0.31-6.fc41 local 91.1 KiB perl-Parse-RecDescent noarch 1.967015-23.fc41 local 522.0 KiB perl-PathTools i686 3.91-511.fc41 local 175.3 KiB perl-Pod-Escapes noarch 1:1.07-511.fc41 local 24.9 KiB perl-Pod-Html noarch 1.35-511.fc41 local 42.2 KiB perl-Pod-Perldoc noarch 3.28.01-512.fc41 local 163.7 KiB perl-Pod-Simple noarch 1:3.45-511.fc41 local 560.9 KiB perl-Pod-Usage noarch 4:2.03-511.fc41 local 84.8 KiB perl-Ref-Util noarch 0.204-21.fc41 local 31.5 KiB perl-Ref-Util-XS i686 0.117-24.fc41 local 45.6 KiB perl-Regexp-Common noarch 2024080801-1.fc41 local 462.1 KiB perl-Role-Tiny noarch 2.002004-12.fc41 local 61.7 KiB perl-Safe noarch 2.46-511.fc41 local 30.6 KiB perl-Scalar-List-Utils i686 5:1.66-1.fc41 local 146.0 KiB perl-SelectSaver noarch 1.02-511.fc41 local 2.2 KiB perl-Socket i686 4:2.038-511.fc41 local 115.3 KiB perl-Sort-Key i686 1.33-32.fc41 local 81.2 KiB perl-Specio noarch 0.48-7.fc41 local 329.7 KiB perl-Storable i686 1:3.32-511.fc41 local 231.7 KiB perl-Sub-Exporter noarch 0.991-4.fc41 local 194.9 KiB perl-Sub-Exporter-Progressive noarch 0.001013-25.fc41 local 27.3 KiB perl-Sub-Identify i686 0.14-28.fc41 local 31.2 KiB perl-Sub-Install noarch 0.929-6.fc41 local 35.9 KiB perl-Symbol noarch 1.09-511.fc41 local 6.8 KiB perl-Sys-Hostname i686 1.25-511.fc41 local 19.2 KiB perl-Sys-Syslog i686 0.36-512.fc41 local 94.1 KiB perl-Term-ANSIColor noarch 5.01-512.fc41 local 97.5 KiB perl-Term-Cap noarch 1.18-511.fc41 local 29.3 KiB perl-Text-Balanced noarch 2.06-511.fc41 local 111.4 KiB perl-Text-BibTeX i686 0.89-7.fc41 local 514.0 KiB perl-Text-CSV noarch 2.04-2.fc41 local 348.1 KiB perl-Text-Glob noarch 0.11-24.fc41 local 8.4 KiB perl-Text-ParseWords noarch 3.31-511.fc41 local 13.6 KiB perl-Text-Roman noarch 3.5-28.fc41 local 33.1 KiB perl-Text-Soundex i686 3.05-32.fc41 local 50.2 KiB perl-Text-Tabs+Wrap noarch 2024.001-511.fc41 local 22.6 KiB perl-Text-Unidecode noarch 1.30-25.fc41 local 448.7 KiB perl-Tie noarch 4.6-511.fc41 local 32.0 KiB perl-Tie-Cycle noarch 1.228-3.fc41 local 23.1 KiB perl-Tie-RefHash noarch 1.41-1.fc41 local 35.9 KiB perl-Time-HiRes i686 4:1.9777-511.fc41 local 119.2 KiB perl-Time-Local noarch 2:1.350-511.fc41 local 69.0 KiB perl-TimeDate noarch 1:2.33-15.fc41 local 95.2 KiB perl-Try-Tiny noarch 0.32-1.fc41 local 67.3 KiB perl-URI noarch 5.30-1.fc41 local 256.9 KiB perl-Unicode-Collate i686 1.31-511.fc41 local 4.0 MiB perl-Unicode-LineBreak i686 2019.001-22.fc41 local 267.9 KiB perl-Unicode-Normalize i686 1.32-511.fc41 local 323.5 KiB perl-Unicode-UCD noarch 0.78-511.fc41 local 204.4 KiB perl-Variable-Magic i686 0.64-3.fc41 local 121.8 KiB perl-WWW-RobotRules noarch 6.02-40.fc41 local 24.3 KiB perl-XML-LibXML i686 1:2.0210-3.fc41 local 972.2 KiB perl-XML-LibXML-Simple noarch 1.01-15.fc41 local 50.8 KiB perl-XML-LibXSLT i686 2.003.000-2.fc41 local 140.6 KiB perl-XML-NamespaceSupport noarch 1.12-24.fc41 local 44.7 KiB perl-XML-Parser i686 2.47-5.fc41 local 656.6 KiB perl-XML-SAX noarch 1.02-17.fc41 local 120.2 KiB perl-XML-SAX-Base noarch 1.09-24.fc41 local 172.7 KiB perl-XML-Writer noarch 0.900-15.fc41 local 65.8 KiB perl-XML-XPath noarch 1.48-7.fc41 local 202.3 KiB perl-XString i686 0.005-14.fc41 local 36.3 KiB perl-autodie noarch 2.37-512.fc41 local 214.9 KiB perl-autovivification i686 0.18-24.fc41 local 61.3 KiB perl-base noarch 2.27-511.fc41 local 12.5 KiB perl-constant noarch 1.33-512.fc41 local 26.2 KiB perl-deprecate noarch 0.04-511.fc41 local 6.5 KiB perl-encoding i686 4:3.00-511.fc41 local 149.5 KiB perl-if noarch 0.61.000-511.fc41 local 5.8 KiB perl-interpreter i686 4:5.40.0-511.fc41 local 121.5 KiB perl-libnet noarch 3.15-512.fc41 local 289.4 KiB perl-libs i686 4:5.40.0-511.fc41 local 10.1 MiB perl-libwww-perl noarch 6.77-2.fc41 local 521.0 KiB perl-locale noarch 1.12-511.fc41 local 6.5 KiB perl-meta-notation noarch 5.40.0-511.fc41 local 2.0 KiB perl-mro i686 1.29-511.fc41 local 40.9 KiB perl-namespace-autoclean noarch 0.29-19.fc41 local 41.1 KiB perl-namespace-clean noarch 0.27-27.fc41 local 38.7 KiB perl-open noarch 1.13-511.fc41 local 11.3 KiB perl-overload noarch 1.37-511.fc41 local 71.5 KiB perl-overloading noarch 0.02-511.fc41 local 4.8 KiB perl-parent noarch 1:0.242-1.fc41 local 10.0 KiB perl-podlators noarch 1:6.0.2-2.fc41 local 317.5 KiB perl-sigtrap noarch 1.10-511.fc41 local 11.0 KiB perl-subs noarch 1.04-511.fc41 local 2.1 KiB perl-vars noarch 1.05-511.fc41 local 3.9 KiB perl-version i686 9:0.99.33-1.fc41 local 136.1 KiB perltidy noarch 20240903-1.fc41 local 3.9 MiB pixman i686 0.43.4-2.fc41 local 749.7 KiB poppler i686 24.08.0-1.fc41 local 3.5 MiB poppler-data noarch 0.4.11-8.fc41 local 12.3 MiB poppler-glib i686 24.08.0-1.fc41 local 590.2 KiB pyproject-rpm-macros noarch 1.15.1-1.fc41 local 109.2 KiB python-pip-wheel noarch 24.2-1.fc41 local 1.2 MiB python-rpm-macros noarch 3.13-3.fc41 local 22.1 KiB python3 i686 3.13.0-1.fc41 local 30.9 KiB python3-babel noarch 2.16.0-1.fc41 local 28.3 MiB python3-charset-normalizer noarch 3.3.2-5.fc41 local 314.8 KiB python3-docutils noarch 0.20.1-6.fc41 local 4.8 MiB python3-idna noarch 3.7-4.fc41 local 595.8 KiB python3-imagesize noarch 1.4.1-9.fc41 local 35.3 KiB python3-jinja2 noarch 3.1.4-5.fc41 local 2.9 MiB python3-libs i686 3.13.0-1.fc41 local 40.1 MiB python3-markupsafe i686 2.1.5-3.fc41 local 56.6 KiB python3-packaging noarch 24.1-2.fc41 local 422.3 KiB python3-pygments noarch 2.18.0-2.fc41 local 10.6 MiB python3-requests noarch 2.32.3-3.fc41 local 485.9 KiB python3-rpm-generators noarch 14-11.fc41 local 81.7 KiB python3-rpm-macros noarch 3.13-3.fc41 local 6.4 KiB python3-snowballstemmer noarch 2.2.0-13.fc41 local 1.7 MiB python3-sphinx-theme-alabaster noarch 0.7.16-6.fc41 local 41.9 KiB python3-urllib3 noarch 1.26.20-1.fc41 local 1.0 MiB rav1e-libs i686 0.7.1-4.fc41 local 2.0 MiB rhash i686 1.4.4-2.fc41 local 393.5 KiB rsvg-pixbuf-loader i686 2.59.1-1.fc41 local 327.3 KiB shared-mime-info i686 2.3-6.fc41 local 5.2 MiB sombok i686 2.4.0-22.fc41 local 134.5 KiB svt-av1-libs i686 2.1.0-2.fc41 local 3.7 MiB teckit i686 2.5.12-3.fc41 local 1.7 MiB texlive-ae noarch 11:svn15878.1.4-73.fc41 local 451.9 KiB texlive-algorithms noarch 11:svn42428-73.fc41 local 38.2 KiB texlive-alphalph noarch 11:svn53087-73.fc41 local 375.9 KiB texlive-amscls noarch 11:svn55378-73.fc41 local 1.4 MiB texlive-amsfonts noarch 11:svn61937-73.fc41 local 5.9 MiB texlive-amsmath noarch 11:svn63514-73.fc41 local 266.6 KiB texlive-anysize noarch 11:svn15878.0-73.fc41 local 3.4 KiB texlive-atbegshi noarch 11:svn53051-73.fc41 local 443.4 KiB texlive-attachfile noarch 11:svn42099-73.fc41 local 32.0 KiB texlive-attachfile2 noarch 11:svn57959-85.fc41 local 492.2 KiB texlive-atveryend noarch 11:svn53108-73.fc41 local 409.9 KiB texlive-auto-pst-pdf noarch 11:svn56596-73.fc41 local 14.8 KiB texlive-auxhook noarch 11:svn53173-73.fc41 local 301.9 KiB texlive-avantgar noarch 11:svn61983-73.fc41 local 1.2 MiB texlive-babel noarch 11:svn65823-73.fc41 local 2.1 MiB texlive-babel-english noarch 11:svn44495-73.fc41 local 44.4 KiB texlive-babelbib noarch 11:svn57349-73.fc41 local 779.1 KiB texlive-base i686 11:20230311-85.fc41 local 19.0 MiB texlive-beamer noarch 11:svn65984-73.fc41 local 702.9 KiB texlive-bera noarch 11:svn20031.0-73.fc41 local 772.9 KiB texlive-beton noarch 11:svn15878.0-73.fc41 local 11.8 KiB texlive-biblatex noarch 11:svn66403-73.fc41 local 2.2 MiB texlive-bibtex i686 11:svn66186-85.fc41 local 790.1 KiB texlive-bidi noarch 11:svn65572-73.fc41 local 1.2 MiB texlive-bigintcalc noarch 11:svn53172-73.fc41 local 515.6 KiB texlive-bitset noarch 11:svn53837-73.fc41 local 662.3 KiB texlive-bookman noarch 11:svn61719-73.fc41 local 1.2 MiB texlive-bookmark noarch 11:svn56885-73.fc41 local 569.3 KiB texlive-booktabs noarch 11:svn53402-73.fc41 local 18.3 KiB texlive-breakurl noarch 11:svn29901.1.40-73.fc41 local 17.1 KiB texlive-breqn noarch 11:svn60881-73.fc41 local 167.4 KiB texlive-caption noarch 11:svn66580-73.fc41 local 906.9 KiB texlive-carlisle noarch 11:svn59577-73.fc41 local 31.2 KiB texlive-catchfile noarch 11:svn53084-73.fc41 local 318.8 KiB texlive-changepage noarch 11:svn15878.1.0c-73.fc41 local 27.3 KiB texlive-charter noarch 11:svn15878.0-73.fc41 local 404.0 KiB texlive-cite noarch 11:svn36428.5.5-73.fc41 local 62.3 KiB texlive-cm noarch 11:svn57963-73.fc41 local 994.9 KiB texlive-cm-super noarch 11:svn15878.0-73.fc41 local 65.0 MiB texlive-cmap noarch 11:svn57640-73.fc41 local 36.2 KiB texlive-collectbox noarch 11:svn64967-73.fc41 local 27.6 KiB texlive-collection-basic noarch 11:svn59159-73.fc41 local 0.0 B texlive-collection-latex noarch 11:svn63515-73.fc41 local 0.0 B texlive-colorprofiles noarch 11:svn49086-73.fc41 local 272.2 KiB texlive-colortbl noarch 11:svn64015-73.fc41 local 21.0 KiB texlive-courier noarch 11:svn61719-73.fc41 local 915.1 KiB texlive-crop noarch 11:svn55424-73.fc41 local 26.7 KiB texlive-csquotes noarch 11:svn64389-73.fc41 local 112.0 KiB texlive-ctable noarch 11:svn38672-73.fc41 local 20.6 KiB texlive-ctablestack noarch 11:svn38514-73.fc41 local 20.1 KiB texlive-currfile noarch 11:svn64673-73.fc41 local 34.0 KiB texlive-dehyph noarch 11:svn48599-73.fc41 local 239.9 KiB texlive-dvipdfmx i686 11:svn66203-85.fc41 local 3.8 MiB texlive-dvips i686 11:svn66203-85.fc41 local 1.6 MiB texlive-ec noarch 11:svn25033.1.0-73.fc41 local 2.5 MiB texlive-enctex noarch 11:svn34957.0-73.fc41 local 179.8 KiB texlive-enumitem noarch 11:svn51423-73.fc41 local 59.4 KiB texlive-epstopdf noarch 11:svn66461-85.fc41 local 39.3 KiB texlive-epstopdf-pkg noarch 11:svn53546-73.fc41 local 386.5 KiB texlive-eso-pic noarch 11:svn56658-73.fc41 local 27.7 KiB texlive-etex noarch 11:svn66203-73.fc41 local 41.0 KiB texlive-etex-pkg noarch 11:svn41784-73.fc41 local 18.6 KiB texlive-etexcmds noarch 11:svn53171-73.fc41 local 321.0 KiB texlive-etoolbox noarch 11:svn56554-73.fc41 local 66.7 KiB texlive-euenc noarch 11:svn19795.0.1h-73.fc41 local 39.3 KiB texlive-euler noarch 11:svn42428-73.fc41 local 20.7 KiB texlive-everysel noarch 11:svn57489-73.fc41 local 457.9 KiB texlive-everyshi noarch 11:svn57001-73.fc41 local 157.4 KiB texlive-extsizes noarch 11:svn17263.1.4a-73.fc41 local 126.6 KiB texlive-fancybox noarch 11:svn18304.1.4-73.fc41 local 40.7 KiB texlive-fancyhdr noarch 11:svn64977-73.fc41 local 31.6 KiB texlive-fancyref noarch 11:svn15878.0.9c-73.fc41 local 27.8 KiB texlive-fancyvrb noarch 11:svn65585-73.fc41 local 66.2 KiB texlive-filecontents noarch 11:svn52142-73.fc41 local 12.2 KiB texlive-filehook noarch 11:svn64822-73.fc41 local 55.2 KiB texlive-finstrut noarch 11:svn21719.0.5-73.fc41 local 25.6 KiB texlive-firstaid noarch 11:svn64892-73.fc41 local 296.9 KiB texlive-fix2col noarch 11:svn38770-73.fc41 local 16.7 KiB texlive-float noarch 11:svn15878.1.3d-73.fc41 local 15.5 KiB texlive-fontspec noarch 11:svn63386-73.fc41 local 329.1 KiB texlive-footmisc noarch 11:svn62524-73.fc41 local 64.7 KiB texlive-footnotehyper noarch 11:svn60374-73.fc41 local 30.5 KiB texlive-fp noarch 11:svn49719-73.fc41 local 124.9 KiB texlive-fpl noarch 11:svn54512-73.fc41 local 647.6 KiB texlive-geometry noarch 11:svn61719-73.fc41 local 49.5 KiB texlive-gettitlestring noarch 11:svn53170-73.fc41 local 338.8 KiB texlive-glyphlist noarch 11:svn54074-85.fc41 local 90.3 KiB texlive-graphics noarch 11:svn66204-73.fc41 local 124.5 KiB texlive-graphics-cfg noarch 11:svn41448-73.fc41 local 3.0 KiB texlive-graphics-def noarch 11:svn64487-73.fc41 local 98.2 KiB texlive-grfext noarch 11:svn53024-73.fc41 local 327.8 KiB texlive-grffile noarch 11:svn52756-73.fc41 local 379.3 KiB texlive-gsftopk i686 11:svn52851-85.fc41 local 46.3 KiB texlive-helvetic noarch 11:svn61719-73.fc41 local 1.8 MiB texlive-hobsub noarch 11:svn52810-73.fc41 local 80.2 KiB texlive-hologo noarch 11:svn61719-73.fc41 local 664.7 KiB texlive-hopatch noarch 11:svn65491-73.fc41 local 345.8 KiB texlive-hycolor noarch 11:svn53584-73.fc41 local 411.7 KiB texlive-hypdoc noarch 11:svn65678-73.fc41 local 358.3 KiB texlive-hyperref noarch 11:svn65758-73.fc41 local 763.7 KiB texlive-hyph-utf8 noarch 11:svn61719-73.fc41 local 73.9 KiB texlive-hyphen-base noarch 11:svn66413-73.fc41 local 63.7 KiB texlive-hyphenex noarch 11:svn57387-73.fc41 local 25.7 KiB texlive-ifmtarg noarch 11:svn47544-73.fc41 local 9.2 KiB texlive-ifoddpage noarch 11:svn64967-73.fc41 local 20.8 KiB texlive-ifplatform noarch 11:svn45533-73.fc41 local 12.7 KiB texlive-iftex noarch 11:svn61910-73.fc41 local 28.7 KiB texlive-index noarch 11:svn24099.4.1beta-73.fc41 local 60.6 KiB texlive-infwarerr noarch 11:svn53023-73.fc41 local 306.3 KiB texlive-intcalc noarch 11:svn53168-73.fc41 local 471.6 KiB texlive-jknapltx noarch 11:svn19440.0-73.fc41 local 43.9 KiB texlive-kastrup noarch 11:svn15878.0-73.fc41 local 3.4 KiB texlive-knuth-lib noarch 11:svn57963-73.fc41 local 99.9 KiB texlive-knuth-local noarch 11:svn57963-73.fc41 local 106.3 KiB texlive-koma-script noarch 11:svn64685-73.fc41 local 9.9 MiB texlive-kpathsea i686 11:svn66209-85.fc41 local 2.1 MiB texlive-kvdefinekeys noarch 11:svn53193-73.fc41 local 314.2 KiB texlive-kvoptions noarch 11:svn63622-73.fc41 local 550.0 KiB texlive-kvsetkeys noarch 11:svn64632-73.fc41 local 427.4 KiB texlive-l3backend noarch 11:svn65573-73.fc41 local 1.1 MiB texlive-l3experimental noarch 11:svn65621-73.fc41 local 190.3 KiB texlive-l3kernel noarch 11:svn66094-73.fc41 local 1.4 MiB texlive-l3packages noarch 11:svn65722-73.fc41 local 262.4 KiB texlive-latex noarch 11:svn65161-85.fc41 local 40.2 MiB texlive-latex-fonts noarch 11:svn28888.0-73.fc41 local 114.2 KiB texlive-latex-lab noarch 11:svn64892-73.fc41 local 2.3 MiB texlive-latexbug noarch 11:svn63596-73.fc41 local 282.4 KiB texlive-latexconfig noarch 11:svn53525-73.fc41 local 8.3 KiB texlive-letltxmacro noarch 11:svn53022-73.fc41 local 311.2 KiB texlive-lib i686 11:20230311-85.fc41 local 1.1 MiB texlive-lineno noarch 11:svn65586-73.fc41 local 237.4 KiB texlive-listings noarch 11:svn66222-73.fc41 local 580.0 KiB texlive-listofitems noarch 11:svn51923-73.fc41 local 957.4 KiB texlive-lm noarch 11:svn65956-73.fc41 local 39.4 MiB texlive-lm-math noarch 11:svn36915.1.959-73.fc41 local 735.8 KiB texlive-logreq noarch 11:svn53003-73.fc41 local 26.3 KiB texlive-ltabptch noarch 11:svn17533.1.74d-73.fc41 local 20.8 KiB texlive-ltxcmds noarch 11:svn56421-73.fc41 local 424.3 KiB texlive-ltxmisc noarch 11:svn21927.0-73.fc41 local 44.0 KiB texlive-lua-alt-getopt noarch 11:svn56414-73.fc41 local 3.9 KiB texlive-lua-uni-algos noarch 11:svn62204-73.fc41 local 129.1 KiB texlive-luabidi noarch 11:svn54512-73.fc41 local 25.3 KiB texlive-luahbtex i686 11:svn66186-85.fc41 local 6.7 MiB texlive-lualatex-math noarch 11:svn61464-73.fc41 local 28.4 KiB texlive-lualibs noarch 11:svn64615-73.fc41 local 764.4 KiB texlive-luaotfload noarch 11:svn64616-85.fc41 local 8.2 MiB texlive-luatex i686 11:svn66967-85.fc41 local 9.5 MiB texlive-luatexbase noarch 11:svn52663-73.fc41 local 12.8 KiB texlive-lwarp noarch 11:svn66259-85.fc41 local 4.8 MiB texlive-makecmds noarch 11:svn15878.0-73.fc41 local 11.1 KiB texlive-makeindex i686 11:svn62517-85.fc41 local 506.3 KiB texlive-marginnote noarch 11:svn48383-73.fc41 local 22.5 KiB texlive-marvosym noarch 11:svn29349.2.2a-73.fc41 local 185.6 KiB texlive-mathpazo noarch 11:svn52663-73.fc41 local 110.5 KiB texlive-mathspec noarch 11:svn42773-73.fc41 local 52.4 KiB texlive-mathtools noarch 11:svn63767-73.fc41 local 130.7 KiB texlive-mdwtools noarch 11:svn15878.1.05.4-73.fc41 local 111.6 KiB texlive-memoir noarch 11:svn65040-73.fc41 local 480.4 KiB texlive-metafont i686 11:svn66186-85.fc41 local 779.3 KiB texlive-metalogo noarch 11:svn18611.0.12-73.fc41 local 15.7 KiB texlive-mflogo noarch 11:svn42428-73.fc41 local 12.0 KiB texlive-mfnfss noarch 11:svn46036-73.fc41 local 22.8 KiB texlive-mfware i686 11:svn66186-85.fc41 local 207.4 KiB texlive-microtype noarch 11:svn66587-73.fc41 local 459.9 KiB texlive-minitoc noarch 11:svn61719-73.fc41 local 534.1 KiB texlive-mnsymbol noarch 11:svn18651.1.4-73.fc41 local 5.7 MiB texlive-modes noarch 11:svn61719-73.fc41 local 389.9 KiB texlive-mparhack noarch 11:svn59066-73.fc41 local 20.3 KiB texlive-mptopdf noarch 11:svn65952-85.fc41 local 151.3 KiB texlive-ms noarch 11:svn57473-73.fc41 local 18.4 KiB texlive-multido noarch 11:svn18302.1.42-73.fc41 local 18.5 KiB texlive-natbib noarch 11:svn20668.8.31b-73.fc41 local 132.7 KiB texlive-newfloat noarch 11:svn52906-73.fc41 local 158.1 KiB texlive-notoccite noarch 11:svn18129.0-73.fc41 local 2.3 KiB texlive-ntgclass noarch 11:svn65522-73.fc41 local 282.6 KiB texlive-oberdiek noarch 11:svn65521-85.fc41 local 12.3 MiB texlive-pagesel noarch 11:svn56105-73.fc41 local 354.7 KiB texlive-palatino noarch 11:svn61719-73.fc41 local 1.1 MiB texlive-paralist noarch 11:svn43021-73.fc41 local 23.4 KiB texlive-parallel noarch 11:svn15878.0-73.fc41 local 22.5 KiB texlive-parskip noarch 11:svn58358-73.fc41 local 15.7 KiB texlive-pdfcol noarch 11:svn64469-73.fc41 local 345.6 KiB texlive-pdfcolfoot noarch 11:svn65512-73.fc41 local 335.8 KiB texlive-pdfcolmk noarch 11:svn52912-73.fc41 local 19.6 KiB texlive-pdfescape noarch 11:svn53082-73.fc41 local 375.9 KiB texlive-pdflscape noarch 11:svn64851-73.fc41 local 343.3 KiB texlive-pdfmanagement-testphase noarch 11:svn66532-73.fc41 local 11.6 MiB texlive-pdfpages noarch 11:svn65319-73.fc41 local 105.7 KiB texlive-pdftex i686 11:svn66243-85.fc41 local 4.6 MiB texlive-pdftexcmds noarch 11:svn55777-73.fc41 local 423.9 KiB texlive-pgf noarch 11:svn65553-73.fc41 local 4.8 MiB texlive-picture noarch 11:svn54867-73.fc41 local 323.3 KiB texlive-placeins noarch 11:svn19848.2.2-73.fc41 local 4.6 KiB texlive-plain noarch 11:svn57963-73.fc41 local 109.4 KiB texlive-polyglossia noarch 11:svn65792-73.fc41 local 715.0 KiB texlive-psfrag noarch 11:svn15878.3.04-73.fc41 local 12.3 KiB texlive-pslatex noarch 11:svn57434-73.fc41 local 26.9 KiB texlive-psnfss noarch 11:svn54694-73.fc41 local 101.0 KiB texlive-pspicture noarch 11:svn15878.0-73.fc41 local 13.6 KiB texlive-pst-3d noarch 11:svn17257.1.10-73.fc41 local 19.5 KiB texlive-pst-coil noarch 11:svn62977-73.fc41 local 20.4 KiB texlive-pst-eps noarch 11:svn15878.1.0-73.fc41 local 15.5 KiB texlive-pst-fill noarch 11:svn60671-73.fc41 local 22.8 KiB texlive-pst-grad noarch 11:svn15878.1.06-73.fc41 local 21.1 KiB texlive-pst-math noarch 11:svn64732-73.fc41 local 22.3 KiB texlive-pst-node noarch 11:svn61838-73.fc41 local 114.0 KiB texlive-pst-ovl noarch 11:svn54963-73.fc41 local 12.4 KiB texlive-pst-plot noarch 11:svn65346-73.fc41 local 129.7 KiB texlive-pst-text noarch 11:svn49542-73.fc41 local 19.7 KiB texlive-pst-tools noarch 11:svn60621-73.fc41 local 26.8 KiB texlive-pst-tree noarch 11:svn60421-73.fc41 local 42.6 KiB texlive-pstricks noarch 11:svn65346-73.fc41 local 468.9 KiB texlive-pstricks-add noarch 11:svn65067-73.fc41 local 103.4 KiB texlive-ragged2e noarch 11:svn66152-73.fc41 local 731.9 KiB texlive-rcs noarch 11:svn15878.0-73.fc41 local 47.0 KiB texlive-realscripts noarch 11:svn56594-73.fc41 local 23.1 KiB texlive-refcount noarch 11:svn53164-73.fc41 local 348.0 KiB texlive-rerunfilecheck noarch 11:svn63869-73.fc41 local 361.8 KiB texlive-rsfs noarch 11:svn15878.0-73.fc41 local 97.8 KiB texlive-sansmath noarch 11:svn17997.1.1-73.fc41 local 8.6 KiB texlive-sansmathaccent noarch 11:svn53628-73.fc41 local 51.9 KiB texlive-sauerj noarch 11:svn15878.0-73.fc41 local 27.0 KiB texlive-section noarch 11:svn20180.0-73.fc41 local 38.2 KiB texlive-seminar noarch 11:svn59801-73.fc41 local 195.9 KiB texlive-sepnum noarch 11:svn20186.2.0-73.fc41 local 15.0 KiB texlive-setspace noarch 11:svn65206-73.fc41 local 22.0 KiB texlive-showexpl noarch 11:svn57414-73.fc41 local 21.8 KiB texlive-stringenc noarch 11:svn52982-73.fc41 local 1.0 MiB texlive-subfig noarch 11:svn15878.1.3-73.fc41 local 36.6 KiB texlive-symbol noarch 11:svn61719-73.fc41 local 78.3 KiB texlive-tex i686 11:svn66186-85.fc41 local 388.0 KiB texlive-tex-ini-files noarch 11:svn40533-73.fc41 local 8.1 KiB texlive-texlive-common-doc noarch 11:svn54176-73.fc41 local 265.5 KiB texlive-texlive-en noarch 11:svn66572-85.fc41 local 5.9 MiB texlive-texlive-msg-translations noarch 11:svn66593-73.fc41 local 1.4 MiB texlive-texlive-scripts noarch 11:svn66584-85.fc41 local 337.2 KiB texlive-texlive.infra noarch 11:svn66512-85.fc41 local 1.0 MiB texlive-textcase noarch 11:svn63868-73.fc41 local 11.2 KiB texlive-thumbpdf noarch 11:svn62518-85.fc41 local 97.0 KiB texlive-times noarch 11:svn61719-73.fc41 local 992.2 KiB texlive-tipa noarch 11:svn29349.1.3-73.fc41 local 3.7 MiB texlive-titlesec noarch 11:svn59845-73.fc41 local 97.8 KiB texlive-tools noarch 11:svn64892-73.fc41 local 403.2 KiB texlive-translator noarch 11:svn59412-73.fc41 local 494.7 KiB texlive-transparent noarch 11:svn64852-73.fc41 local 302.0 KiB texlive-typehtml noarch 11:svn17134.0-73.fc41 local 33.4 KiB texlive-ucharcat noarch 11:svn38907-73.fc41 local 10.2 KiB texlive-ucs noarch 11:svn64114-73.fc41 local 2.4 MiB texlive-underscore noarch 11:svn18261.0-73.fc41 local 19.3 KiB texlive-unicode-data noarch 11:svn64423-73.fc41 local 3.1 MiB texlive-unicode-math noarch 11:svn61719-73.fc41 local 517.2 KiB texlive-uniquecounter noarch 11:svn53162-73.fc41 local 312.0 KiB texlive-url noarch 11:svn32528.3.4-73.fc41 local 21.4 KiB texlive-utopia noarch 11:svn15878.0-73.fc41 local 540.6 KiB texlive-varwidth noarch 11:svn24104.0.92-73.fc41 local 19.5 KiB texlive-xcolor noarch 11:svn63563-73.fc41 local 79.3 KiB texlive-xdvi i686 11:svn62387-85.fc41 local 766.7 KiB texlive-xetex i686 11:svn66203-85.fc41 local 2.1 MiB texlive-xetexconfig noarch 11:svn45845-73.fc41 local 305.0 B texlive-xifthen noarch 11:svn38929-73.fc41 local 14.4 KiB texlive-xkeyval noarch 11:svn63616-73.fc41 local 69.3 KiB texlive-xltxtra noarch 11:svn56594-73.fc41 local 14.4 KiB texlive-xpatch noarch 11:svn54563-73.fc41 local 26.8 KiB texlive-xstring noarch 11:svn65551-73.fc41 local 56.1 KiB texlive-xunicode noarch 11:svn30466.0.981-73.fc41 local 219.6 KiB texlive-zapfding noarch 11:svn61719-73.fc41 local 79.5 KiB texlive-zref noarch 11:svn62977-73.fc41 local 816.8 KiB tpm2-tss i686 4.1.3-3.fc41 local 1.6 MiB tzdata noarch 2024a-9.fc41 local 1.7 MiB urw-base35-bookman-fonts noarch 20200910-23.fc41 local 1.4 MiB urw-base35-c059-fonts noarch 20200910-23.fc41 local 1.4 MiB urw-base35-d050000l-fonts noarch 20200910-23.fc41 local 84.3 KiB urw-base35-fonts noarch 20200910-23.fc41 local 5.3 KiB urw-base35-fonts-common noarch 20200910-23.fc41 local 37.4 KiB urw-base35-gothic-fonts noarch 20200910-23.fc41 local 1.2 MiB urw-base35-nimbus-mono-ps-fonts noarch 20200910-23.fc41 local 1.0 MiB urw-base35-nimbus-roman-fonts noarch 20200910-23.fc41 local 1.4 MiB urw-base35-nimbus-sans-fonts noarch 20200910-23.fc41 local 2.4 MiB urw-base35-p052-fonts noarch 20200910-23.fc41 local 1.5 MiB urw-base35-standard-symbols-ps-fonts noarch 20200910-23.fc41 local 64.9 KiB urw-base35-z003-fonts noarch 20200910-23.fc41 local 390.8 KiB vim-filesystem noarch 2:9.1.737-1.fc41 local 40.0 B xapian-core-libs i686 1.4.26-1.fc41 local 2.1 MiB xml-common noarch 0.6.3-65.fc41 local 78.4 KiB xpdf-libs i686 1:4.05-5.fc41 local 1.7 MiB zziplib i686 0.13.74-2.fc41 local 230.7 KiB Transaction Summary: Installing: 684 packages Total size of inbound packages is 416 MiB. Need to download 416 MiB. After this operation, 1 GiB extra will be used (install 1 GiB, remove 0 B). [ 1/684] chrpath-0:0.16-24.fc41.i686 100% | 730.0 KiB/s | 29.9 KiB | 00m00s [ 2/684] doxygen-2:1.12.0-1.fc41.i686 100% | 21.2 MiB/s | 5.7 MiB | 00m00s [ 3/684] make-1:4.4.1-8.fc41.i686 100% | 17.4 MiB/s | 589.1 KiB | 00m00s [ 4/684] maloc-devel-0:1.5-31.fc41.i68 100% | 25.5 MiB/s | 1.3 MiB | 00m00s [ 5/684] cmake-0:3.28.3-7.fc41.i686 100% | 28.5 MiB/s | 11.2 MiB | 00m00s [ 6/684] python3-devel-0:3.13.0-1.fc41 100% | 9.4 MiB/s | 357.1 KiB | 00m00s [ 7/684] gcc-c++-0:14.2.1-3.fc41.i686 100% | 38.1 MiB/s | 14.3 MiB | 00m00s [ 8/684] texlive-collection-latexrecom 100% | 317.9 KiB/s | 10.2 KiB | 00m00s [ 9/684] texlive-adjustbox-11:svn64967 100% | 1.1 MiB/s | 29.5 KiB | 00m00s [ 10/684] python3-sphinx-1:7.3.7-2.fc41 100% | 23.7 MiB/s | 2.5 MiB | 00m00s [ 11/684] texlive-etoc-11:svn66299-73.f 100% | 984.1 KiB/s | 27.6 KiB | 00m00s [ 12/684] texlive-hanging-11:svn15878.1 100% | 1.5 MiB/s | 16.9 KiB | 00m00s [ 13/684] texlive-multirow-11:svn58396- 100% | 1.0 MiB/s | 15.1 KiB | 00m00s [ 14/684] texlive-newunicodechar-11:svn 100% | 943.9 KiB/s | 17.0 KiB | 00m00s [ 15/684] texlive-sectsty-11:svn15878.2 100% | 1.0 MiB/s | 16.8 KiB | 00m00s [ 16/684] texlive-stackengine-11:svn600 100% | 716.4 KiB/s | 20.1 KiB | 00m00s [ 17/684] python3-numpy-1:1.26.4-8.fc41 100% | 38.3 MiB/s | 6.9 MiB | 00m00s [ 18/684] texlive-tocloft-11:svn53364-7 100% | 630.3 KiB/s | 20.8 KiB | 00m00s [ 19/684] texlive-ulem-11:svn53365-73.f 100% | 724.8 KiB/s | 15.2 KiB | 00m00s [ 20/684] zlib-ng-compat-devel-0:2.1.7- 100% | 3.7 MiB/s | 38.0 KiB | 00m00s [ 21/684] texlive-wasysym-11:svn54080-7 100% | 766.2 KiB/s | 16.1 KiB | 00m00s [ 22/684] texlive-wasy-11:svn53533-73.f 100% | 833.6 KiB/s | 37.5 KiB | 00m00s [ 23/684] cmake-data-0:3.28.3-7.fc41.no 100% | 28.3 MiB/s | 1.8 MiB | 00m00s [ 24/684] swig-0:4.3.0-1.fc41.i686 100% | 17.1 MiB/s | 1.6 MiB | 00m00s [ 25/684] cmake-filesystem-0:3.28.3-7.f 100% | 1.8 MiB/s | 18.2 KiB | 00m00s [ 26/684] expat-0:2.6.3-1.fc41.i686 100% | 9.6 MiB/s | 118.5 KiB | 00m00s [ 27/684] jsoncpp-0:1.9.5-8.fc41.i686 100% | 8.9 MiB/s | 109.1 KiB | 00m00s [ 28/684] graphviz-0:12.1.2-1.fc41.i686 100% | 36.6 MiB/s | 4.8 MiB | 00m00s [ 29/684] rhash-0:1.4.4-2.fc41.i686 100% | 10.9 MiB/s | 211.9 KiB | 00m00s [ 30/684] perl-interpreter-4:5.40.0-511 100% | 7.1 MiB/s | 72.3 KiB | 00m00s [ 31/684] libuv-1:1.49.0-1.fc41.i686 100% | 5.6 MiB/s | 268.0 KiB | 00m00s [ 32/684] libmpc-0:1.3.1-6.fc41.i686 100% | 7.6 MiB/s | 77.7 KiB | 00m00s [ 33/684] xapian-core-libs-0:1.4.26-1.f 100% | 12.2 MiB/s | 838.8 KiB | 00m00s [ 34/684] maloc-0:1.5-31.fc41.i686 100% | 8.1 MiB/s | 99.1 KiB | 00m00s [ 35/684] python3-0:3.13.0-1.fc41.i686 100% | 3.0 MiB/s | 27.7 KiB | 00m00s [ 36/684] libstdc++-devel-0:14.2.1-3.fc 100% | 36.1 MiB/s | 2.6 MiB | 00m00s [ 37/684] flexiblas-netlib-0:3.4.4-3.fc 100% | 27.4 MiB/s | 3.2 MiB | 00m00s [ 38/684] python3-libs-0:3.13.0-1.fc41. 100% | 26.6 MiB/s | 8.9 MiB | 00m00s [ 39/684] python3-babel-0:2.16.0-1.fc41 100% | 27.6 MiB/s | 6.3 MiB | 00m00s [ 40/684] python3-imagesize-0:1.4.1-9.f 100% | 1.8 MiB/s | 22.2 KiB | 00m00s [ 41/684] python3-docutils-0:0.20.1-6.f 100% | 21.0 MiB/s | 1.0 MiB | 00m00s [ 42/684] python3-packaging-0:24.1-2.fc 100% | 8.1 MiB/s | 116.2 KiB | 00m00s [ 43/684] python3-jinja2-0:3.1.4-5.fc41 100% | 21.9 MiB/s | 471.3 KiB | 00m00s [ 44/684] python3-requests-0:2.32.3-3.f 100% | 13.2 MiB/s | 149.0 KiB | 00m00s [ 45/684] python3-snowballstemmer-0:2.2 100% | 15.7 MiB/s | 241.6 KiB | 00m00s [ 46/684] python3-sphinx-theme-alabaste 100% | 2.0 MiB/s | 24.3 KiB | 00m00s [ 47/684] texlive-anysize-11:svn15878.0 100% | 461.2 KiB/s | 10.6 KiB | 00m00s [ 48/684] python3-pygments-0:2.18.0-2.f 100% | 27.2 MiB/s | 2.4 MiB | 00m00s [ 49/684] texlive-attachfile2-11:svn579 100% | 12.1 MiB/s | 447.2 KiB | 00m00s [ 50/684] texlive-beamer-11:svn65984-73 100% | 5.0 MiB/s | 204.5 KiB | 00m00s [ 51/684] texlive-booktabs-11:svn53402- 100% | 1.2 MiB/s | 15.8 KiB | 00m00s [ 52/684] texlive-breqn-11:svn60881-73. 100% | 1.1 MiB/s | 40.7 KiB | 00m00s [ 53/684] texlive-base-11:20230311-85.f 100% | 24.1 MiB/s | 2.6 MiB | 00m00s [ 54/684] texlive-cite-11:svn36428.5.5- 100% | 1.0 MiB/s | 29.3 KiB | 00m00s [ 55/684] texlive-caption-11:svn66580-7 100% | 2.2 MiB/s | 79.3 KiB | 00m00s [ 56/684] texlive-cmap-11:svn57640-73.f 100% | 1.7 MiB/s | 19.6 KiB | 00m00s [ 57/684] texlive-collection-latex-11:s 100% | 760.0 KiB/s | 9.9 KiB | 00m00s [ 58/684] texlive-crop-11:svn55424-73.f 100% | 766.7 KiB/s | 16.9 KiB | 00m00s [ 59/684] texlive-ctable-11:svn38672-73 100% | 934.3 KiB/s | 15.9 KiB | 00m00s [ 60/684] texlive-etoolbox-11:svn56554- 100% | 1.2 MiB/s | 23.7 KiB | 00m00s [ 61/684] texlive-eso-pic-11:svn56658-7 100% | 822.7 KiB/s | 17.3 KiB | 00m00s [ 62/684] texlive-euenc-11:svn19795.0.1 100% | 807.0 KiB/s | 20.2 KiB | 00m00s [ 63/684] texlive-euler-11:svn42428-73. 100% | 577.8 KiB/s | 15.6 KiB | 00m00s [ 64/684] texlive-everyshi-11:svn57001- 100% | 4.7 MiB/s | 145.1 KiB | 00m00s [ 65/684] texlive-everysel-11:svn57489- 100% | 10.9 MiB/s | 446.5 KiB | 00m00s [ 66/684] texlive-fancybox-11:svn18304. 100% | 1.1 MiB/s | 20.9 KiB | 00m00s [ 67/684] texlive-extsizes-11:svn17263. 100% | 763.6 KiB/s | 25.2 KiB | 00m00s [ 68/684] texlive-fancyref-11:svn15878. 100% | 901.2 KiB/s | 17.1 KiB | 00m00s [ 69/684] texlive-filehook-11:svn64822- 100% | 2.0 MiB/s | 20.9 KiB | 00m00s [ 70/684] texlive-fancyvrb-11:svn65585- 100% | 766.5 KiB/s | 24.5 KiB | 00m00s [ 71/684] texlive-float-11:svn15878.1.3 100% | 873.4 KiB/s | 14.8 KiB | 00m00s [ 72/684] texlive-fontspec-11:svn63386- 100% | 1.7 MiB/s | 42.8 KiB | 00m00s [ 73/684] texlive-footnotehyper-11:svn6 100% | 925.6 KiB/s | 18.5 KiB | 00m00s [ 74/684] texlive-fp-11:svn49719-73.fc4 100% | 829.3 KiB/s | 34.0 KiB | 00m00s [ 75/684] texlive-grffile-11:svn52756-7 100% | 9.2 MiB/s | 358.3 KiB | 00m00s [ 76/684] texlive-index-11:svn24099.4.1 100% | 1.8 MiB/s | 20.8 KiB | 00m00s [ 77/684] texlive-infwarerr-11:svn53023 100% | 6.5 MiB/s | 293.1 KiB | 00m00s [ 78/684] texlive-hologo-11:svn61719-73 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libjpeg-turbo-0:3.0.2-3.fc41. 100% | 20.9 MiB/s | 257.2 KiB | 00m00s [271/684] libimagequant-0:4.0.3-5.fc41. 100% | 15.0 MiB/s | 322.1 KiB | 00m00s [272/684] libtiff-0:4.6.0-6.fc41.i686 100% | 11.3 MiB/s | 231.0 KiB | 00m00s [273/684] shared-mime-info-0:2.3-6.fc41 100% | 14.2 MiB/s | 392.2 KiB | 00m00s [274/684] texlive-tipa-11:svn29349.1.3- 100% | 13.3 MiB/s | 2.8 MiB | 00m00s [275/684] netpbm-0:11.02.00-7.fc41.i686 100% | 10.5 MiB/s | 193.2 KiB | 00m00s [276/684] gnutls-0:3.8.6-7.fc41.i686 100% | 32.6 MiB/s | 1.1 MiB | 00m00s [277/684] graphite2-0:1.3.14-16.fc41.i6 100% | 7.3 MiB/s | 96.7 KiB | 00m00s [278/684] libX11-common-0:1.8.10-2.fc41 100% | 14.1 MiB/s | 144.8 KiB | 00m00s [279/684] adobe-mappings-cmap-deprecate 100% | 10.8 MiB/s | 110.5 KiB | 00m00s [280/684] adobe-mappings-pdf-0:20190401 100% | 22.4 MiB/s | 619.0 KiB | 00m00s [281/684] cups-libs-1:2.4.11-1.fc41.i68 100% | 13.2 MiB/s | 283.9 KiB | 00m00s [282/684] jbig2dec-libs-0:0.20-5.fc41.i 100% | 5.3 MiB/s | 76.5 KiB | 00m00s [283/684] adobe-mappings-cmap-0:2023062 100% | 34.8 MiB/s | 2.1 MiB | 00m00s [284/684] libXt-0:1.3.0-4.fc41.i686 100% | 10.3 MiB/s | 189.0 KiB | 00m00s [285/684] lcms2-0:2.16-4.fc41.i686 100% | 5.8 MiB/s | 197.6 KiB | 00m00s [286/684] libijs-0:0.35-23.fc41.i686 100% | 3.3 MiB/s | 30.0 KiB | 00m00s [287/684] libpaper-1:2.1.1-7.fc41.i686 100% | 3.0 MiB/s | 27.9 KiB | 00m00s [288/684] openjpeg-0:2.5.2-4.fc41.i686 100% | 18.0 MiB/s | 202.2 KiB | 00m00s [289/684] cairo-gobject-0:1.18.0-4.fc41 100% | 1.0 MiB/s | 17.2 KiB | 00m00s [290/684] rsvg-pixbuf-loader-0:2.59.1-1 100% | 8.7 MiB/s | 177.3 KiB | 00m00s [291/684] fribidi-0:1.0.15-2.fc41.i686 100% | 9.1 MiB/s | 92.9 KiB | 00m00s [292/684] libXft-0:2.3.8-7.fc41.i686 100% | 7.2 MiB/s | 73.3 KiB | 00m00s [293/684] libthai-0:0.1.29-9.fc41.i686 100% | 10.9 MiB/s | 212.6 KiB | 00m00s [294/684] google-droid-sans-fonts-0:202 100% | 23.3 MiB/s | 2.7 MiB | 00m00s [295/684] poppler-0:24.08.0-1.fc41.i686 100% | 33.7 MiB/s | 1.3 MiB | 00m00s 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25.9 KiB | 00m00s [309/684] perl-Exporter-0:5.78-511.fc41 100% | 3.0 MiB/s | 30.9 KiB | 00m00s [310/684] perl-PathTools-0:3.91-511.fc4 100% | 6.3 MiB/s | 83.7 KiB | 00m00s [311/684] glibc-headers-x86-0:2.40-3.fc 100% | 27.1 MiB/s | 555.5 KiB | 00m00s [312/684] libxcrypt-devel-0:4.4.36-7.fc 100% | 2.6 MiB/s | 28.8 KiB | 00m00s [313/684] perl-Encode-4:3.21-511.fc41.i 100% | 13.8 MiB/s | 1.0 MiB | 00m00s [314/684] perl-Digest-0:1.20-511.fc41.n 100% | 1.3 MiB/s | 24.9 KiB | 00m00s [315/684] perl-Pod-Usage-4:2.03-511.fc4 100% | 1.4 MiB/s | 40.0 KiB | 00m00s [316/684] kernel-headers-0:6.11.3-300.f 100% | 14.1 MiB/s | 1.5 MiB | 00m00s [317/684] perl-Text-ParseWords-0:3.31-5 100% | 828.8 KiB/s | 16.6 KiB | 00m00s [318/684] perl-base-0:2.27-511.fc41.noa 100% | 898.4 KiB/s | 16.2 KiB | 00m00s [319/684] perl-constant-0:1.33-512.fc41 100% | 2.2 MiB/s | 23.0 KiB | 00m00s [320/684] perl-overload-0:1.37-511.fc41 100% | 4.4 MiB/s | 45.5 KiB | 00m00s [321/684] perl-locale-0:1.12-511.fc41.n 100% | 1.5 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100% | 1.5 MiB/s | 44.3 KiB | 00m00s [335/684] texlive-dvipdfmx-11:svn66203- 100% | 25.2 MiB/s | 3.0 MiB | 00m00s [336/684] texlive-ec-11:svn25033.1.0-73 100% | 5.9 MiB/s | 486.0 KiB | 00m00s [337/684] texlive-etex-11:svn66203-73.f 100% | 801.5 KiB/s | 26.5 KiB | 00m00s [338/684] texlive-graphics-def-11:svn64 100% | 2.0 MiB/s | 26.4 KiB | 00m00s [339/684] texlive-glyphlist-11:svn54074 100% | 1.9 MiB/s | 37.9 KiB | 00m00s [340/684] texlive-hyph-utf8-11:svn61719 100% | 1.1 MiB/s | 27.4 KiB | 00m00s [341/684] texlive-hyphenex-11:svn57387- 100% | 915.4 KiB/s | 17.4 KiB | 00m00s [342/684] texlive-ifplatform-11:svn4553 100% | 837.9 KiB/s | 14.2 KiB | 00m00s [343/684] texlive-hyphen-base-11:svn664 100% | 883.1 KiB/s | 31.8 KiB | 00m00s [344/684] texlive-knuth-lib-11:svn57963 100% | 1.6 MiB/s | 44.3 KiB | 00m00s [345/684] texlive-knuth-local-11:svn579 100% | 1.8 MiB/s | 37.2 KiB | 00m00s [346/684] texlive-lua-alt-getopt-11:svn 100% | 486.7 KiB/s | 10.7 KiB | 00m00s [347/684] texlive-makeindex-11:svn62517 100% | 11.4 MiB/s | 430.2 KiB | 00m00s [348/684] texlive-metafont-11:svn66186- 100% | 5.4 MiB/s | 225.7 KiB | 00m00s [349/684] texlive-mflogo-11:svn42428-73 100% | 654.4 KiB/s | 14.4 KiB | 00m00s [350/684] texlive-mfware-11:svn66186-85 100% | 3.2 MiB/s | 94.1 KiB | 00m00s [351/684] texlive-luahbtex-11:svn66186- 100% | 22.6 MiB/s | 2.0 MiB | 00m00s [352/684] texlive-modes-11:svn61719-73. 100% | 6.1 MiB/s | 303.7 KiB | 00m00s [353/684] texlive-plain-11:svn57963-73. 100% | 1.5 MiB/s | 41.6 KiB | 00m00s [354/684] texlive-tex-ini-files-11:svn4 100% | 1.2 MiB/s | 13.5 KiB | 00m00s [355/684] texlive-tex-11:svn66186-85.fc 100% | 7.0 MiB/s | 186.8 KiB | 00m00s [356/684] texlive-texlive-common-doc-11 100% | 5.2 MiB/s | 155.3 KiB | 00m00s [357/684] texlive-texlive-msg-translati 100% | 3.9 MiB/s | 158.3 KiB | 00m00s [358/684] texlive-pdftex-11:svn66243-85 100% | 16.8 MiB/s | 2.4 MiB | 00m00s [359/684] texlive-texlive.infra-11:svn6 100% | 7.6 MiB/s | 287.7 KiB | 00m00s 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KiB | 00m00s [373/684] texlive-bookman-11:svn61719-7 100% | 6.4 MiB/s | 334.4 KiB | 00m00s [374/684] texlive-courier-11:svn61719-7 100% | 9.5 MiB/s | 504.3 KiB | 00m00s [375/684] texlive-helvetic-11:svn61719- 100% | 12.2 MiB/s | 610.0 KiB | 00m00s [376/684] texlive-mathpazo-11:svn52663- 100% | 2.9 MiB/s | 82.3 KiB | 00m00s [377/684] texlive-palatino-11:svn61719- 100% | 9.9 MiB/s | 384.1 KiB | 00m00s [378/684] texlive-symbol-11:svn61719-73 100% | 2.0 MiB/s | 52.5 KiB | 00m00s [379/684] texlive-times-11:svn61719-73. 100% | 8.3 MiB/s | 338.8 KiB | 00m00s [380/684] texlive-auto-pst-pdf-11:svn56 100% | 872.2 KiB/s | 14.8 KiB | 00m00s [381/684] texlive-utopia-11:svn15878.0- 100% | 4.3 MiB/s | 227.0 KiB | 00m00s [382/684] texlive-biblatex-11:svn66403- 100% | 6.6 MiB/s | 282.8 KiB | 00m00s [383/684] texlive-bera-11:svn20031.0-73 100% | 6.6 MiB/s | 337.0 KiB | 00m00s [384/684] texlive-filecontents-11:svn52 100% | 1.4 MiB/s | 14.5 KiB | 00m00s [385/684] texlive-breakurl-11:svn29901. 100% | 722.0 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texlive-showexpl-11:svn57414- 100% | 1.1 MiB/s | 16.2 KiB | 00m00s [399/684] texlive-pstricks-add-11:svn65 100% | 1.6 MiB/s | 34.8 KiB | 00m00s [400/684] texlive-lua-uni-algos-11:svn6 100% | 2.3 MiB/s | 94.7 KiB | 00m00s [401/684] texlive-lualibs-11:svn64615-7 100% | 3.6 MiB/s | 150.8 KiB | 00m00s [402/684] zziplib-0:0.13.74-2.fc41.i686 100% | 8.7 MiB/s | 88.7 KiB | 00m00s [403/684] texlive-changepage-11:svn1587 100% | 1.7 MiB/s | 17.8 KiB | 00m00s [404/684] texlive-placeins-11:svn19848. 100% | 1.3 MiB/s | 11.5 KiB | 00m00s [405/684] texlive-titlesec-11:svn59845- 100% | 1.1 MiB/s | 32.1 KiB | 00m00s [406/684] texlive-xifthen-11:svn38929-7 100% | 686.4 KiB/s | 14.4 KiB | 00m00s [407/684] ghostscript-tools-fonts-0:10. 100% | 1.4 MiB/s | 12.7 KiB | 00m00s [408/684] texlive-ctablestack-11:svn385 100% | 899.3 KiB/s | 16.2 KiB | 00m00s [409/684] ghostscript-tools-printing-0: 100% | 1.3 MiB/s | 13.4 KiB | 00m00s [410/684] perl-File-Find-0:1.44-511.fc4 100% | 2.7 MiB/s | 25.3 KiB | 00m00s 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5.4 MiB/s | 49.5 KiB | 00m00s [592/684] perl-Compress-Raw-Zlib-0:2.21 100% | 4.3 MiB/s | 66.5 KiB | 00m00s [593/684] perl-IO-HTML-0:1.004-13.fc41. 100% | 3.0 MiB/s | 27.6 KiB | 00m00s [594/684] mailcap-0:2.1.54-7.fc41.noarc 100% | 3.7 MiB/s | 34.4 KiB | 00m00s [595/684] perl-Digest-HMAC-0:1.04-11.fc 100% | 2.2 MiB/s | 22.1 KiB | 00m00s [596/684] perl-Filter-2:1.64-512.fc41.i 100% | 8.8 MiB/s | 80.7 KiB | 00m00s [597/684] perl-Number-Compare-0:0.03-39 100% | 1.2 MiB/s | 11.9 KiB | 00m00s [598/684] perl-Text-Glob-0:0.11-24.fc41 100% | 1.1 MiB/s | 13.4 KiB | 00m00s [599/684] perl-Math-Complex-0:1.62-511. 100% | 4.5 MiB/s | 46.0 KiB | 00m00s [600/684] perl-IO-Compress-0:2.212-512. 100% | 5.3 MiB/s | 292.8 KiB | 00m00s [601/684] perl-File-ShareDir-0:1.118-12 100% | 2.4 MiB/s | 29.8 KiB | 00m00s [602/684] perl-Eval-Closure-0:0.14-24.f 100% | 1.9 MiB/s | 23.8 KiB | 00m00s [603/684] perl-Exception-Class-0:1.45-1 100% | 4.3 MiB/s | 43.6 KiB | 00m00s [604/684] perl-Devel-StackTrace-1:2.05- 100% | 3.3 MiB/s | 30.6 KiB | 00m00s [605/684] perl-MRO-Compat-0:0.15-10.fc4 100% | 2.8 MiB/s | 25.4 KiB | 00m00s [606/684] perl-Ref-Util-0:0.204-21.fc41 100% | 2.1 MiB/s | 23.5 KiB | 00m00s [607/684] perl-XString-0:0.005-14.fc41. 100% | 2.5 MiB/s | 23.1 KiB | 00m00s [608/684] perl-Role-Tiny-0:2.002004-12. 100% | 1.9 MiB/s | 31.9 KiB | 00m00s [609/684] perl-version-9:0.99.33-1.fc41 100% | 7.0 MiB/s | 64.2 KiB | 00m00s [610/684] perl-B-Hooks-EndOfScope-0:0.2 100% | 3.4 MiB/s | 38.4 KiB | 00m00s [611/684] perl-namespace-clean-0:0.27-2 100% | 2.6 MiB/s | 29.1 KiB | 00m00s [612/684] perl-Module-Implementation-0: 100% | 1.7 MiB/s | 19.1 KiB | 00m00s [613/684] perl-Date-ISO8601-0:0.005-21. 100% | 1.6 MiB/s | 19.2 KiB | 00m00s [614/684] perl-Sub-Identify-0:0.14-28.f 100% | 724.5 KiB/s | 23.2 KiB | 00m00s [615/684] perl-Params-Classify-0:0.015- 100% | 3.4 MiB/s | 31.6 KiB | 00m00s [616/684] perl-DateTime-TimeZone-System 100% | 2.0 MiB/s | 22.5 KiB | 00m00s [617/684] perl-Module-Metadata-0:1.0000 100% | 3.8 MiB/s | 35.3 KiB | 00m00s [618/684] perl-Locale-Maketext-0:1.33-5 100% | 7.6 MiB/s | 93.8 KiB | 00m00s [619/684] perl-Authen-SASL-0:2.1700-4.f 100% | 4.6 MiB/s | 57.1 KiB | 00m00s [620/684] perl-Convert-ASN1-0:0.34-4.fc 100% | 3.4 MiB/s | 59.3 KiB | 00m00s [621/684] perl-Module-CoreList-1:5.2024 100% | 2.5 MiB/s | 90.8 KiB | 00m00s [622/684] perl-JSON-0:4.10-6.fc41.noarc 100% | 6.2 MiB/s | 94.9 KiB | 00m00s [623/684] perl-Text-Soundex-0:3.05-32.f 100% | 2.9 MiB/s | 30.1 KiB | 00m00s [624/684] perl-Devel-GlobalDestruction- 100% | 1.5 MiB/s | 17.1 KiB | 00m00s [625/684] perl-MIME-Lite-0:3.033-11.fc4 100% | 7.6 MiB/s | 94.0 KiB | 00m00s [626/684] perl-Mail-Sender-1:0.903-25.f 100% | 4.1 MiB/s | 50.5 KiB | 00m00s [627/684] perl-MailTools-0:2.21-17.fc41 100% | 9.6 MiB/s | 98.8 KiB | 00m00s [628/684] perl-Mail-Sendmail-0:0.80-21. 100% | 2.9 MiB/s | 35.8 KiB | 00m00s [629/684] perl-Sys-Syslog-0:0.36-512.fc 100% | 4.6 MiB/s | 46.9 KiB | 00m00s [630/684] perl-Opcode-0:1.65-511.fc41.i 100% | 3.6 MiB/s | 36.6 KiB | 00m00s [631/684] perl-IPC-System-Simple-0:1.30 100% | 3.1 MiB/s | 38.7 KiB | 00m00s [632/684] perl-Tie-RefHash-0:1.41-1.fc4 100% | 571.2 KiB/s | 23.4 KiB | 00m00s [633/684] perl-Compress-Raw-Bzip2-0:2.2 100% | 951.6 KiB/s | 36.2 KiB | 00m00s [634/684] perl-Date-Manip-0:6.95-2.fc41 100% | 18.5 MiB/s | 1.0 MiB | 00m00s [635/684] perl-Devel-LexAlias-0:0.05-38 100% | 1.6 MiB/s | 16.4 KiB | 00m00s [636/684] perl-Digest-SHA-1:6.04-512.fc 100% | 5.0 MiB/s | 61.7 KiB | 00m00s [637/684] perl-Class-Inspector-0:1.36-1 100% | 1.7 MiB/s | 30.4 KiB | 00m00s [638/684] perl-Class-Data-Inheritable-0 100% | 982.9 KiB/s | 12.8 KiB | 00m00s [639/684] perl-Ref-Util-XS-0:0.117-24.f 100% | 2.6 MiB/s | 24.2 KiB | 00m00s [640/684] perl-Hash-Util-FieldHash-0:1. 100% | 4.3 MiB/s | 39.5 KiB | 00m00s [641/684] perl-Class-Method-Modifiers-0 100% | 3.9 MiB/s | 43.7 KiB | 00m00s [642/684] perl-Variable-Magic-0:0.64-3. 100% | 5.5 MiB/s | 56.2 KiB | 00m00s [643/684] perl-Sub-Exporter-Progressive 100% | 1.6 MiB/s | 21.0 KiB | 00m00s [644/684] perl-Devel-CallChecker-0:0.00 100% | 2.6 MiB/s | 23.8 KiB | 00m00s [645/684] perl-Package-Stash-0:0.40-8.f 100% | 2.9 MiB/s | 32.6 KiB | 00m00s [646/684] perltidy-0:20240903-1.fc41.no 100% | 14.0 MiB/s | 789.6 KiB | 00m00s [647/684] perl-I18N-LangTags-0:0.45-511 100% | 5.7 MiB/s | 52.4 KiB | 00m00s [648/684] perl-GSSAPI-0:0.28-47.fc41.i6 100% | 6.3 MiB/s | 58.2 KiB | 00m00s [649/684] perl-Tie-0:4.6-511.fc41.noarc 100% | 2.7 MiB/s | 27.7 KiB | 00m00s [650/684] perl-deprecate-0:0.04-511.fc4 100% | 1.6 MiB/s | 14.5 KiB | 00m00s [651/684] perl-Email-Date-Format-0:1.00 100% | 1.8 MiB/s | 18.9 KiB | 00m00s [652/684] perl-Net-SMTP-SSL-0:1.04-25.f 100% | 1.4 MiB/s | 11.7 KiB | 00m00s [653/684] perl-MIME-Types-0:2.26-2.fc41 100% | 6.3 MiB/s | 70.5 KiB | 00m00s [654/684] perl-Devel-Caller-0:2.07-7.fc 100% | 2.1 MiB/s | 19.3 KiB | 00m00s [655/684] perl-English-0:1.11-511.fc41. 100% | 1.7 MiB/s | 13.6 KiB | 00m00s [656/684] perl-Pod-Html-0:1.35-511.fc41 100% | 3.2 MiB/s | 29.4 KiB | 00m00s [657/684] perl-Sub-Exporter-0:0.991-4.f 100% | 7.0 MiB/s | 71.4 KiB | 00m00s [658/684] perl-Package-Stash-XS-0:0.30- 100% | 3.6 MiB/s | 37.0 KiB | 00m00s [659/684] perl-DynaLoader-Functions-0:0 100% | 1.9 MiB/s | 19.0 KiB | 00m00s [660/684] perl-PadWalker-0:2.5-15.fc41. 100% | 3.0 MiB/s | 27.7 KiB | 00m00s [661/684] perl-Data-OptList-0:0.114-5.f 100% | 2.6 MiB/s | 26.9 KiB | 00m00s [662/684] perl-Package-Generator-0:1.10 100% | 2.4 MiB/s | 22.5 KiB | 00m00s [663/684] perl-Params-Util-0:1.102-16.f 100% | 3.6 MiB/s | 33.3 KiB | 00m00s [664/684] perl-Sub-Install-0:0.929-6.fc 100% | 1.7 MiB/s | 22.9 KiB | 00m00s [665/684] libassuan-0:2.5.7-2.fc41.i686 100% | 6.8 MiB/s | 69.5 KiB | 00m00s [666/684] gpgmepp-0:1.23.2-5.fc41.i686 100% | 12.1 MiB/s | 148.2 KiB | 00m00s [667/684] libgpg-error-0:1.50-2.fc41.i6 100% | 19.2 MiB/s | 235.7 KiB | 00m00s [668/684] gpgme-0:1.23.2-5.fc41.i686 100% | 15.6 MiB/s | 223.8 KiB | 00m00s [669/684] graphviz-libs-0:12.1.2-1.fc41 100% | 27.2 MiB/s | 528.3 KiB | 00m00s [670/684] libksba-0:1.6.7-2.fc41.i686 100% | 6.6 MiB/s | 162.9 KiB | 00m00s [671/684] libgcrypt-0:1.11.0-3.fc41.i68 100% | 13.4 MiB/s | 535.9 KiB | 00m00s [672/684] npth-0:1.7-2.fc41.i686 100% | 2.2 MiB/s | 25.3 KiB | 00m00s [673/684] json-c-0:0.17-4.fc41.i686 100% | 4.2 MiB/s | 47.3 KiB | 00m00s [674/684] tpm2-tss-0:4.1.3-3.fc41.i686 100% | 12.4 MiB/s | 368.3 KiB | 00m00s [675/684] gnupg2-0:2.4.5-3.fc41.i686 100% | 30.9 MiB/s | 2.8 MiB | 00m00s [676/684] xpdf-libs-1:4.05-5.fc41.i686 100% | 17.9 MiB/s | 642.1 KiB | 00m00s [677/684] gcc-plugin-annobin-0:14.2.1-3 100% | 6.0 MiB/s | 55.4 KiB | 00m00s [678/684] annobin-docs-0:12.69-1.fc41.n 100% | 9.0 MiB/s | 91.8 KiB | 00m00s [679/684] annobin-plugin-gcc-0:12.69-1. 100% | 24.3 MiB/s | 971.6 KiB | 00m00s [680/684] pyproject-rpm-macros-0:1.15.1 100% | 3.8 MiB/s | 43.3 KiB | 00m00s [681/684] python-rpm-macros-0:3.13-3.fc 100% | 1.9 MiB/s | 17.7 KiB | 00m00s [682/684] python3-rpm-generators-0:14-1 100% | 2.9 MiB/s | 29.3 KiB | 00m00s [683/684] python3-rpm-macros-0:3.13-3.f 100% | 1.2 MiB/s | 12.4 KiB | 00m00s [684/684] cmake-rpm-macros-0:3.28.3-7.f 100% | 1.9 MiB/s | 17.7 KiB | 00m00s -------------------------------------------------------------------------------- [684/684] Total 100% | 48.0 MiB/s | 416.5 MiB | 00m09s Running transaction [ 1/686] Verify package files 100% | 481.0 B/s | 684.0 B | 00m01s [ 2/686] Prepare transaction 100% | 1.4 KiB/s | 684.0 B | 00m00s [ 3/686] Installing texlive-base-11:20 100% | 345.8 MiB/s | 19.0 MiB | 00m00s [ 4/686] Installing fonts-filesystem-1 100% | 0.0 B/s | 788.0 B | 00m00s [ 5/686] Installing urw-base35-fonts-c 100% | 37.5 MiB/s | 38.4 KiB | 00m00s [ 6/686] Installing python-rpm-macros- 100% | 22.3 MiB/s | 22.8 KiB | 00m00s [ 7/686] Installing cmake-filesystem-0 100% | 2.3 MiB/s | 7.1 KiB | 00m00s [ 8/686] Installing texlive-lib-11:202 100% | 160.5 MiB/s | 1.1 MiB | 00m00s [ 9/686] Installing libpng-2:1.6.40-4. 100% | 126.2 MiB/s | 258.5 KiB | 00m00s [ 10/686] Installing nspr-0:4.35.0-29.f 100% | 110.3 MiB/s | 339.0 KiB | 00m00s [ 11/686] Installing expat-0:2.6.3-1.fc 100% | 144.6 MiB/s | 296.1 KiB | 00m00s [ 12/686] Installing libgpg-error-0:1.5 100% | 124.7 MiB/s | 893.8 KiB | 00m00s [ 13/686] Installing libjpeg-turbo-0:3. 100% | 205.7 MiB/s | 842.6 KiB | 00m00s [ 14/686] Installing nss-util-0:3.104.0 100% | 96.3 MiB/s | 197.3 KiB | 00m00s [ 15/686] Installing libwebp-0:1.4.0-4. 100% | 170.2 MiB/s | 871.5 KiB | 00m00s [ 16/686] Installing libassuan-0:2.5.7- 100% | 82.5 MiB/s | 168.9 KiB | 00m00s [ 17/686] Installing libpaper-1:2.1.1-7 100% | 48.7 MiB/s | 49.8 KiB | 00m00s [ 18/686] Installing libmpc-0:1.3.1-6.f 100% | 82.8 MiB/s | 169.6 KiB | 00m00s [ 19/686] Installing python3-rpm-macros 100% | 6.5 MiB/s | 6.7 KiB | 00m00s [ 20/686] Installing adobe-mappings-cma 100% | 257.4 MiB/s | 14.4 MiB | 00m00s [ 21/686] Installing libICE-0:1.1.1-4.f 100% | 90.6 MiB/s | 185.5 KiB | 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| 8.9 MiB/s | 18.2 KiB | 00m00s [ 48/686] Installing openblas-0:0.3.26- 100% | 95.5 MiB/s | 97.8 KiB | 00m00s [ 49/686] Installing poppler-data-0:0.4 100% | 206.5 MiB/s | 12.4 MiB | 00m00s [ 50/686] Installing texlive-texlive-co 100% | 87.2 MiB/s | 268.0 KiB | 00m00s [ 51/686] Installing kernel-headers-0:6 100% | 103.9 MiB/s | 6.5 MiB | 00m00s [ 52/686] Installing glibc-headers-x86- 100% | 84.6 MiB/s | 2.3 MiB | 00m00s [ 53/686] Installing libxcrypt-devel-0: 100% | 15.9 MiB/s | 32.6 KiB | 00m00s [ 54/686] Installing glibc-devel-0:2.40 100% | 15.7 MiB/s | 32.2 KiB | 00m00s [ 55/686] Installing adobe-mappings-pdf 100% | 258.6 MiB/s | 4.4 MiB | 00m00s [ 56/686] Installing libX11-common-0:1. 100% | 39.6 MiB/s | 1.2 MiB | 00m00s [ 57/686] Installing xml-common-0:0.6.3 100% | 15.8 MiB/s | 81.1 KiB | 00m00s [ 58/686] Installing tzdata-0:2024a-9.f 100% | 25.5 MiB/s | 1.9 MiB | 00m00s [ 59/686] Installing python-pip-wheel-0 100% | 413.9 MiB/s | 1.2 MiB | 00m00s [ 60/686] Installing 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100% | 65.7 MiB/s | 201.9 KiB | 00m00s [240/686] Installing perl-Sub-Exporter- 100% | 28.2 MiB/s | 28.9 KiB | 00m00s [241/686] Installing perl-Devel-GlobalD 100% | 18.6 MiB/s | 19.0 KiB | 00m00s [242/686] Installing perl-Devel-CallChe 100% | 37.6 MiB/s | 38.5 KiB | 00m00s [243/686] Installing perl-Params-Classi 100% | 51.5 MiB/s | 52.7 KiB | 00m00s [244/686] Installing perl-DateTime-Time 100% | 28.9 MiB/s | 29.6 KiB | 00m00s [245/686] Installing perl-DateTime-Time 100% | 25.2 MiB/s | 25.8 KiB | 00m00s [246/686] Installing perl-Text-Soundex- 100% | 25.6 MiB/s | 52.4 KiB | 00m00s [247/686] Installing perl-Text-BibTeX-0 100% | 85.2 MiB/s | 523.8 KiB | 00m00s [248/686] Installing perl-Unicode-Colla 100% | 237.1 MiB/s | 4.0 MiB | 00m00s [249/686] Installing perl-Params-Valida 100% | 52.0 MiB/s | 159.6 KiB | 00m00s [250/686] Installing perl-Opcode-0:1.65 100% | 52.0 MiB/s | 53.2 KiB | 00m00s [251/686] Installing perl-Safe-0:2.46-5 100% | 0.0 B/s | 31.0 KiB | 00m00s [252/686] Installing perl-Digest-SHA-1: 100% | 57.8 MiB/s | 118.4 KiB | 00m00s [253/686] Installing perl-Digest-HMAC-0 100% | 29.4 MiB/s | 30.1 KiB | 00m00s [254/686] Installing perl-NTLM-0:1.09-3 100% | 31.9 MiB/s | 32.7 KiB | 00m00s [255/686] Installing perl-Sort-Key-0:1. 100% | 41.4 MiB/s | 84.7 KiB | 00m00s [256/686] Installing perl-autovivificat 100% | 61.5 MiB/s | 63.0 KiB | 00m00s [257/686] Installing perl-IPC-SysV-0:2. 100% | 39.1 MiB/s | 80.1 KiB | 00m00s [258/686] Installing perl-Filter-2:1.64 100% | 32.7 MiB/s | 167.6 KiB | 00m00s [259/686] Installing perl-encoding-4:3. 100% | 146.9 MiB/s | 150.4 KiB | 00m00s [260/686] Installing perl-open-0:1.13-5 100% | 0.0 B/s | 11.7 KiB | 00m00s [261/686] Installing perl-XString-0:0.0 100% | 9.3 MiB/s | 38.2 KiB | 00m00s [262/686] Installing perl-Sub-Identify- 100% | 17.4 MiB/s | 35.6 KiB | 00m00s [263/686] Installing perl-Sys-Syslog-0: 100% | 47.0 MiB/s | 96.3 KiB | 00m00s [264/686] Installing perl-Compress-Raw- 100% | 34.7 MiB/s | 71.1 KiB | 00m00s [265/686] Installing perl-IO-Compress-0 100% | 128.6 MiB/s | 1.0 MiB | 00m00s [266/686] Installing perl-HTTP-Message- 100% | 71.6 MiB/s | 219.9 KiB | 00m00s [267/686] Installing perl-HTTP-Negotiat 100% | 28.0 MiB/s | 28.7 KiB | 00m00s [268/686] Installing perl-Net-HTTP-0:6. 100% | 37.7 MiB/s | 77.2 KiB | 00m00s [269/686] Installing perl-HTTP-Cookies- 100% | 73.9 MiB/s | 75.7 KiB | 00m00s [270/686] Installing perl-HTML-Parser-0 100% | 71.1 MiB/s | 291.1 KiB | 00m00s [271/686] Installing perl-libwww-perl-0 100% | 103.6 MiB/s | 530.3 KiB | 00m00s [272/686] Installing perl-LWP-Protocol- 100% | 30.4 MiB/s | 31.1 KiB | 00m00s [273/686] Installing perl-XML-SAX-0:1.0 100% | 1.6 MiB/s | 126.0 KiB | 00m00s [274/686] Installing perltidy-0:2024090 100% | 259.2 MiB/s | 3.9 MiB | 00m00s [275/686] Installing perl-XML-LibXML-1: 100% | 7.1 MiB/s | 987.0 KiB | 00m00s [276/686] Installing perl-XML-Parser-0: 100% | 93.0 MiB/s | 666.9 KiB | 00m00s [277/686] Installing perl-XML-XPath-0:1 100% | 51.3 MiB/s | 210.1 KiB | 00m00s [278/686] Installing texlive-epstopdf-1 100% | 39.6 MiB/s | 40.6 KiB | 00m00s [279/686] Installing texlive-epstopdf-p 100% | 189.4 MiB/s | 388.0 KiB | 00m00s [280/686] Installing texlive-cm-11:svn5 100% | 84.0 MiB/s | 1.0 MiB | 00m00s [281/686] Installing texlive-etex-11:sv 100% | 41.7 MiB/s | 42.7 KiB | 00m00s [282/686] Installing texlive-hyph-utf8- 100% | 74.8 MiB/s | 76.6 KiB | 00m00s [283/686] Installing texlive-hyphen-bas 100% | 64.3 MiB/s | 65.9 KiB | 00m00s [284/686] Installing texlive-knuth-lib- 100% | 34.6 MiB/s | 106.3 KiB | 00m00s [285/686] Installing texlive-plain-11:s 100% | 55.6 MiB/s | 113.8 KiB | 00m00s [286/686] Installing texlive-tex-ini-fi 100% | 9.9 MiB/s | 10.1 KiB | 00m00s [287/686] Installing texlive-unicode-da 100% | 307.1 MiB/s | 3.1 MiB | 00m00s [288/686] Installing texlive-graphics-d 100% | 97.5 MiB/s | 99.9 KiB | 00m00s [289/686] Installing texlive-luatex-11: 100% | 305.9 MiB/s | 9.5 MiB | 00m00s [290/686] Installing texlive-gsftopk-11 100% | 23.3 MiB/s | 47.7 KiB | 00m00s [291/686] Installing texlive-texlive.in 100% | 201.4 MiB/s | 1.0 MiB | 00m00s [292/686] Installing texlive-texlive-sc 100% | 68.2 MiB/s | 349.1 KiB | 00m00s [293/686] Installing texlive-kpathsea-1 100% | 230.0 MiB/s | 2.1 MiB | 00m00s [294/686] Installing texlive-iftex-11:s 100% | 29.6 MiB/s | 30.3 KiB | 00m00s [295/686] Installing texlive-amsmath-11 100% | 262.4 MiB/s | 268.7 KiB | 00m00s [296/686] Installing texlive-pdftexcmds 100% | 207.8 MiB/s | 425.6 KiB | 00m00s [297/686] Installing texlive-kvoptions- 100% | 269.3 MiB/s | 551.6 KiB | 00m00s [298/686] Installing texlive-ltxcmds-11 100% | 207.8 MiB/s | 425.5 KiB | 00m00s [299/686] Installing texlive-url-11:svn 100% | 10.8 MiB/s | 22.1 KiB | 00m00s [300/686] Installing texlive-amsfonts-1 100% | 147.4 MiB/s | 6.0 MiB | 00m00s [301/686] Installing texlive-atbegshi-1 100% | 217.3 MiB/s | 445.1 KiB | 00m00s [302/686] Installing texlive-booktabs-1 100% | 18.6 MiB/s | 19.0 KiB | 00m00s [303/686] Installing texlive-infwarerr- 100% | 300.3 MiB/s | 307.5 KiB | 00m00s [304/686] Installing texlive-atveryend- 100% | 133.8 MiB/s | 411.2 KiB | 00m00s [305/686] Installing texlive-babel-11:s 100% | 28.8 MiB/s | 2.2 MiB | 00m00s [306/686] Installing texlive-etex-pkg-1 100% | 0.0 B/s | 19.0 KiB | 00m00s [307/686] Installing texlive-etoolbox-1 100% | 66.1 MiB/s | 67.7 KiB | 00m00s [308/686] Installing texlive-pdfescape- 100% | 368.3 MiB/s | 377.2 KiB | 00m00s [309/686] Installing texlive-auxhook-11 100% | 296.1 MiB/s | 303.2 KiB | 00m00s [310/686] Installing texlive-etexcmds-1 100% | 314.7 MiB/s | 322.3 KiB | 00m00s [311/686] Installing texlive-latex-font 100% | 40.4 MiB/s | 124.2 KiB | 00m00s [312/686] Installing texlive-fp-11:svn4 100% | 62.4 MiB/s | 127.9 KiB | 00m00s [313/686] Installing texlive-hologo-11: 100% | 325.3 MiB/s | 666.1 KiB | 00m00s [314/686] Installing texlive-ragged2e-1 100% | 358.1 MiB/s | 733.3 KiB | 00m00s [315/686] Installing texlive-setspace-1 100% | 0.0 B/s | 22.4 KiB | 00m00s [316/686] Installing texlive-hycolor-11 100% | 201.7 MiB/s | 413.1 KiB | 00m00s [317/686] Installing texlive-bigintcalc 100% | 252.4 MiB/s | 516.8 KiB | 00m00s [318/686] Installing texlive-graphics-c 100% | 3.8 MiB/s | 3.9 KiB | 00m00s [319/686] Installing texlive-graphics-1 100% | 62.8 MiB/s | 128.7 KiB | 00m00s [320/686] Installing texlive-tools-11:s 100% | 100.5 MiB/s | 411.7 KiB | 00m00s [321/686] Installing texlive-xkeyval-11 100% | 69.9 MiB/s | 71.6 KiB | 00m00s [322/686] Installing texlive-geometry-1 100% | 49.1 MiB/s | 50.2 KiB | 00m00s [323/686] Installing texlive-caption-11 100% | 297.1 MiB/s | 912.6 KiB | 00m00s [324/686] Installing texlive-colortbl-1 100% | 21.3 MiB/s | 21.8 KiB | 00m00s [325/686] Installing texlive-intcalc-11 100% | 230.9 MiB/s | 472.8 KiB | 00m00s [326/686] Installing texlive-kvsetkeys- 100% | 209.4 MiB/s | 428.8 KiB | 00m00s [327/686] Installing texlive-l3backend- 100% | 100.6 MiB/s | 1.1 MiB | 00m00s [328/686] Installing texlive-letltxmacr 100% | 305.3 MiB/s | 312.6 KiB | 00m00s [329/686] Installing texlive-natbib-11: 100% | 131.1 MiB/s | 134.2 KiB | 00m00s [330/686] Installing texlive-uniquecoun 100% | 102.0 MiB/s | 313.5 KiB | 00m00s [331/686] Installing texlive-lm-11:svn6 100% | 301.8 MiB/s | 39.5 MiB | 00m00s [332/686] Installing texlive-footmisc-1 100% | 64.1 MiB/s | 65.6 KiB | 00m00s [333/686] Installing texlive-hypdoc-11: 100% | 351.1 MiB/s | 359.5 KiB | 00m00s [334/686] Installing texlive-multido-11 100% | 19.2 MiB/s | 19.6 KiB | 00m00s [335/686] Installing texlive-rerunfilec 100% | 354.8 MiB/s | 363.3 KiB | 00m00s [336/686] Installing texlive-subfig-11: 100% | 36.6 MiB/s | 37.5 KiB | 00m00s [337/686] Installing texlive-carlisle-1 100% | 32.0 MiB/s | 32.8 KiB | 00m00s [338/686] Installing texlive-translator 100% | 84.6 MiB/s | 519.8 KiB | 00m00s [339/686] Installing texlive-csquotes-1 100% | 110.6 MiB/s | 113.3 KiB | 00m00s [340/686] Installing texlive-sauerj-11: 100% | 27.9 MiB/s | 28.6 KiB | 00m00s [341/686] Installing texlive-bitset-11: 100% | 324.0 MiB/s | 663.5 KiB | 00m00s [342/686] Installing texlive-catchfile- 100% | 312.5 MiB/s | 320.0 KiB | 00m00s [343/686] Installing texlive-ifplatform 100% | 13.1 MiB/s | 13.5 KiB | 00m00s [344/686] Installing texlive-memoir-11: 100% | 157.4 MiB/s | 483.6 KiB | 00m00s [345/686] Installing texlive-babelbib-1 100% | 192.2 MiB/s | 787.2 KiB | 00m00s [346/686] Installing texlive-euenc-11:s 100% | 41.2 MiB/s | 42.2 KiB | 00m00s [347/686] Installing texlive-euler-11:s 100% | 20.9 MiB/s | 21.4 KiB | 00m00s [348/686] Installing texlive-everyshi-1 100% | 155.2 MiB/s | 158.9 KiB | 00m00s [349/686] Installing texlive-fancybox-1 100% | 40.5 MiB/s | 41.5 KiB | 00m00s [350/686] Installing texlive-float-11:s 100% | 7.9 MiB/s | 16.2 KiB | 00m00s [351/686] Installing texlive-grffile-11 100% | 185.9 MiB/s | 380.7 KiB | 00m00s [352/686] Installing texlive-index-11:s 100% | 60.7 MiB/s | 62.1 KiB | 00m00s [353/686] Installing texlive-pdflscape- 100% | 336.7 MiB/s | 344.8 KiB | 00m00s [354/686] Installing texlive-ucharcat-1 100% | 10.7 MiB/s | 10.9 KiB | 00m00s [355/686] Installing texlive-underscore 100% | 19.6 MiB/s | 20.1 KiB | 00m00s [356/686] Installing texlive-varwidth-1 100% | 19.8 MiB/s | 20.3 KiB | 00m00s [357/686] Installing texlive-bookmark-1 100% | 279.4 MiB/s | 572.2 KiB | 00m00s [358/686] Installing texlive-fancyhdr-1 100% | 31.9 MiB/s | 32.7 KiB | 00m00s [359/686] Installing texlive-firstaid-1 100% | 291.8 MiB/s | 298.8 KiB | 00m00s [360/686] Installing texlive-gettitlest 100% | 332.2 MiB/s | 340.1 KiB | 00m00s [361/686] Installing texlive-grfext-11: 100% | 321.3 MiB/s | 329.1 KiB | 00m00s [362/686] Installing texlive-kvdefineke 100% | 308.1 MiB/s | 315.5 KiB | 00m00s [363/686] Installing texlive-latexconfi 100% | 9.6 MiB/s | 9.8 KiB | 00m00s [364/686] Installing texlive-refcount-1 100% | 170.5 MiB/s | 349.2 KiB | 00m00s [365/686] Installing texlive-stringenc- 100% | 210.8 MiB/s | 1.1 MiB | 00m00s [366/686] Installing texlive-marvosym-1 100% | 91.9 MiB/s | 188.3 KiB | 00m00s [367/686] Installing texlive-zapfding-1 100% | 40.4 MiB/s | 82.7 KiB | 00m00s [368/686] Installing texlive-glyphlist- 100% | 89.0 MiB/s | 91.1 KiB | 00m00s [369/686] Installing texlive-lua-alt-ge 100% | 0.0 B/s | 4.3 KiB | 00m00s [370/686] Installing texlive-modes-11:s 100% | 191.4 MiB/s | 391.9 KiB | 00m00s [371/686] Installing texlive-zref-11:sv 100% | 200.7 MiB/s | 822.0 KiB | 00m00s [372/686] Installing texlive-palatino-1 100% | 80.0 MiB/s | 1.1 MiB | 00m00s [373/686] Installing texlive-paralist-1 100% | 23.6 MiB/s | 24.1 KiB | 00m00s [374/686] Installing texlive-placeins-1 100% | 5.2 MiB/s | 5.4 KiB | 00m00s [375/686] Installing texlive-auto-pst-p 100% | 15.2 MiB/s | 15.6 KiB | 00m00s [376/686] Installing texlive-breakurl-1 100% | 17.5 MiB/s | 17.9 KiB | 00m00s [377/686] Installing texlive-fancyref-1 100% | 27.9 MiB/s | 28.6 KiB | 00m00s [378/686] Installing texlive-mathtools- 100% | 128.7 MiB/s | 131.8 KiB | 00m00s [379/686] Installing texlive-ltabptch-1 100% | 3.5 MiB/s | 21.6 KiB | 00m00s [380/686] Installing texlive-crop-11:sv 100% | 26.8 MiB/s | 27.4 KiB | 00m00s [381/686] Installing texlive-microtype- 100% | 151.6 MiB/s | 465.6 KiB | 00m00s [382/686] Installing texlive-pdfmanagem 100% | 481.7 MiB/s | 11.6 MiB | 00m00s [383/686] Installing texlive-psfrag-11: 100% | 12.7 MiB/s | 13.0 KiB | 00m00s [384/686] Installing texlive-logreq-11: 100% | 26.6 MiB/s | 27.2 KiB | 00m00s [385/686] Installing texlive-hopatch-11 100% | 339.1 MiB/s | 347.2 KiB | 00m00s [386/686] Installing texlive-anysize-11 100% | 0.0 B/s | 4.1 KiB | 00m00s [387/686] Installing texlive-cite-11:sv 100% | 61.7 MiB/s | 63.2 KiB | 00m00s [388/686] Installing texlive-cmap-11:sv 100% | 37.9 MiB/s | 38.8 KiB | 00m00s [389/686] Installing texlive-everysel-1 100% | 224.3 MiB/s | 459.4 KiB | 00m00s [390/686] Installing texlive-footnotehy 100% | 30.5 MiB/s | 31.3 KiB | 00m00s [391/686] Installing texlive-latexbug-1 100% | 138.6 MiB/s | 283.8 KiB | 00m00s [392/686] Installing texlive-lwarp-11:s 100% | 144.6 MiB/s | 4.9 MiB | 00m00s [393/686] Installing texlive-mdwtools-1 100% | 55.8 MiB/s | 114.2 KiB | 00m00s [394/686] Installing texlive-newfloat-1 100% | 156.0 MiB/s | 159.7 KiB | 00m00s [395/686] Installing texlive-ntgclass-1 100% | 92.8 MiB/s | 285.2 KiB | 00m00s [396/686] Installing texlive-parskip-11 100% | 16.3 MiB/s | 16.7 KiB | 00m00s [397/686] Installing texlive-pdfcolfoot 100% | 329.2 MiB/s | 337.1 KiB | 00m00s [398/686] Installing texlive-rcs-11:svn 100% | 46.6 MiB/s | 47.7 KiB | 00m00s [399/686] Installing texlive-sansmath-1 100% | 9.1 MiB/s | 9.3 KiB | 00m00s [400/686] Installing texlive-section-11 100% | 38.0 MiB/s | 38.9 KiB | 00m00s [401/686] Installing texlive-sepnum-11: 100% | 15.4 MiB/s | 15.8 KiB | 00m00s [402/686] Installing texlive-textcase-1 100% | 11.7 MiB/s | 12.0 KiB | 00m00s [403/686] Installing texlive-collectbox 100% | 27.7 MiB/s | 28.3 KiB | 00m00s [404/686] Installing texlive-ifoddpage- 100% | 21.0 MiB/s | 21.5 KiB | 00m00s [405/686] Installing texlive-listofitem 100% | 312.4 MiB/s | 959.6 KiB | 00m00s [406/686] Installing texlive-babel-engl 100% | 45.4 MiB/s | 46.5 KiB | 00m00s [407/686] Installing texlive-fix2col-11 100% | 17.0 MiB/s | 17.4 KiB | 00m00s [408/686] Installing texlive-latex-lab- 100% | 385.1 MiB/s | 2.3 MiB | 00m00s [409/686] Installing texlive-mfnfss-11: 100% | 24.2 MiB/s | 24.7 KiB | 00m00s [410/686] Installing texlive-mptopdf-11 100% | 75.0 MiB/s | 153.5 KiB | 00m00s [411/686] Installing texlive-pagesel-11 100% | 347.7 MiB/s | 356.1 KiB | 00m00s [412/686] Installing texlive-pslatex-11 100% | 28.5 MiB/s | 29.2 KiB | 00m00s [413/686] Installing texlive-pspicture- 100% | 14.4 MiB/s | 14.7 KiB | 00m00s [414/686] Installing texlive-transparen 100% | 148.3 MiB/s | 303.7 KiB | 00m00s [415/686] Installing texlive-kastrup-11 100% | 4.1 MiB/s | 4.2 KiB | 00m00s [416/686] Installing texlive-rsfs-11:sv 100% | 49.9 MiB/s | 102.2 KiB | 00m00s [417/686] Installing texlive-marginnote 100% | 22.8 MiB/s | 23.3 KiB | 00m00s [418/686] Installing texlive-mparhack-1 100% | 20.6 MiB/s | 21.1 KiB | 00m00s [419/686] Installing texlive-picture-11 100% | 317.1 MiB/s | 324.8 KiB | 00m00s [420/686] Installing texlive-finstrut-1 100% | 25.7 MiB/s | 26.4 KiB | 00m00s [421/686] Installing texlive-lineno-11: 100% | 233.2 MiB/s | 238.8 KiB | 00m00s [422/686] Installing texlive-luabidi-11 100% | 26.1 MiB/s | 26.8 KiB | 00m00s [423/686] Installing texlive-makecmds-1 100% | 11.6 MiB/s | 11.9 KiB | 00m00s [424/686] Installing texlive-lm-math-11 100% | 239.9 MiB/s | 736.9 KiB | 00m00s [425/686] Installing texlive-pdfcolmk-1 100% | 20.2 MiB/s | 20.7 KiB | 00m00s [426/686] Installing texlive-xcolor-11: 100% | 78.8 MiB/s | 80.7 KiB | 00m00s [427/686] Installing texlive-eso-pic-11 100% | 27.9 MiB/s | 28.6 KiB | 00m00s [428/686] Installing texlive-ctable-11: 100% | 20.9 MiB/s | 21.4 KiB | 00m00s [429/686] Installing texlive-hobsub-11: 100% | 80.0 MiB/s | 81.9 KiB | 00m00s 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| 1.4 MiB | 00m00s [443/686] Installing texlive-beton-11:s 100% | 12.2 MiB/s | 12.5 KiB | 00m00s [444/686] Installing texlive-parallel-1 100% | 22.8 MiB/s | 23.3 KiB | 00m00s [445/686] Installing texlive-pdfcol-11: 100% | 169.3 MiB/s | 346.8 KiB | 00m00s [446/686] Installing texlive-avantgar-1 100% | 103.5 MiB/s | 1.2 MiB | 00m00s [447/686] Installing texlive-bookman-11 100% | 94.9 MiB/s | 1.2 MiB | 00m00s [448/686] Installing texlive-charter-11 100% | 81.1 MiB/s | 415.0 KiB | 00m00s [449/686] Installing texlive-courier-11 100% | 91.5 MiB/s | 937.1 KiB | 00m00s [450/686] Installing texlive-helvetic-1 100% | 101.6 MiB/s | 1.8 MiB | 00m00s [451/686] Installing texlive-symbol-11: 100% | 26.7 MiB/s | 82.0 KiB | 00m00s [452/686] Installing texlive-times-11:s 100% | 83.2 MiB/s | 1.0 MiB | 00m00s [453/686] Installing texlive-utopia-11: 100% | 107.7 MiB/s | 551.4 KiB | 00m00s [454/686] Installing texlive-fileconten 100% | 12.7 MiB/s | 13.0 KiB | 00m00s [455/686] Installing texlive-lua-uni-al 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Finish: build setup for apbs-3.0.0-25.fc41.src.rpm Start: rpmbuild apbs-3.0.0-25.fc41.src.rpm Building target platforms: i686 Building for target i686 setting SOURCE_DATE_EPOCH=1721174400 Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.PFrt0V + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + test -d /builddir/build/BUILD/apbs-3.0.0-build + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/apbs-3.0.0-build + /usr/bin/rm -rf /builddir/build/BUILD/apbs-3.0.0-build + /usr/bin/mkdir -p /builddir/build/BUILD/apbs-3.0.0-build + /usr/bin/mkdir -p /builddir/build/BUILD/apbs-3.0.0-build/SPECPARTS + RPM_EC=0 ++ jobs -p + exit 0 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.9ZMZYm + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + cd /builddir/build/BUILD/apbs-3.0.0-build + rm -rf apbs-3.0.0 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/apbs-3.0.0.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd apbs-3.0.0 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . Patch #0 (apbs-cmake.patch): + echo 'Patch #0 (apbs-cmake.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p2 -b --suffix .apbs-cmake --fuzz=0 patching file CMakeLists.txt patching file src/CMakeLists.txt patching file tools/manip/CMakeLists.txt patching file tools/mesh/CMakeLists.txt Patch #1 (apbs-exclude_tests.patch): + echo 'Patch #1 (apbs-exclude_tests.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .exclude_tests --fuzz=0 patching file tests/test_cases.cfg Patch #2 (apbs-python311.patch): + echo 'Patch #2 (apbs-python311.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .python311 --fuzz=0 patching file tools/manip/inputgen.py Patch #3 (apbs-c99.patch): + echo 'Patch #3 (apbs-c99.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0 patching file contrib/iapbs/src/apbs_driver.c + cp -p contrib/iapbs/COPYING contrib/iapbs/iapbs-COPYING + cp -p /builddir/build/SOURCES/apbs-LGPL_V2 contrib/iapbs/iapbs-LGPLv2 + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.iStEuH + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd apbs-3.0.0 + export 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fopenmp -lm' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fopenmp -lm' + export 'CXXFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fopenmp -lm' + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fopenmp -lm' + mkdir -p build + cmake -S . -B build -DCMAKE_BUILD_TYPE:STRING=Release -DENABLE_iAPBS:BOOL=ON -DENABLE_OPENMP:BOOL=ON -DENABLE_VERBOSE_DEBUG:BOOL=OFF -DENABLE_FETK:BOOL=OFF '-DCMAKE_C_FLAGS:STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fopenmp -lm -DNDEBUG' '-DCMAKE_CXX_FLAGS:STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fopenmp -lm -DNDEBUG' -DBUILD_SHARED_LIBS:BOOL=OFF -DENABLE_PYTHON:BOOL=ON -DBUILD_DOC:BOOL=ON -DBUILD_TESTING:BOOL=ON -DENABLE_TESTS:BOOL=ON -DCMAKE_INSTALL_PREFIX:PATH=/usr -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib -DSHARE_INSTALL_PREFIX:PATH=/usr/share CMake Deprecation Warning at CMakeLists.txt:11 (cmake_policy): The OLD behavior for policy CMP0054 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. -- The C compiler identification is GNU 14.2.1 -- The CXX compiler identification is GNU 14.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Setting project paths -- Setting lookup paths for headers and libraries -- Computing machine epsilon values -- Floating point epsilon is 2.220446e-16 -- Double precision epsilon is 2.220446e-16 -- Looking for time -- Looking for time - found -- Looking for rand -- Looking for rand - found -- Looking for srand -- Looking for srand - found -- Inline functions enabled -- Checking for OpenMP -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- OpenMP support enabled CMake Deprecation Warning at src/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Adding apbs_generic -- With source files nosh.c;mgparm.c;femparm.c;pbamparm.c;pbsamparm.c;pbeparm.c;bemparm.c;geoflowparm.c;apolparm.c;vacc.c;valist.c;vatom.c;vpbe.c;vcap.c;vclist.c;vstring.c;vparam.c;vgreen.c -- With external header files nosh.h;mgparm.h;femparm.h;pbamparm.h;pbsamparm.h;pbeparm.h;bemparm.h;geoflowparm.h;apolparm.h;vacc.h;valist.h;vatom.h;vpbe.h;vcap.h;vclist.h;vstring.h;vparam.h;vgreen.h;vmatrix.h;vhal.h;vunit.h -- With internal header files -- With library dependencies m;stdc++;maloc;-fopenmp -- Added apbs_generic -- Adding apbs_pmgc -- With source files buildAd.c;buildBd.c;buildGd.c;buildPd.c;cgd.c;gsd.c;matvecd.c;mgcsd.c;mgdrvd.c;mgsubd.c;mikpckd.c;mlinpckd.c;mypdec.c;newtond.c;newdrvd.c;powerd.c;smoothd.c;mgfasd.c -- With external header files buildAd.h;buildBd.h;buildGd.h;buildPd.h;cgd.h;gsd.h;matvecd.h;mgcsd.h;mgdrvd.h;mgsubd.h;mikpckd.h;mlinpckd.h;mypdec.h;newtond.h;newdrvd.h;powerd.h;smoothd.h;mgfasd.h -- With internal header files -- With library dependencies m;stdc++;maloc;-fopenmp -- Added apbs_pmgc -- Adding apbs_mg -- With source files vgrid.c;vmgrid.c;vopot.c;vpmg.c;vpmgp.c -- With external header files vgrid.h;vmgrid.h;vopot.h;vpmg.h;vpmgp.h -- With internal header files -- With library dependencies m;stdc++;maloc;-fopenmp;apbs_generic;apbs_pmgc -- Added apbs_mg -- Adding apbs_routines -- With source files routines.c -- With external header files -- With internal header files -- With library dependencies m;stdc++;maloc;-fopenmp -- Added apbs_routines -- External Headers: -- -- APBS Libraries: m;stdc++;maloc;-fopenmp -- Internal Libraries: apbs_generic;apbs_pmgc;apbs_mg;apbs_routines -- -- -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fopenmp -lm -DNDEBUG -fPIC -- Building documentation enabled -- Found Doxygen: /usr/bin/doxygen (found version "1.12.0") found components: doxygen dot -- Supplemental tools enabled -- Building mesh -- libraries: apbs -- Building manip -- libraries: apbs CMake Deprecation Warning at tools/python/CMakeLists.txt:2 (CMAKE_POLICY): The OLD behavior for policy CMP0078 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. CMake Deprecation Warning at tools/python/CMakeLists.txt:3 (CMAKE_POLICY): The OLD behavior for policy CMP0086 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. -- Found SWIG: /usr/bin/swig (found version "4.3.0") -- Found Python3: /usr/bin/python3.13 (found version "3.13.0") found components: Interpreter Development Development.Module Development.Embed -- ******* Python3 FOUND -- ***** Python3 include path is: /usr/include/python3.13 -- ***** Python3 library path is: /usr/lib/libpython3.13.so -- ***** Python3 library dir is: /usr/lib -- Building of iAPBS interface enabled -- Found Python3: /usr/bin/python3.13 (found version "3.13.0") found components: Interpreter -- ******* Python3 FOUND /usr/bin/python3.13 -- TEST born_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t born -- TEST actin-dimer-auto_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t actin-dimer-auto -- TEST actin-dimer-parallel_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t actin-dimer-parallel -- TEST alkanes_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t alkanes -- TEST FKBP_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t FKBP -- TEST hca-bind_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t hca-bind -- TEST ionize_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t ionize -- TEST ion-pmf_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t ion-pmf -- TEST ion-protein_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t ion-protein -- TEST pka-lig_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t pka-lig -- TEST point-pmf_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t point-pmf -- TEST solv_test COMMAND /usr/bin/python3.13 /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/apbs_tester.py -c /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests/test_cases.cfg -e /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/apbs -t solv -- Configuring done (3.0s) -- Generating done (0.1s) -- Build files have been written to: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build + make -O -j1 V=1 -C build make: Entering directory '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build' [ 1%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vgrid.c.o In file included from /usr/include/maloc/maloc.h:38, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.h:67, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:57: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c: In function ‘Vgrid_readDX’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:751:31: warning: format ‘%lu’ expects argument of type ‘long unsigned int *’, but argument 3 has type ‘size_t *’ {aka ‘unsigned int *’} [-Wformat=] 751 | VJMPERR1(1 == sscanf(tok, "%lu", &itmp)); | ^~~~~ ~~~~~ | | | size_t * {aka unsigned int *} /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:751:34: note: format string is defined here 751 | VJMPERR1(1 == sscanf(tok, "%lu", &itmp)); | ~~^ | | | long unsigned int * | %u /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c: In function ‘Vgrid_readDXBIN’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:816:13: warning: variable ‘isBinary’ set but not used [-Wunused-but-set-variable] 816 | int isBinary = 0; | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:813:25: warning: unused variable ‘itmp’ [-Wunused-variable] 813 | size_t i, j, k, itmp, u; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c: In function ‘Vgrid_writeUHBD’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:1697:36: warning: variable ‘hy’ set but not used [-Wunused-but-set-variable] 1697 | double xmin, ymin, zmin, hzed, hy, hx; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:1697:30: warning: variable ‘hzed’ set but not used [-Wunused-but-set-variable] 1697 | double xmin, ymin, zmin, hzed, hy, hx; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c: In function ‘Vgrid_readDXBIN’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:853:17: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 853 | fgets(tok, VMAX_BUFSIZE, fd); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:831:17: warning: argument 1 null where non-null expected [-Wnonnull] 831 | fclose(fd); | ^~~~~~~~~~ In file included from /usr/include/maloc/maloc_base.h:80: /usr/include/stdio.h:184:12: note: in a call to function ‘fclose’ declared ‘nonnull’ 184 | extern int fclose (FILE *__stream) __nonnull ((1)); | ^~~~~~ [ 2%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vmgrid.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.c: In function ‘Vmgrid_addGrid’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.c:198:12: warning: unused variable ‘tgrad’ [-Wunused-variable] 198 | double tgrad[3]; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.c:197:15: warning: unused variable ‘rc’ [-Wunused-variable] 197 | int i, j, rc; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.c:197:12: warning: unused variable ‘j’ [-Wunused-variable] 197 | int i, j, rc; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.c:197:9: warning: unused variable ‘i’ [-Wunused-variable] 197 | int i, j, rc; | ^ [ 3%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vopot.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.c: In function ‘Vopot_curvature’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.c:219:26: warning: variable ‘eps_w’ set but not used [-Wunused-but-set-variable] 219 | double u, T, charge, eps_w, xkappa, dist, size, val, *position, zkappa2; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.c:219:18: warning: variable ‘charge’ set but not used [-Wunused-but-set-variable] 219 | double u, T, charge, eps_w, xkappa, dist, size, val, *position, zkappa2; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.c:219:15: warning: variable ‘T’ set but not used [-Wunused-but-set-variable] 219 | double u, T, charge, eps_w, xkappa, dist, size, val, *position, zkappa2; | ^ [ 4%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vpmg.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘Vpmg_ctor2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:157:61: warning: variable ‘zkappa2’ set but not used [-Wunused-but-set-variable] 157 | double ionConc[MAXION], ionQ[MAXION], ionRadii[MAXION], zkappa2, zks2; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘Vpmg_qmEnergySMPBE’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1503:12: warning: variable ‘zks2’ set but not used [-Wunused-but-set-variable] 1503 | zks2; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘Vpmg_qfEnergyPoint’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1712:13: warning: variable ‘pvec’ set but not used [-Wunused-but-set-variable] 1712 | double *pvec; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1709:24: warning: variable ‘zmax’ set but not used [-Wunused-but-set-variable] 1709 | double xmax, ymax, zmax, xmin, ymin, zmin, hx, hy, hzed, ifloat, jfloat; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1709:18: warning: variable ‘ymax’ set but not used [-Wunused-but-set-variable] 1709 | double xmax, ymax, zmax, xmin, ymin, zmin, hx, hy, hzed, ifloat, jfloat; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1709:12: warning: variable ‘xmax’ set but not used [-Wunused-but-set-variable] 1709 | double xmax, ymax, zmax, xmin, ymin, zmin, hx, hy, hzed, ifloat, jfloat; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘Vpmg_qfAtomEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1794:36: warning: variable ‘zmax’ set but not used [-Wunused-but-set-variable] 1794 | double xmax, xmin, ymax, ymin, zmax, zmin, hx, hy, hzed, ifloat, jfloat; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1794:24: warning: variable ‘ymax’ set but not used [-Wunused-but-set-variable] 1794 | double xmax, xmin, ymax, ymin, zmax, zmin, hx, hy, hzed, ifloat, jfloat; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1794:12: warning: variable ‘xmax’ set but not used [-Wunused-but-set-variable] 1794 | double xmax, xmin, ymax, ymin, zmax, zmin, hx, hy, hzed, ifloat, jfloat; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘focusFillBound’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1953:12: warning: variable ‘charge’ set but not used [-Wunused-but-set-variable] 1953 | charge, | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1952:13: warning: variable ‘apos’ set but not used [-Wunused-but-set-variable] 1952 | *apos, | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1951:12: warning: variable ‘size’ set but not used [-Wunused-but-set-variable] 1951 | size, | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1950:12: warning: variable ‘xkappa’ set but not used [-Wunused-but-set-variable] 1950 | xkappa, | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcfl2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2668:40: warning: variable ‘qzy’ set but not used [-Wunused-but-set-variable] 2668 | double qxx,qxy,qxz,qyx,qyy,qyz,qzx,qzy,qzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2668:36: warning: variable ‘qzx’ set but not used [-Wunused-but-set-variable] 2668 | double qxx,qxy,qxz,qyx,qyy,qyz,qzx,qzy,qzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2668:24: warning: variable ‘qyx’ set but not used [-Wunused-but-set-variable] 2668 | double qxx,qxy,qxz,qyx,qyy,qyz,qzx,qzy,qzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcCalcOrig’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2832:34: warning: unused variable ‘debye’ [-Wunused-variable] 2832 | double *dipole, *quadrupole, debye, eps_p; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2832:22: warning: variable ‘quadrupole’ set but not used [-Wunused-but-set-variable] 2832 | double *dipole, *quadrupole, debye, eps_p; | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2832:13: warning: variable ‘dipole’ set but not used [-Wunused-but-set-variable] 2832 | double *dipole, *quadrupole, debye, eps_p; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcflnew’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3415:31: warning: variable ‘eps_p’ set but not used [-Wunused-but-set-variable] 3415 | double dist, pre1, eps_w, eps_p, T, xkappa; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3410:29: warning: unused variable ‘z1’ [-Wunused-variable] 3410 | int x0, x1, y0, y1, z0, z1; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3410:25: warning: unused variable ‘z0’ [-Wunused-variable] 3410 | int x0, x1, y0, y1, z0, z1; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3410:21: warning: unused variable ‘y1’ [-Wunused-variable] 3410 | int x0, x1, y0, y1, z0, z1; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3410:17: warning: unused variable ‘y0’ [-Wunused-variable] 3410 | int x0, x1, y0, y1, z0, z1; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3410:13: warning: unused variable ‘x1’ [-Wunused-variable] 3410 | int x0, x1, y0, y1, z0, z1; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3410:9: warning: unused variable ‘x0’ [-Wunused-variable] 3410 | int x0, x1, y0, y1, z0, z1; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3409:13: warning: unused variable ‘k’ [-Wunused-variable] 3409 | int i,j,k, iatom, igrid; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3409:11: warning: unused variable ‘j’ [-Wunused-variable] 3409 | int i,j,k, iatom, igrid; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3409:9: warning: unused variable ‘i’ [-Wunused-variable] 3409 | int i,j,k, iatom, igrid; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘multipolebc’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3492:19: warning: variable ‘kr3’ set but not used [-Wunused-but-set-variable] 3492 | double kr,kr2,kr3; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcfl_sdh’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3608:40: warning: variable ‘qzy’ set but not used [-Wunused-but-set-variable] 3608 | double qxx,qxy,qxz,qyx,qyy,qyz,qzx,qzy,qzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3608:36: warning: variable ‘qzx’ set but not used [-Wunused-but-set-variable] 3608 | double qxx,qxy,qxz,qyx,qyy,qyz,qzx,qzy,qzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3608:24: warning: variable ‘qyx’ set but not used [-Wunused-but-set-variable] 3608 | double qxx,qxy,qxz,qyx,qyy,qyz,qzx,qzy,qzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3604:22: warning: unused variable ‘quadrupole’ [-Wunused-variable] 3604 | double *dipole, *quadrupole; | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3604:13: warning: unused variable ‘dipole’ [-Wunused-variable] 3604 | double *dipole, *quadrupole; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcfl_mdh’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3875:41: warning: variable ‘eps_p’ set but not used [-Wunused-but-set-variable] 3875 | double size, charge, xkappa, eps_w, eps_p, T, pre1, dist; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3874:22: warning: unused variable ‘quadrupole’ [-Wunused-variable] 3874 | double *dipole, *quadrupole; | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3874:13: warning: unused variable ‘dipole’ [-Wunused-variable] 3874 | double *dipole, *quadrupole; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcfl_mem’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4008:24: warning: unused variable ‘edge_L’ [-Wunused-variable] 4008 | double A, B, C, D, edge_L, l; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4007:38: warning: unused variable ‘z_shift’ [-Wunused-variable] 4007 | double dist, val, z_low, z_high, z_shift; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4007:12: warning: unused variable ‘dist’ [-Wunused-variable] 4007 | double dist, val, z_low, z_high, z_shift; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcfl_map’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4177:38: warning: variable ‘hzed’ set but not used [-Wunused-but-set-variable] 4177 | double position[3], pot, hx, hy, hzed; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4177:34: warning: variable ‘hy’ set but not used [-Wunused-but-set-variable] 4177 | double position[3], pot, hx, hy, hzed; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4177:30: warning: variable ‘hx’ set but not used [-Wunused-but-set-variable] 4177 | double position[3], pot, hx, hy, hzed; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4176:11: warning: unused variable ‘pbe’ [-Wunused-variable] 4176 | Vpbe *pbe; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoCoefMap’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4492:46: warning: unused variable ‘pot’ [-Wunused-variable] 4492 | double ionstr, position[3], tkappa, eps, pot, hx, hy, hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoCoefMolIon’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4638:16: warning: variable ‘surfMeth’ set but not used [-Wunused-but-set-variable] 4638 | Vsurf_Meth surfMeth; | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4630:11: warning: variable ‘acc’ set but not used [-Wunused-but-set-variable] 4630 | Vacc *acc; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoCoefMolDielNoSmooth’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4746:30: warning: unused variable ‘deps’ [-Wunused-variable] 4746 | double srad, epsw, epsp, deps, area; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoCoefSpline’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5031:47: warning: variable ‘rtot2’ set but not used [-Wunused-but-set-variable] 5031 | double dx2, dy2, dz2, stot2, itot2, rtot, rtot2, splineWin, w3i; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoCharge’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5289:15: warning: unused variable ‘rc’ [-Wunused-variable] 5289 | Vrc_Codes rc; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoChargeMap’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5346:49: warning: variable ‘hzed’ set but not used [-Wunused-but-set-variable] 5346 | double position[3], charge, zmagic, hx, hy, hzed; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5346:45: warning: variable ‘hy’ set but not used [-Wunused-but-set-variable] 5346 | double position[3], charge, zmagic, hx, hy, hzed; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5346:41: warning: variable ‘hx’ set but not used [-Wunused-but-set-variable] 5346 | double position[3], charge, zmagic, hx, hy, hzed; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘Vpmg_force’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5829:12: warning: unused variable ‘npF’ [-Wunused-variable] 5829 | double npF[3]; /* Non-polar boundary force */ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘Vpmg_ibForce’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5854:24: warning: variable ‘zlen’ set but not used [-Wunused-but-set-variable] 5854 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax, rtot2; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5854:18: warning: variable ‘ylen’ set but not used [-Wunused-but-set-variable] 5854 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax, rtot2; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5854:12: warning: variable ‘xlen’ set but not used [-Wunused-but-set-variable] 5854 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax, rtot2; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:5848:13: warning: variable ‘alist’ set but not used [-Wunused-but-set-variable] 5848 | Valist *alist; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘Vpmg_dbForce’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6019:55: warning: variable ‘kT’ set but not used [-Wunused-but-set-variable] 6019 | double rtot, dx, gpos[3], tgrad[3], dbFmag, epsw, kT; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6019:18: warning: variable ‘dx’ set but not used [-Wunused-but-set-variable] 6019 | double rtot, dx, gpos[3], tgrad[3], dbFmag, epsw, kT; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6018:66: warning: variable ‘rtot2’ set but not used [-Wunused-but-set-variable] 6018 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax, rtot2, epsp; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6018:24: warning: variable ‘zlen’ set but not used [-Wunused-but-set-variable] 6018 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax, rtot2, epsp; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6018:18: warning: variable ‘ylen’ set but not used [-Wunused-but-set-variable] 6018 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax, rtot2, epsp; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6018:12: warning: variable ‘xlen’ set but not used [-Wunused-but-set-variable] 6018 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax, rtot2, epsp; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘qfForceSpline2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6453:24: warning: variable ‘zlen’ set but not used [-Wunused-but-set-variable] 6453 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6453:18: warning: variable ‘ylen’ set but not used [-Wunused-but-set-variable] 6453 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6453:12: warning: variable ‘xlen’ set but not used [-Wunused-but-set-variable] 6453 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘qfForceSpline4’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6576:15: warning: unused variable ‘k’ [-Wunused-variable] 6576 | int i, j, k, ii, jj, kk; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6576:12: warning: unused variable ‘j’ [-Wunused-variable] 6576 | int i, j, k, ii, jj, kk; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6568:24: warning: variable ‘zlen’ set but not used [-Wunused-but-set-variable] 6568 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6568:18: warning: variable ‘ylen’ set but not used [-Wunused-but-set-variable] 6568 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6568:12: warning: variable ‘xlen’ set but not used [-Wunused-but-set-variable] 6568 | double xlen, ylen, zlen, xmin, ymin, zmin, xmax, ymax, zmax; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘markFrac’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6692:39: warning: variable ‘a000’ set but not used [-Wunused-but-set-variable] 6692 | double dx, dx2, dy, dy2, dz, dz2, a000, a001, a010, a100, r2; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘zlapSolve’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6912:12: warning: unused variable ‘norm’ [-Wunused-variable] 6912 | double norm, coef, proj, eigx, eigy, eigz; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘Vpmg_solveLaplace’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7044:35: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 7044 | int i, j, k, ijk, nx, ny, nz, n, dilo, dihi, djlo, djhi, dklo, dkhi; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7044:18: warning: unused variable ‘ijk’ [-Wunused-variable] 7044 | int i, j, k, ijk, nx, ny, nz, n, dilo, dihi, djlo, djhi, dklo, dkhi; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoPermanentMultipole’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:58: warning: unused variable ‘mqzz’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:53: warning: unused variable ‘mqzy’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:48: warning: unused variable ‘mqzx’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:43: warning: unused variable ‘mqyy’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:38: warning: unused variable ‘mqyx’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:33: warning: unused variable ‘mqxx’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:29: warning: unused variable ‘muz’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:25: warning: unused variable ‘muy’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:21: warning: unused variable ‘mux’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:18: warning: unused variable ‘mc’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7263:12: warning: unused variable ‘debye’ [-Wunused-variable] 7263 | double debye,mc,mux,muy,muz,mqxx,mqyx,mqyy,mqzx,mqzy,mqzz; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7262:24: warning: unused variable ‘mr2’ [-Wunused-variable] 7262 | double mir,mjr,mkr,mr2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7262:20: warning: unused variable ‘mkr’ [-Wunused-variable] 7262 | double mir,mjr,mkr,mr2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7262:16: warning: unused variable ‘mjr’ [-Wunused-variable] 7262 | double mir,mjr,mkr,mr2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7262:12: warning: unused variable ‘mir’ [-Wunused-variable] 7262 | double mir,mjr,mkr,mr2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7258:9: warning: unused variable ‘i’ [-Wunused-variable] 7258 | int i, ii, jj, kk, nx, ny, nz, iatom; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7253:47: warning: unused variable ‘qave’ [-Wunused-variable] 7253 | double c,ux,uy,uz,qxx,qyx,qyy,qzx,qzy,qzz,qave; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7252:29: warning: unused variable ‘quad’ [-Wunused-variable] 7252 | double charge, *dipole,*quad; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7252:21: warning: unused variable ‘dipole’ [-Wunused-variable] 7252 | double charge, *dipole,*quad; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoCoefSpline4’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:9948:47: warning: variable ‘rtot2’ set but not used [-Wunused-but-set-variable] 9948 | double dx2, dy2, dz2, stot2, itot2, rtot, rtot2, splineWin; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:9946:42: warning: unused variable ‘w2i’ [-Wunused-variable] 9946 | double irad, dx, dy, dz, epsw, epsp, w2i; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoPermanentInduced’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10278:9: warning: unused variable ‘i’ [-Wunused-variable] 10278 | int i, ii, jj, kk, nx, ny, nz, iatom; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10273:47: warning: unused variable ‘qave’ [-Wunused-variable] 10273 | double c,ux,uy,uz,qxx,qyx,qyy,qzx,qzy,qzz,qave; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10272:29: warning: unused variable ‘quad’ [-Wunused-variable] 10272 | double charge, *dipole,*quad; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10272:21: warning: unused variable ‘dipole’ [-Wunused-variable] 10272 | double charge, *dipole,*quad; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘fillcoCoefSpline3’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10441:27: warning: variable ‘e5’ set but not used [-Wunused-but-set-variable] 10441 | double e, e2, e3, e4, e5; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10439:47: warning: variable ‘rtot2’ set but not used [-Wunused-but-set-variable] 10439 | double dx2, dy2, dz2, stot2, itot2, rtot, rtot2, splineWin; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10437:42: warning: unused variable ‘w2i’ [-Wunused-variable] 10437 | double irad, dx, dy, dz, epsw, epsp, w2i; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcolcomp’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10746:55: warning: variable ‘mxlv’ set but not used [-Wunused-but-set-variable] 10746 | int nrwk, niwk, nx, ny, nz, nlev, ierror, maxlev, mxlv; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10746:47: warning: unused variable ‘maxlev’ [-Wunused-variable] 10746 | int nrwk, niwk, nx, ny, nz, nlev, ierror, maxlev, mxlv; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10746:39: warning: unused variable ‘ierror’ [-Wunused-variable] 10746 | int nrwk, niwk, nx, ny, nz, nlev, ierror, maxlev, mxlv; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10746:15: warning: variable ‘niwk’ set but not used [-Wunused-but-set-variable] 10746 | int nrwk, niwk, nx, ny, nz, nlev, ierror, maxlev, mxlv; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10746:9: warning: variable ‘nrwk’ set but not used [-Wunused-but-set-variable] 10746 | int nrwk, niwk, nx, ny, nz, nlev, ierror, maxlev, mxlv; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10743:29: warning: unused variable ‘i’ [-Wunused-variable] 10743 | int nrow, ncol, nnzero, i; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10743:21: warning: unused variable ‘nnzero’ [-Wunused-variable] 10743 | int nrow, ncol, nnzero, i; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10743:15: warning: unused variable ‘ncol’ [-Wunused-variable] 10743 | int nrow, ncol, nnzero, i; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10743:9: warning: unused variable ‘nrow’ [-Wunused-variable] 10743 | int nrow, ncol, nnzero, i; | ^~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:93, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:73: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcolcomp2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10804:5: note: in expansion of macro ‘MAT2’ 10804 | MAT2(iz, 50, nlev); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcolcomp3’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10836:5: note: in expansion of macro ‘MAT2’ 10836 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c: In function ‘bcolcomp4’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10874:5: note: in expansion of macro ‘MAT3’ 10874 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10873:5: note: in expansion of macro ‘MAT3’ 10873 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10872:5: note: in expansion of macro ‘MAT3’ 10872 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10871:5: note: in expansion of macro ‘MAT3’ 10871 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10870:5: note: in expansion of macro ‘MAT3’ 10870 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10866:27: warning: variable ‘nrow’ set but not used [-Wunused-but-set-variable] 10866 | int inonz, iirow, nn, nrow, ncol, nonz, irow, n; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:7229:16: warning: ‘d3bspline4’ defined but not used [-Wunused-function] 7229 | VPUBLIC double d3bspline4(double x) { | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6684:15: warning: ‘markFrac’ defined but not used [-Wunused-function] 6684 | VPRIVATE void markFrac( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3868:15: warning: ‘bcfl_mdh’ defined but not used [-Wunused-function] 3868 | VPRIVATE void bcfl_mdh(Vpmg *thee){ | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2828:15: warning: ‘bcCalcOrig’ defined but not used [-Wunused-function] 2828 | VPRIVATE void bcCalcOrig(Vpmg *thee) { | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2547:17: warning: ‘bcfl1sp’ defined but not used [-Wunused-function] 2547 | VPRIVATE double bcfl1sp(double size, double *apos, double charge, | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1148:17: warning: ‘Vpmg_polarizEnergy’ defined but not used [-Wunused-function] 1148 | VPRIVATE double Vpmg_polarizEnergy(Vpmg *thee, | ^~~~~~~~~~~~~~~~~~ [ 5%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vpmgp.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmgp.c: In function ‘Vpmgp_size’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmgp.c:204:87: warning: unused variable ‘iretot’ [-Wunused-variable] 204 | int nxf, nyf, nzf, level, num_nf_oper, num_narrc_oper, n_band, nc_band, num_band, iretot; | ^~~~~~ [ 5%] Built target apbs_mg [ 6%] Building C object src/generic/CMakeFiles/apbs_generic.dir/nosh.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c: In function ‘NOsh_setupCalcGEOFLOWMANUAL’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2683:15: warning: variable ‘apolparm’ set but not used [-Wunused-but-set-variable] 2683 | APOLparm *apolparm = VNULL; | ^~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:57: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c: In function ‘NOsh_parsePBAM’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:3139:17: warning: ‘strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 3139 | strncpy(parm->dxname, pbeparm->writestem[pbeparm->numwrite -1], CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c: In function ‘NOsh_parsePBSAM’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:3268:17: warning: ‘strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 3268 | strncpy(parm->dxname, pbeparm->writestem[pbeparm->numwrite - 1], CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c: In function ‘NOsh_parseInput’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1348:13: warning: ‘strncpy’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 1348 | strncpy(thee->apolname[thee->napol], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1222:13: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 1222 | strncpy(thee->elecname[thee->nelec], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:953:9: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 953 | strncpy(thee->meshpath[thee->nmesh], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:918:5: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 918 | strncpy(thee->chargepath[thee->ncharge], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:872:5: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 872 | strncpy(thee->potpath[thee->npot], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:827:5: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 827 | strncpy(thee->kappapath[thee->nkappa], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:772:5: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 772 | strncpy(thee->dielXpath[thee->ndiel], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:776:5: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 776 | strncpy(thee->dielYpath[thee->ndiel], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:780:5: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 780 | strncpy(thee->dielZpath[thee->ndiel], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:723:13: warning: ‘strncpy’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 723 | strncpy(thee->parmpath, tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:701:13: warning: ‘strncpy’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 701 | strncpy(thee->parmpath, tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:659:9: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 659 | strncpy(thee->molpath[thee->nmol], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:640:9: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 640 | strncpy(thee->molpath[thee->nmol], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:621:9: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 621 | strncpy(thee->molpath[thee->nmol], tok, VMAX_ARGLEN); | ^ [ 8%] Building C object src/generic/CMakeFiles/apbs_generic.dir/mgparm.c.o [ 9%] Building C object src/generic/CMakeFiles/apbs_generic.dir/femparm.c.o [ 10%] Building C object src/generic/CMakeFiles/apbs_generic.dir/pbamparm.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseRandorient’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:305:17: warning: unused variable ‘name’ [-Wunused-variable] 305 | const char* name = "randorient"; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parse3Dmap’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:373:10: warning: unused variable ‘tok’ [-Wunused-variable] 373 | char tok[VMAX_BUFSIZE]; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:372:17: warning: unused variable ‘name’ [-Wunused-variable] 372 | const char* name = "3dmap"; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseRunType’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:282:7: warning: ‘strncpy’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 282 | strncpy(thee->runtype, tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseRunName’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:297:7: warning: ‘strncpy’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 297 | strncpy(thee->runname, tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseUnits’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:344:7: warning: ‘strncpy’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 344 | strncpy(thee->units, tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseGrid2D’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:400:7: warning: ‘__strncpy_chk’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 400 | strncpy(thee->grid2Dname[thee->grid2Dct], tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:408:7: warning: ‘__strncpy_chk’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 408 | strncpy(thee->grid2Dax[thee->grid2Dct], tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseTermcombine’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:452:7: warning: ‘strncpy’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 452 | strncpy(thee->termcombine, tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseXYZ’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:656:8: warning: ‘__strncpy_chk’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 656 | strncpy(thee->xyzfil[mol][thee->xyzct[mol]], tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseDiff’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:500:8: warning: ‘__strncpy_chk’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 500 | strncpy(thee->moveType[molind], tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c: In function ‘PBAMparm_parseTerm’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:563:12: warning: ‘__strncpy_chk’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 563 | strncpy(thee->termnam[thee->termct], tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:573:11: warning: ‘__strncpy_chk’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 573 | strncpy(thee->confil[thee->confilct], tok, CHR_MAXLEN); | ^ [ 11%] Building C object src/generic/CMakeFiles/apbs_generic.dir/pbsamparm.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c: In function ‘PBSAMparm_ctor2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c:79:9: warning: unused variable ‘i’ [-Wunused-variable] 79 | int i; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c: In function ‘PBSAMparm_parseMSMS’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c:183:13: warning: unused variable ‘td’ [-Wunused-variable] 183 | int td; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c: In function ‘PBSAMparm_parseSurf’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c:174:8: warning: ‘__strncpy_chk’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 174 | strncpy(thee->surffil[thee->surfct], tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c: In function ‘PBSAMparm_parseImat’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c:211:8: warning: ‘__strncpy_chk’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 211 | strncpy(thee->imatfil[thee->imatct], tok, CHR_MAXLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c: In function ‘PBSAMparm_parseExp’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c:226:8: warning: ‘strncpy’ output may be truncated copying 1000 bytes from a string of length 8191 [-Wstringop-truncation] 226 | strncpy(thee->expfil[thee->expct], tok, CHR_MAXLEN); | ^ [ 12%] Building C object src/generic/CMakeFiles/apbs_generic.dir/pbeparm.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c: In function ‘PBEparm_parseWRITE’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1163:9: warning: ‘__strncpy_chk’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 1163 | strncpy(thee->writestem[thee->numwrite], tok, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c: In function ‘PBEparm_parseWRITEMAT’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1204:5: warning: ‘strncpy’ output may be truncated copying 1024 bytes from a string of length 8191 [-Wstringop-truncation] 1204 | strncpy(thee->writematstem, tok, VMAX_ARGLEN); | ^ [ 13%] Building C object src/generic/CMakeFiles/apbs_generic.dir/bemparm.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c: In function ‘BEMparm_ctor2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:79:9: warning: unused variable ‘i’ [-Wunused-variable] 79 | int i; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c: In function ‘BEMparm_check’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:127:36: warning: unused variable ‘nlev’ [-Wunused-variable] 127 | int i, tdime[3], ti, tnlev[3], nlev; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:127:26: warning: unused variable ‘tnlev’ [-Wunused-variable] 127 | int i, tdime[3], ti, tnlev[3], nlev; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:127:22: warning: unused variable ‘ti’ [-Wunused-variable] 127 | int i, tdime[3], ti, tnlev[3], nlev; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:127:12: warning: unused variable ‘tdime’ [-Wunused-variable] 127 | int i, tdime[3], ti, tnlev[3], nlev; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:127:9: warning: unused variable ‘i’ [-Wunused-variable] 127 | int i, tdime[3], ti, tnlev[3], nlev; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c: In function ‘BEMparm_copy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:176:9: warning: unused variable ‘i’ [-Wunused-variable] 176 | int i; | ^ [ 14%] Building C object src/generic/CMakeFiles/apbs_generic.dir/geoflowparm.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c: In function ‘GEOFLOWparm_ctor2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:79:9: warning: unused variable ‘i’ [-Wunused-variable] 79 | int i; | ^ [ 16%] Building C object src/generic/CMakeFiles/apbs_generic.dir/apolparm.c.o [ 17%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vacc.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c: In function ‘VaccSurf_dtor’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:841:11: warning: variable ‘mem’ set but not used [-Wunused-but-set-variable] 841 | Vmem *mem; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c: In function ‘Vacc_splineAccGradAtomNorm3’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1104:27: warning: variable ‘e5’ set but not used [-Wunused-but-set-variable] 1104 | double e, e2, e3, e4, e5; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c: In function ‘Vacc_atomdSASA’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1338:12: warning: variable ‘ts’ set but not used [-Wunused-but-set-variable] 1338 | time_t ts; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1335:15: warning: variable ‘ref’ set but not used [-Wunused-but-set-variable] 1335 | VaccSurf *ref; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c: In function ‘Vacc_totalAtomdSASA’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1395:15: warning: variable ‘ref’ set but not used [-Wunused-but-set-variable] 1395 | VaccSurf *ref; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1392:23: warning: variable ‘tRad’ set but not used [-Wunused-but-set-variable] 1392 | double *temp_Pos, tRad; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1391:9: warning: variable ‘iatom’ set but not used [-Wunused-but-set-variable] 1391 | int iatom; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c: In function ‘Vacc_totalAtomdSAV’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1454:15: warning: variable ‘ref’ set but not used [-Wunused-but-set-variable] 1454 | VaccSurf *ref; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1451:23: warning: variable ‘tRad’ set but not used [-Wunused-but-set-variable] 1451 | double *temp_Pos, tRad; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1450:9: warning: variable ‘iatom’ set but not used [-Wunused-but-set-variable] 1450 | int iatom; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c: In function ‘Vacc_wcaEnergyAtom’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1584:9: warning: variable ‘npts’ set but not used [-Wunused-but-set-variable] 1584 | int npts[3]; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c: In function ‘Vacc_wcaForceAtom’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1807:12: warning: variable ‘ts’ set but not used [-Wunused-but-set-variable] 1807 | time_t ts; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1764:9: warning: variable ‘npts’ set but not used [-Wunused-but-set-variable] 1764 | npts[3], | ^~~~ [ 18%] Building C object src/generic/CMakeFiles/apbs_generic.dir/valist.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c: In function ‘Valist_readPQR’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:618:10: warning: unused variable ‘chs’ [-Wunused-variable] 618 | char chs[VMAX_BUFSIZE]; | ^~~ [ 19%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vatom.c.o [ 20%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vpbe.c.o [ 21%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vcap.c.o [ 22%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vclist.c.o [ 24%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vstring.c.o [ 25%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vparam.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.c: In function ‘Vparam_readXMLFile’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.c:412:22: warning: ‘natoms’ may be used uninitialized [-Wmaybe-uninitialized] 412 | for (i=0; ivmem, nalloc, sizeof(Vparam_AtomData), (void **)&(atoms)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.c:309:26: note: ‘nalloc’ was declared here 309 | int i, ires, natoms, nalloc, ralloc; | ^~~~~~ [ 26%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vgreen.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c: In function ‘Vgreen_coulomb_direct’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:229:31: warning: unused variable ‘fz’ [-Wunused-variable] 229 | double *q, qtemp, fx, fy, fz; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:229:27: warning: unused variable ‘fy’ [-Wunused-variable] 229 | double *q, qtemp, fx, fy, fz; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:229:23: warning: unused variable ‘fx’ [-Wunused-variable] 229 | double *q, qtemp, fx, fy, fz; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:229:16: warning: unused variable ‘qtemp’ [-Wunused-variable] 229 | double *q, qtemp, fx, fy, fz; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:229:13: warning: unused variable ‘q’ [-Wunused-variable] 229 | double *q, qtemp, fx, fy, fz; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c: In function ‘Vgreen_coulomb’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:264:9: warning: unused variable ‘iatom’ [-Wunused-variable] 264 | int iatom, ipos; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:263:31: warning: unused variable ‘fz’ [-Wunused-variable] 263 | double *q, qtemp, fx, fy, fz; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:263:27: warning: unused variable ‘fy’ [-Wunused-variable] 263 | double *q, qtemp, fx, fy, fz; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:263:23: warning: unused variable ‘fx’ [-Wunused-variable] 263 | double *q, qtemp, fx, fy, fz; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:263:16: warning: unused variable ‘qtemp’ [-Wunused-variable] 263 | double *q, qtemp, fx, fy, fz; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:263:13: warning: unused variable ‘q’ [-Wunused-variable] 263 | double *q, qtemp, fx, fy, fz; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:262:45: warning: unused variable ‘scale’ [-Wunused-variable] 262 | double *apos, charge, dist, dx, dy, dz, scale; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:262:41: warning: unused variable ‘dz’ [-Wunused-variable] 262 | double *apos, charge, dist, dx, dy, dz, scale; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:262:37: warning: unused variable ‘dy’ [-Wunused-variable] 262 | double *apos, charge, dist, dx, dy, dz, scale; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:262:33: warning: unused variable ‘dx’ [-Wunused-variable] 262 | double *apos, charge, dist, dx, dy, dz, scale; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:262:27: warning: unused variable ‘dist’ [-Wunused-variable] 262 | double *apos, charge, dist, dx, dy, dz, scale; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:262:19: warning: unused variable ‘charge’ [-Wunused-variable] 262 | double *apos, charge, dist, dx, dy, dz, scale; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:262:13: warning: unused variable ‘apos’ [-Wunused-variable] 262 | double *apos, charge, dist, dx, dy, dz, scale; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:261:12: warning: unused variable ‘atom’ [-Wunused-variable] 261 | Vatom *atom; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c: In function ‘Vgreen_coulombD_direct’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:316:16: warning: unused variable ‘qtemp’ [-Wunused-variable] 316 | double *q, qtemp; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:316:13: warning: unused variable ‘q’ [-Wunused-variable] 316 | double *q, qtemp; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c: In function ‘Vgreen_coulombD’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:368:9: warning: unused variable ‘iatom’ [-Wunused-variable] 368 | int iatom, ipos; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:367:16: warning: unused variable ‘qtemp’ [-Wunused-variable] 367 | double *q, qtemp; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:367:13: warning: unused variable ‘q’ [-Wunused-variable] 367 | double *q, qtemp; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:60: warning: unused variable ‘scale’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:56: warning: unused variable ‘dx’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:52: warning: unused variable ‘dz’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:48: warning: unused variable ‘dy’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:40: warning: unused variable ‘idist3’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:33: warning: unused variable ‘dist2’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:27: warning: unused variable ‘dist’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:19: warning: unused variable ‘charge’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:366:13: warning: unused variable ‘apos’ [-Wunused-variable] 366 | double *apos, charge, dist, dist2, idist3, dy, dz, dx, scale; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:365:12: warning: unused variable ‘atom’ [-Wunused-variable] 365 | Vatom *atom; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:525:14: warning: ‘treecalc’ defined but not used [-Wunused-function] 525 | VPRIVATE int treecalc(Vgreen *thee, double *xtar, double *ytar, double *ztar, | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:505:14: warning: ‘treecleanup’ defined but not used [-Wunused-function] 505 | VPRIVATE int treecleanup(Vgreen *thee) { | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:425:14: warning: ‘treesetup’ defined but not used [-Wunused-function] 425 | VPRIVATE int treesetup(Vgreen *thee) { | ^~~~~~~~~ [ 26%] Built target apbs_generic [ 27%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildAd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c: In function ‘VbuildA’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:66:5: note: in expansion of macro ‘MAT2’ 66 | MAT2(ac, *nx * *ny * *nz, 14); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c: In function ‘VbuildA_fv’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gzcf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:167:5: note: in expansion of macro ‘MAT3’ 167 | MAT3(gzcf, *nx, *ny, 2); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gycf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:166:5: note: in expansion of macro ‘MAT3’ 166 | MAT3(gycf, *nx, *nz, 2); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gxcf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:165:5: note: in expansion of macro ‘MAT3’ 165 | MAT3(gxcf, *ny, *nz, 2); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:164:5: note: in expansion of macro ‘MAT3’ 164 | MAT3( oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:163:5: note: in expansion of macro ‘MAT3’ 163 | MAT3( oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:162:5: note: in expansion of macro ‘MAT3’ 162 | MAT3( uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a3cf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:161:5: note: in expansion of macro ‘MAT3’ 161 | MAT3(a3cf, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a2cf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:160:5: note: in expansion of macro ‘MAT3’ 160 | MAT3(a2cf, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a1cf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:159:5: note: in expansion of macro ‘MAT3’ 159 | MAT3(a1cf, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:158:5: note: in expansion of macro ‘MAT3’ 158 | MAT3( oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_ccf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:157:5: note: in expansion of macro ‘MAT3’ 157 | MAT3( ccf, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:156:5: note: in expansion of macro ‘MAT3’ 156 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fcf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:155:5: note: in expansion of macro ‘MAT3’ 155 | MAT3( fcf, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c:154:5: note: in expansion of macro ‘MAT3’ 154 | MAT3( fc, *nx, *ny, *nz); | ^~~~ [ 28%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildBd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c: In function ‘Vbuildband’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:65:5: note: in expansion of macro ‘MAT2’ 65 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c: In function ‘Vbuildband1_7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:133:5: note: in expansion of macro ‘MAT3’ 133 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:132:5: note: in expansion of macro ‘MAT3’ 132 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:131:5: note: in expansion of macro ‘MAT3’ 131 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:130:5: note: in expansion of macro ‘MAT3’ 130 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_acB’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:128:5: note: in expansion of macro ‘MAT2’ 128 | MAT2(acB, *lda, *ny-1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c: In function ‘Vbuildband1_27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:213:5: note: in expansion of macro ‘MAT3’ 213 | MAT3(uSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:212:5: note: in expansion of macro ‘MAT3’ 212 | MAT3(uSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:211:5: note: in expansion of macro ‘MAT3’ 211 | MAT3(uNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:210:5: note: in expansion of macro ‘MAT3’ 210 | MAT3(uNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:208:5: note: in expansion of macro ‘MAT3’ 208 | MAT3( uS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:207:5: note: in expansion of macro ‘MAT3’ 207 | MAT3( uN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:206:5: note: in expansion of macro ‘MAT3’ 206 | MAT3( uW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:205:5: note: in expansion of macro ‘MAT3’ 205 | MAT3( uE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:203:5: note: in expansion of macro ‘MAT3’ 203 | MAT3(oNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:202:5: note: in expansion of macro ‘MAT3’ 202 | MAT3(oNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:200:5: note: in expansion of macro ‘MAT3’ 200 | MAT3( uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:199:5: note: in expansion of macro ‘MAT3’ 199 | MAT3( oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:198:5: note: in expansion of macro ‘MAT3’ 198 | MAT3( oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:197:5: note: in expansion of macro ‘MAT3’ 197 | MAT3( oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_acB’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c:195:5: note: in expansion of macro ‘MAT2’ 195 | MAT2(acB, *lda, *ny-1); | ^~~~ [ 29%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildGd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c: In function ‘VbuildG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:64:5: note: in expansion of macro ‘MAT2’ 64 | MAT2( ac, *nxc * *nyc * *nzc, 27); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_acFF’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:63:5: note: in expansion of macro ‘MAT2’ 63 | MAT2(acFF, *nxf * *nyf * *nzf, 27); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_pcFF’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:62:5: note: in expansion of macro ‘MAT2’ 62 | MAT2(pcFF, *nxc * *nyc * *nzc, 27); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c: In function ‘VbuildG_1’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:216:5: note: in expansion of macro ‘MAT3’ 216 | MAT3(dPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:215:5: note: in expansion of macro ‘MAT3’ 215 | MAT3(dPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:214:5: note: in expansion of macro ‘MAT3’ 214 | MAT3(dPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:213:5: note: in expansion of macro ‘MAT3’ 213 | MAT3(dPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:212:5: note: in expansion of macro ‘MAT3’ 212 | MAT3( dPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:211:5: note: in expansion of macro ‘MAT3’ 211 | MAT3( dPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:210:5: note: in expansion of macro ‘MAT3’ 210 | MAT3( dPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:209:5: note: in expansion of macro ‘MAT3’ 209 | MAT3( dPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:208:5: note: in expansion of macro ‘MAT3’ 208 | MAT3( dPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:206:5: note: in expansion of macro ‘MAT3’ 206 | MAT3(uPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:205:5: note: in expansion of macro ‘MAT3’ 205 | MAT3(uPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:204:5: note: in expansion of macro ‘MAT3’ 204 | MAT3(uPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:203:5: note: in expansion of macro ‘MAT3’ 203 | MAT3(uPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:202:5: note: in expansion of macro ‘MAT3’ 202 | MAT3( uPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:201:5: note: in expansion of macro ‘MAT3’ 201 | MAT3( uPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:200:5: note: in expansion of macro ‘MAT3’ 200 | MAT3( uPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:199:5: note: in expansion of macro ‘MAT3’ 199 | MAT3( uPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:198:5: note: in expansion of macro ‘MAT3’ 198 | MAT3( uPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:196:5: note: in expansion of macro ‘MAT3’ 196 | MAT3(oPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:195:5: note: in expansion of macro ‘MAT3’ 195 | MAT3(oPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:194:5: note: in expansion of macro ‘MAT3’ 194 | MAT3(oPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:193:5: note: in expansion of macro ‘MAT3’ 193 | MAT3(oPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:192:5: note: in expansion of macro ‘MAT3’ 192 | MAT3( oPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:191:5: note: in expansion of macro ‘MAT3’ 191 | MAT3( oPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:190:5: note: in expansion of macro ‘MAT3’ 190 | MAT3( oPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:189:5: note: in expansion of macro ‘MAT3’ 189 | MAT3( oPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:188:5: note: in expansion of macro ‘MAT3’ 188 | MAT3( oPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:186:5: note: in expansion of macro ‘MAT3’ 186 | MAT3(XuSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:185:5: note: in expansion of macro ‘MAT3’ 185 | MAT3(XuSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:184:5: note: in expansion of macro ‘MAT3’ 184 | MAT3(XuNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:183:5: note: in expansion of macro ‘MAT3’ 183 | MAT3(XuNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:182:5: note: in expansion of macro ‘MAT3’ 182 | MAT3( XuS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:181:5: note: in expansion of macro ‘MAT3’ 181 | MAT3( XuN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:180:5: note: in expansion of macro ‘MAT3’ 180 | MAT3( XuW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:179:5: note: in expansion of macro ‘MAT3’ 179 | MAT3( XuE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:177:5: note: in expansion of macro ‘MAT3’ 177 | MAT3(XoNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:176:5: note: in expansion of macro ‘MAT3’ 176 | MAT3(XoNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:174:5: note: in expansion of macro ‘MAT3’ 174 | MAT3( XuC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:172:5: note: in expansion of macro ‘MAT3’ 172 | MAT3( XoN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:171:5: note: in expansion of macro ‘MAT3’ 171 | MAT3( XoE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:170:5: note: in expansion of macro ‘MAT3’ 170 | MAT3( XoC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:168:5: note: in expansion of macro ‘MAT3’ 168 | MAT3( oC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:164:21: warning: variable ‘nzm1’ set but not used [-Wunused-but-set-variable] 164 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:164:15: warning: variable ‘nym1’ set but not used [-Wunused-but-set-variable] 164 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:164:9: warning: variable ‘nxm1’ set but not used [-Wunused-but-set-variable] 164 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:163:33: warning: variable ‘kkm1’ set but not used [-Wunused-but-set-variable] 163 | int iim1, iip1, jjm1, jjp1, kkm1, kkp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c: In function ‘VbuildG_7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:532:5: note: in expansion of macro ‘MAT3’ 532 | MAT3(dPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:531:5: note: in expansion of macro ‘MAT3’ 531 | MAT3(dPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:530:5: note: in expansion of macro ‘MAT3’ 530 | MAT3(dPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:529:5: note: in expansion of macro ‘MAT3’ 529 | MAT3(dPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:528:5: note: in expansion of macro ‘MAT3’ 528 | MAT3( dPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:527:5: note: in expansion of macro ‘MAT3’ 527 | MAT3( dPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:526:5: note: in expansion of macro ‘MAT3’ 526 | MAT3( dPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:525:5: note: in expansion of macro ‘MAT3’ 525 | MAT3( dPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:524:5: note: in expansion of macro ‘MAT3’ 524 | MAT3( dPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:522:5: note: in expansion of macro ‘MAT3’ 522 | MAT3(uPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:521:5: note: in expansion of macro ‘MAT3’ 521 | MAT3(uPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:520:5: note: in expansion of macro ‘MAT3’ 520 | MAT3(uPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:519:5: note: in expansion of macro ‘MAT3’ 519 | MAT3(uPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:518:5: note: in expansion of macro ‘MAT3’ 518 | MAT3( uPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:517:5: note: in expansion of macro ‘MAT3’ 517 | MAT3( uPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:516:5: note: in expansion of macro ‘MAT3’ 516 | MAT3( uPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:515:5: note: in expansion of macro ‘MAT3’ 515 | MAT3( uPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:514:5: note: in expansion of macro ‘MAT3’ 514 | MAT3( uPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:512:5: note: in expansion of macro ‘MAT3’ 512 | MAT3(oPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:511:5: note: in expansion of macro ‘MAT3’ 511 | MAT3(oPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:510:5: note: in expansion of macro ‘MAT3’ 510 | MAT3(oPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:509:5: note: in expansion of macro ‘MAT3’ 509 | MAT3(oPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:508:5: note: in expansion of macro ‘MAT3’ 508 | MAT3( oPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:507:5: note: in expansion of macro ‘MAT3’ 507 | MAT3( oPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:506:5: note: in expansion of macro ‘MAT3’ 506 | MAT3( oPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:505:5: note: in expansion of macro ‘MAT3’ 505 | MAT3( oPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:504:5: note: in expansion of macro ‘MAT3’ 504 | MAT3( oPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:502:5: note: in expansion of macro ‘MAT3’ 502 | MAT3(XuSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:501:5: note: in expansion of macro ‘MAT3’ 501 | MAT3(XuSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:500:5: note: in expansion of macro ‘MAT3’ 500 | MAT3(XuNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:499:5: note: in expansion of macro ‘MAT3’ 499 | MAT3(XuNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:498:5: note: in expansion of macro ‘MAT3’ 498 | MAT3( XuS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:497:5: note: in expansion of macro ‘MAT3’ 497 | MAT3( XuN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:496:5: note: in expansion of macro ‘MAT3’ 496 | MAT3( XuW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:495:5: note: in expansion of macro ‘MAT3’ 495 | MAT3( XuE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:494:5: note: in expansion of macro ‘MAT3’ 494 | MAT3( XuC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:492:5: note: in expansion of macro ‘MAT3’ 492 | MAT3(XoNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:491:5: note: in expansion of macro ‘MAT3’ 491 | MAT3(XoNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:490:5: note: in expansion of macro ‘MAT3’ 490 | MAT3( XoN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:489:5: note: in expansion of macro ‘MAT3’ 489 | MAT3( XoE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:488:5: note: in expansion of macro ‘MAT3’ 488 | MAT3( XoC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:486:5: note: in expansion of macro ‘MAT3’ 486 | MAT3( uC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:484:5: note: in expansion of macro ‘MAT3’ 484 | MAT3( oN, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:483:5: note: in expansion of macro ‘MAT3’ 483 | MAT3( oE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:482:5: note: in expansion of macro ‘MAT3’ 482 | MAT3( oC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:473:21: warning: variable ‘nzm1’ set but not used [-Wunused-but-set-variable] 473 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:473:15: warning: variable ‘nym1’ set but not used [-Wunused-but-set-variable] 473 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:473:9: warning: variable ‘nxm1’ set but not used [-Wunused-but-set-variable] 473 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:472:9: warning: variable ‘kkm1’ set but not used [-Wunused-but-set-variable] 472 | int kkm1, kkp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:469:28: warning: variable ‘kp2’ set but not used [-Wunused-but-set-variable] 469 | int km1, kp1, km2, kp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:469:22: warning: variable ‘km2’ set but not used [-Wunused-but-set-variable] 469 | int km1, kp1, km2, kp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:468:28: warning: variable ‘jp2’ set but not used [-Wunused-but-set-variable] 468 | int jm1, jp1, jm2, jp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:467:28: warning: variable ‘ip2’ set but not used [-Wunused-but-set-variable] 467 | int im1, ip1, im2, ip2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c: In function ‘VbuildG_27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1380:5: note: in expansion of macro ‘MAT3’ 1380 | MAT3(dPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1379:5: note: in expansion of macro ‘MAT3’ 1379 | MAT3(dPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1378:5: note: in expansion of macro ‘MAT3’ 1378 | MAT3(dPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1377:5: note: in expansion of macro ‘MAT3’ 1377 | MAT3(dPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1376:5: note: in expansion of macro ‘MAT3’ 1376 | MAT3( dPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1375:5: note: in expansion of macro ‘MAT3’ 1375 | MAT3( dPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1374:5: note: in expansion of macro ‘MAT3’ 1374 | MAT3( dPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1373:5: note: in expansion of macro ‘MAT3’ 1373 | MAT3( dPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1372:5: note: in expansion of macro ‘MAT3’ 1372 | MAT3( dPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1370:5: note: in expansion of macro ‘MAT3’ 1370 | MAT3(uPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1369:5: note: in expansion of macro ‘MAT3’ 1369 | MAT3(uPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1368:5: note: in expansion of macro ‘MAT3’ 1368 | MAT3(uPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1367:5: note: in expansion of macro ‘MAT3’ 1367 | MAT3(uPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1366:5: note: in expansion of macro ‘MAT3’ 1366 | MAT3( uPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1365:5: note: in expansion of macro ‘MAT3’ 1365 | MAT3( uPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1364:5: note: in expansion of macro ‘MAT3’ 1364 | MAT3( uPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1363:5: note: in expansion of macro ‘MAT3’ 1363 | MAT3( uPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1362:5: note: in expansion of macro ‘MAT3’ 1362 | MAT3( uPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1360:5: note: in expansion of macro ‘MAT3’ 1360 | MAT3(oPSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1359:5: note: in expansion of macro ‘MAT3’ 1359 | MAT3(oPSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1358:5: note: in expansion of macro ‘MAT3’ 1358 | MAT3(oPNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1357:5: note: in expansion of macro ‘MAT3’ 1357 | MAT3(oPNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1356:5: note: in expansion of macro ‘MAT3’ 1356 | MAT3( oPW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1355:5: note: in expansion of macro ‘MAT3’ 1355 | MAT3( oPE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1354:5: note: in expansion of macro ‘MAT3’ 1354 | MAT3( oPS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1353:5: note: in expansion of macro ‘MAT3’ 1353 | MAT3( oPN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1352:5: note: in expansion of macro ‘MAT3’ 1352 | MAT3( oPC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1350:5: note: in expansion of macro ‘MAT3’ 1350 | MAT3(XuSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1349:5: note: in expansion of macro ‘MAT3’ 1349 | MAT3(XuSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1348:5: note: in expansion of macro ‘MAT3’ 1348 | MAT3(XuNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1347:5: note: in expansion of macro ‘MAT3’ 1347 | MAT3(XuNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1346:5: note: in expansion of macro ‘MAT3’ 1346 | MAT3( XuS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1345:5: note: in expansion of macro ‘MAT3’ 1345 | MAT3( XuN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1344:5: note: in expansion of macro ‘MAT3’ 1344 | MAT3( XuW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1343:5: note: in expansion of macro ‘MAT3’ 1343 | MAT3( XuE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XuC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1342:5: note: in expansion of macro ‘MAT3’ 1342 | MAT3( XuC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1340:5: note: in expansion of macro ‘MAT3’ 1340 | MAT3(XoNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1339:5: note: in expansion of macro ‘MAT3’ 1339 | MAT3(XoNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1338:5: note: in expansion of macro ‘MAT3’ 1338 | MAT3( XoN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1337:5: note: in expansion of macro ‘MAT3’ 1337 | MAT3( XoE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_XoC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1336:5: note: in expansion of macro ‘MAT3’ 1336 | MAT3( XoC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1334:5: note: in expansion of macro ‘MAT3’ 1334 | MAT3( uSW, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1333:5: note: in expansion of macro ‘MAT3’ 1333 | MAT3( uSE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1332:5: note: in expansion of macro ‘MAT3’ 1332 | MAT3( uNW, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1331:5: note: in expansion of macro ‘MAT3’ 1331 | MAT3( uNE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1330:5: note: in expansion of macro ‘MAT3’ 1330 | MAT3( uS, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1329:5: note: in expansion of macro ‘MAT3’ 1329 | MAT3( uN, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1328:5: note: in expansion of macro ‘MAT3’ 1328 | MAT3( uW, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1327:5: note: in expansion of macro ‘MAT3’ 1327 | MAT3( uE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1326:5: note: in expansion of macro ‘MAT3’ 1326 | MAT3( uC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1324:5: note: in expansion of macro ‘MAT3’ 1324 | MAT3( oNW, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1323:5: note: in expansion of macro ‘MAT3’ 1323 | MAT3( oNE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1322:5: note: in expansion of macro ‘MAT3’ 1322 | MAT3( oN, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1321:5: note: in expansion of macro ‘MAT3’ 1321 | MAT3( oE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1320:5: note: in expansion of macro ‘MAT3’ 1320 | MAT3( oC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1277:21: warning: variable ‘nzm1’ set but not used [-Wunused-but-set-variable] 1277 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1277:15: warning: variable ‘nym1’ set but not used [-Wunused-but-set-variable] 1277 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1277:9: warning: variable ‘nxm1’ set but not used [-Wunused-but-set-variable] 1277 | int nxm1, nym1, nzm1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1276:9: warning: variable ‘kkm1’ set but not used [-Wunused-but-set-variable] 1276 | int kkm1, kkp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1273:28: warning: variable ‘kp2’ set but not used [-Wunused-but-set-variable] 1273 | int km1, kp1, km2, kp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c:1273:22: warning: variable ‘km2’ set but not used [-Wunused-but-set-variable] 1273 | int km1, kp1, km2, kp2; | ^~~ [ 31%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildPd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.h:58, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c: In function ‘VbuildP’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:67:5: note: in expansion of macro ‘MAT2’ 67 | MAT2(ac, *nxf * *nyf * *nzf, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_pc’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:66:5: note: in expansion of macro ‘MAT2’ 66 | MAT2(pc, *nxc * *nyc * *nzc, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c: In function ‘VbuildP_trilin’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_pc’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:101:5: note: in expansion of macro ‘MAT2’ 101 | MAT2(pc, *nxc * *nyc * *nzc, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c: In function ‘VbuildPb_trilin’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:163:5: note: in expansion of macro ‘MAT3’ 163 | MAT3(dPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:162:5: note: in expansion of macro ‘MAT3’ 162 | MAT3(dPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:161:5: note: in expansion of macro ‘MAT3’ 161 | MAT3(dPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:160:5: note: in expansion of macro ‘MAT3’ 160 | MAT3(dPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:158:5: note: in expansion of macro ‘MAT3’ 158 | MAT3( dPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:157:5: note: in expansion of macro ‘MAT3’ 157 | MAT3( dPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:156:5: note: in expansion of macro ‘MAT3’ 156 | MAT3( dPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:155:5: note: in expansion of macro ‘MAT3’ 155 | MAT3( dPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:154:5: note: in expansion of macro ‘MAT3’ 154 | MAT3( dPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:152:5: note: in expansion of macro ‘MAT3’ 152 | MAT3(uPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:151:5: note: in expansion of macro ‘MAT3’ 151 | MAT3(uPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:150:5: note: in expansion of macro ‘MAT3’ 150 | MAT3(uPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:149:5: note: in expansion of macro ‘MAT3’ 149 | MAT3(uPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:147:5: note: in expansion of macro ‘MAT3’ 147 | MAT3( uPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:146:5: note: in expansion of macro ‘MAT3’ 146 | MAT3( uPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:145:5: note: in expansion of macro ‘MAT3’ 145 | MAT3( uPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:144:5: note: in expansion of macro ‘MAT3’ 144 | MAT3( uPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:143:5: note: in expansion of macro ‘MAT3’ 143 | MAT3( uPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:141:5: note: in expansion of macro ‘MAT3’ 141 | MAT3(oPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:140:5: note: in expansion of macro ‘MAT3’ 140 | MAT3(oPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:139:5: note: in expansion of macro ‘MAT3’ 139 | MAT3(oPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:138:5: note: in expansion of macro ‘MAT3’ 138 | MAT3(oPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:136:5: note: in expansion of macro ‘MAT3’ 136 | MAT3( oPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:135:5: note: in expansion of macro ‘MAT3’ 135 | MAT3( oPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:134:5: note: in expansion of macro ‘MAT3’ 134 | MAT3( oPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:133:5: note: in expansion of macro ‘MAT3’ 133 | MAT3( oPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:132:5: note: in expansion of macro ‘MAT3’ 132 | MAT3( oPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c: In function ‘VbuildP_op7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_pc’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:212:5: note: in expansion of macro ‘MAT2’ 212 | MAT2(pc, *nxc * *nyc * *nzc, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:211:5: note: in expansion of macro ‘MAT2’ 211 | MAT2(ac, *nxf * *nyf * *nzf, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c: In function ‘VbuildPb_op7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:287:5: note: in expansion of macro ‘MAT3’ 287 | MAT3(dPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:286:5: note: in expansion of macro ‘MAT3’ 286 | MAT3(dPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:285:5: note: in expansion of macro ‘MAT3’ 285 | MAT3(dPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:284:5: note: in expansion of macro ‘MAT3’ 284 | MAT3(dPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:283:5: note: in expansion of macro ‘MAT3’ 283 | MAT3( dPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:282:5: note: in expansion of macro ‘MAT3’ 282 | MAT3( dPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:281:5: note: in expansion of macro ‘MAT3’ 281 | MAT3( dPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:280:5: note: in expansion of macro ‘MAT3’ 280 | MAT3( dPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:279:5: note: in expansion of macro ‘MAT3’ 279 | MAT3( dPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:278:5: note: in expansion of macro ‘MAT3’ 278 | MAT3(uPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:277:5: note: in expansion of macro ‘MAT3’ 277 | MAT3(uPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:276:5: note: in expansion of macro ‘MAT3’ 276 | MAT3(uPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:275:5: note: in expansion of macro ‘MAT3’ 275 | MAT3(uPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:274:5: note: in expansion of macro ‘MAT3’ 274 | MAT3( uPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:273:5: note: in expansion of macro ‘MAT3’ 273 | MAT3( uPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:272:5: note: in expansion of macro ‘MAT3’ 272 | MAT3( uPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:271:5: note: in expansion of macro ‘MAT3’ 271 | MAT3( uPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:270:5: note: in expansion of macro ‘MAT3’ 270 | MAT3( uPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:269:5: note: in expansion of macro ‘MAT3’ 269 | MAT3(oPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:268:5: note: in expansion of macro ‘MAT3’ 268 | MAT3(oPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:267:5: note: in expansion of macro ‘MAT3’ 267 | MAT3(oPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:266:5: note: in expansion of macro ‘MAT3’ 266 | MAT3(oPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:265:5: note: in expansion of macro ‘MAT3’ 265 | MAT3( oPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:264:5: note: in expansion of macro ‘MAT3’ 264 | MAT3( oPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:263:5: note: in expansion of macro ‘MAT3’ 263 | MAT3( oPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:262:5: note: in expansion of macro ‘MAT3’ 262 | MAT3( oPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:261:5: note: in expansion of macro ‘MAT3’ 261 | MAT3( oPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:260:5: note: in expansion of macro ‘MAT3’ 260 | MAT3( uC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:259:5: note: in expansion of macro ‘MAT3’ 259 | MAT3( oN, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:258:5: note: in expansion of macro ‘MAT3’ 258 | MAT3( oE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:257:5: note: in expansion of macro ‘MAT3’ 257 | MAT3( oC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:255:32: warning: variable ‘eighth’ set but not used [-Wunused-but-set-variable] 255 | double won, half, quarter, eighth; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:255:23: warning: variable ‘quarter’ set but not used [-Wunused-but-set-variable] 255 | double won, half, quarter, eighth; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:255:17: warning: variable ‘half’ set but not used [-Wunused-but-set-variable] 255 | double won, half, quarter, eighth; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:253:15: warning: variable ‘kkp1’ set but not used [-Wunused-but-set-variable] 253 | int kkm1, kkp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:253:9: warning: variable ‘kkm1’ set but not used [-Wunused-but-set-variable] 253 | int kkm1, kkp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:252:15: warning: variable ‘jjp1’ set but not used [-Wunused-but-set-variable] 252 | int jjm1, jjp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:252:9: warning: variable ‘jjm1’ set but not used [-Wunused-but-set-variable] 252 | int jjm1, jjp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:251:15: warning: variable ‘iip1’ set but not used [-Wunused-but-set-variable] 251 | int iim1, iip1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:251:9: warning: variable ‘iim1’ set but not used [-Wunused-but-set-variable] 251 | int iim1, iip1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:250:16: warning: variable ‘kp2’ set but not used [-Wunused-but-set-variable] 250 | int km2, kp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:250:10: warning: variable ‘km2’ set but not used [-Wunused-but-set-variable] 250 | int km2, kp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:248:16: warning: variable ‘jp2’ set but not used [-Wunused-but-set-variable] 248 | int jm2, jp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:248:10: warning: variable ‘jm2’ set but not used [-Wunused-but-set-variable] 248 | int jm2, jp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:246:16: warning: variable ‘ip2’ set but not used [-Wunused-but-set-variable] 246 | int im2, ip2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:246:10: warning: variable ‘im2’ set but not used [-Wunused-but-set-variable] 246 | int im2, ip2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c: In function ‘VbuildP_op27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_pc’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:728:5: note: in expansion of macro ‘MAT2’ 728 | MAT2(pc, *nxc * *nyc * *nzc, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:727:5: note: in expansion of macro ‘MAT2’ 727 | MAT2(ac, *nxf * *nyf * *nzf, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c: In function ‘VbuildPb_op27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:818:7: note: in expansion of macro ‘MAT3’ 818 | MAT3(dPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:817:7: note: in expansion of macro ‘MAT3’ 817 | MAT3(dPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:816:7: note: in expansion of macro ‘MAT3’ 816 | MAT3(dPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:815:7: note: in expansion of macro ‘MAT3’ 815 | MAT3(dPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:814:7: note: in expansion of macro ‘MAT3’ 814 | MAT3( dPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:813:7: note: in expansion of macro ‘MAT3’ 813 | MAT3( dPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:812:7: note: in expansion of macro ‘MAT3’ 812 | MAT3( dPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:811:7: note: in expansion of macro ‘MAT3’ 811 | MAT3( dPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:810:7: note: in expansion of macro ‘MAT3’ 810 | MAT3( dPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:809:7: note: in expansion of macro ‘MAT3’ 809 | MAT3(uPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:808:7: note: in expansion of macro ‘MAT3’ 808 | MAT3(uPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:807:7: note: in expansion of macro ‘MAT3’ 807 | MAT3(uPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:806:7: note: in expansion of macro ‘MAT3’ 806 | MAT3(uPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:805:7: note: in expansion of macro ‘MAT3’ 805 | MAT3( uPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:804:7: note: in expansion of macro ‘MAT3’ 804 | MAT3( uPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:803:7: note: in expansion of macro ‘MAT3’ 803 | MAT3( uPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:802:7: note: in expansion of macro ‘MAT3’ 802 | MAT3( uPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:801:7: note: in expansion of macro ‘MAT3’ 801 | MAT3( uPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:800:7: note: in expansion of macro ‘MAT3’ 800 | MAT3(oPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:799:7: note: in expansion of macro ‘MAT3’ 799 | MAT3(oPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:798:7: note: in expansion of macro ‘MAT3’ 798 | MAT3(oPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:797:7: note: in expansion of macro ‘MAT3’ 797 | MAT3(oPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:796:7: note: in expansion of macro ‘MAT3’ 796 | MAT3( oPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:795:7: note: in expansion of macro ‘MAT3’ 795 | MAT3( oPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:794:7: note: in expansion of macro ‘MAT3’ 794 | MAT3( oPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:793:7: note: in expansion of macro ‘MAT3’ 793 | MAT3( oPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:792:7: note: in expansion of macro ‘MAT3’ 792 | MAT3( oPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:791:7: note: in expansion of macro ‘MAT3’ 791 | MAT3( uSW, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:790:7: note: in expansion of macro ‘MAT3’ 790 | MAT3( uSE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:789:7: note: in expansion of macro ‘MAT3’ 789 | MAT3( uNW, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:788:7: note: in expansion of macro ‘MAT3’ 788 | MAT3( uNE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:787:7: note: in expansion of macro ‘MAT3’ 787 | MAT3( uS, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:786:7: note: in expansion of macro ‘MAT3’ 786 | MAT3( uN, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:785:7: note: in expansion of macro ‘MAT3’ 785 | MAT3( uW, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:784:7: note: in expansion of macro ‘MAT3’ 784 | MAT3( uE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:783:7: note: in expansion of macro ‘MAT3’ 783 | MAT3( oNW, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:782:7: note: in expansion of macro ‘MAT3’ 782 | MAT3( oNE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:781:7: note: in expansion of macro ‘MAT3’ 781 | MAT3( uC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:780:7: note: in expansion of macro ‘MAT3’ 780 | MAT3( oN, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:779:7: note: in expansion of macro ‘MAT3’ 779 | MAT3( oE, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:778:7: note: in expansion of macro ‘MAT3’ 778 | MAT3( oC, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:776:34: warning: variable ‘eighth’ set but not used [-Wunused-but-set-variable] 776 | double won, half, quarter, eighth; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:776:25: warning: variable ‘quarter’ set but not used [-Wunused-but-set-variable] 776 | double won, half, quarter, eighth; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:776:19: warning: variable ‘half’ set but not used [-Wunused-but-set-variable] 776 | double won, half, quarter, eighth; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:774:17: warning: variable ‘kkp1’ set but not used [-Wunused-but-set-variable] 774 | int kkm1, kkp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:774:11: warning: variable ‘kkm1’ set but not used [-Wunused-but-set-variable] 774 | int kkm1, kkp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:773:17: warning: variable ‘jjp1’ set but not used [-Wunused-but-set-variable] 773 | int jjm1, jjp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:773:11: warning: variable ‘jjm1’ set but not used [-Wunused-but-set-variable] 773 | int jjm1, jjp1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:772:17: warning: variable ‘iip1’ set but not used [-Wunused-but-set-variable] 772 | int iim1, iip1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:772:11: warning: variable ‘iim1’ set but not used [-Wunused-but-set-variable] 772 | int iim1, iip1; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:771:18: warning: variable ‘kp2’ set but not used [-Wunused-but-set-variable] 771 | int km2, kp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:771:12: warning: variable ‘km2’ set but not used [-Wunused-but-set-variable] 771 | int km2, kp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:769:18: warning: variable ‘jp2’ set but not used [-Wunused-but-set-variable] 769 | int jm2, jp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:769:12: warning: variable ‘jm2’ set but not used [-Wunused-but-set-variable] 769 | int jm2, jp2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:767:18: warning: variable ‘ip2’ set but not used [-Wunused-but-set-variable] 767 | int im2, ip2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c:767:12: warning: variable ‘im2’ set but not used [-Wunused-but-set-variable] 767 | int im2, ip2; | ^~~ [ 32%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/cgd.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/cgd.c: In function ‘Vcghs’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/cgd.c:99:24: warning: ‘rhok1’ may be used uninitialized [-Wmaybe-uninitialized] 99 | beta = rhok2 / rhok1; | ~~~~~~^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/cgd.c:66:12: note: ‘rhok1’ was declared here 66 | double rhok1, rhok2, alpha, beta; | ^~~~~ [ 33%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/gsd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c: In function ‘Vgsrb’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:67:5: note: in expansion of macro ‘MAT2’ 67 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c: In function ‘Vgsrb7x’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:116:5: note: in expansion of macro ‘MAT3’ 116 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:115:5: note: in expansion of macro ‘MAT3’ 115 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:114:5: note: in expansion of macro ‘MAT3’ 114 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:113:5: note: in expansion of macro ‘MAT3’ 113 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_r’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:111:5: note: in expansion of macro ‘MAT3’ 111 | MAT3( r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_r’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:111:5: note: in expansion of macro ‘MAT3’ 111 | MAT3( r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_r’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:111:5: note: in expansion of macro ‘MAT3’ 111 | MAT3( r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_w2’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:110:5: note: in expansion of macro ‘MAT3’ 110 | MAT3(w2, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_w2’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:110:5: note: in expansion of macro ‘MAT3’ 110 | MAT3(w2, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_w2’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:110:5: note: in expansion of macro ‘MAT3’ 110 | MAT3(w2, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_w1’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:109:5: note: in expansion of macro ‘MAT3’ 109 | MAT3(w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_w1’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:109:5: note: in expansion of macro ‘MAT3’ 109 | MAT3(w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_w1’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:109:5: note: in expansion of macro ‘MAT3’ 109 | MAT3(w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:108:5: note: in expansion of macro ‘MAT3’ 108 | MAT3( x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:107:5: note: in expansion of macro ‘MAT3’ 107 | MAT3(fc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:106:5: note: in expansion of macro ‘MAT3’ 106 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c: In function ‘Vgsrb27x’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:208:5: note: in expansion of macro ‘MAT3’ 208 | MAT3(uSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:207:5: note: in expansion of macro ‘MAT3’ 207 | MAT3(uSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:206:5: note: in expansion of macro ‘MAT3’ 206 | MAT3(uNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:205:5: note: in expansion of macro ‘MAT3’ 205 | MAT3(uNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:204:5: note: in expansion of macro ‘MAT3’ 204 | MAT3( uS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:203:5: note: in expansion of macro ‘MAT3’ 203 | MAT3( uN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:202:5: note: in expansion of macro ‘MAT3’ 202 | MAT3( uW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:201:5: note: in expansion of macro ‘MAT3’ 201 | MAT3( uE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:199:5: note: in expansion of macro ‘MAT3’ 199 | MAT3(oNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:198:5: note: in expansion of macro ‘MAT3’ 198 | MAT3(oNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:196:5: note: in expansion of macro ‘MAT3’ 196 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:195:5: note: in expansion of macro ‘MAT3’ 195 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:194:5: note: in expansion of macro ‘MAT3’ 194 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:193:5: note: in expansion of macro ‘MAT3’ 193 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_r’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:191:5: note: in expansion of macro ‘MAT3’ 191 | MAT3( r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_r’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:191:5: note: in expansion of macro ‘MAT3’ 191 | MAT3( r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_r’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:191:5: note: in expansion of macro ‘MAT3’ 191 | MAT3( r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_w2’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:190:5: note: in expansion of macro ‘MAT3’ 190 | MAT3(w2, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_w2’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:190:5: note: in expansion of macro ‘MAT3’ 190 | MAT3(w2, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_w2’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:190:5: note: in expansion of macro ‘MAT3’ 190 | MAT3(w2, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_w1’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:189:5: note: in expansion of macro ‘MAT3’ 189 | MAT3(w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_w1’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:189:5: note: in expansion of macro ‘MAT3’ 189 | MAT3(w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_w1’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:189:5: note: in expansion of macro ‘MAT3’ 189 | MAT3(w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:188:5: note: in expansion of macro ‘MAT3’ 188 | MAT3( x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:187:5: note: in expansion of macro ‘MAT3’ 187 | MAT3(fc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:186:5: note: in expansion of macro ‘MAT3’ 186 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:182:9: warning: variable ‘istep’ set but not used [-Wunused-but-set-variable] 182 | int istep; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:180:17: warning: variable ‘k2’ set but not used [-Wunused-but-set-variable] 180 | int i2, j2, k2; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:180:13: warning: variable ‘j2’ set but not used [-Wunused-but-set-variable] 180 | int i2, j2, k2; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:180:9: warning: variable ‘i2’ set but not used [-Wunused-but-set-variable] 180 | int i2, j2, k2; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:179:17: warning: variable ‘k1’ set but not used [-Wunused-but-set-variable] 179 | int i1, j1, k1; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:179:13: warning: variable ‘j1’ set but not used [-Wunused-but-set-variable] 179 | int i1, j1, k1; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c:179:9: warning: variable ‘i1’ set but not used [-Wunused-but-set-variable] 179 | int i1, j1, k1; | ^~ [ 34%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/matvecd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.h:55, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vmatvec7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:87:5: note: in expansion of macro ‘MAT2’ 87 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vmatvec7_1s’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:112:5: note: in expansion of macro ‘MAT3’ 112 | MAT3(y, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:111:5: note: in expansion of macro ‘MAT3’ 111 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:110:5: note: in expansion of macro ‘MAT3’ 110 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:109:5: note: in expansion of macro ‘MAT3’ 109 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:108:5: note: in expansion of macro ‘MAT3’ 108 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:107:5: note: in expansion of macro ‘MAT3’ 107 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:106:5: note: in expansion of macro ‘MAT3’ 106 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vmatvec27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:139:5: note: in expansion of macro ‘MAT2’ 139 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vmatvec27_1s’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:184:5: note: in expansion of macro ‘MAT3’ 184 | MAT3(uSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:183:5: note: in expansion of macro ‘MAT3’ 183 | MAT3(uSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:182:5: note: in expansion of macro ‘MAT3’ 182 | MAT3(uNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:181:5: note: in expansion of macro ‘MAT3’ 181 | MAT3(uNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:180:5: note: in expansion of macro ‘MAT3’ 180 | MAT3(uS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:179:5: note: in expansion of macro ‘MAT3’ 179 | MAT3(uN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:178:5: note: in expansion of macro ‘MAT3’ 178 | MAT3(uW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:177:5: note: in expansion of macro ‘MAT3’ 177 | MAT3(uE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:176:5: note: in expansion of macro ‘MAT3’ 176 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:174:5: note: in expansion of macro ‘MAT3’ 174 | MAT3(oNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:173:5: note: in expansion of macro ‘MAT3’ 173 | MAT3(oNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:172:5: note: in expansion of macro ‘MAT3’ 172 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:171:5: note: in expansion of macro ‘MAT3’ 171 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:170:5: note: in expansion of macro ‘MAT3’ 170 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:168:5: note: in expansion of macro ‘MAT3’ 168 | MAT3(y, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:167:5: note: in expansion of macro ‘MAT3’ 167 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:166:5: note: in expansion of macro ‘MAT3’ 166 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vnmatvec7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:263:5: note: in expansion of macro ‘MAT2’ 263 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vnmatvecd7_1s’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_w1’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:292:5: note: in expansion of macro ‘MAT3’ 292 | MAT3(w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:291:5: note: in expansion of macro ‘MAT3’ 291 | MAT3( y, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:290:5: note: in expansion of macro ‘MAT3’ 290 | MAT3( x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:289:5: note: in expansion of macro ‘MAT3’ 289 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:288:5: note: in expansion of macro ‘MAT3’ 288 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_cc’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:288:5: note: in expansion of macro ‘MAT3’ 288 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_cc’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:288:5: note: in expansion of macro ‘MAT3’ 288 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:287:5: note: in expansion of macro ‘MAT3’ 287 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:286:5: note: in expansion of macro ‘MAT3’ 286 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:285:5: note: in expansion of macro ‘MAT3’ 285 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vnmatvec27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:322:5: note: in expansion of macro ‘MAT2’ 322 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vnmatvecd27_1s’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_w1’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:370:5: note: in expansion of macro ‘MAT3’ 370 | MAT3( w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:369:5: note: in expansion of macro ‘MAT3’ 369 | MAT3( y, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:368:5: note: in expansion of macro ‘MAT3’ 368 | MAT3( x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:367:5: note: in expansion of macro ‘MAT3’ 367 | MAT3( oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:366:5: note: in expansion of macro ‘MAT3’ 366 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_cc’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:366:5: note: in expansion of macro ‘MAT3’ 366 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_cc’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:366:5: note: in expansion of macro ‘MAT3’ 366 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:365:5: note: in expansion of macro ‘MAT3’ 365 | MAT3(uSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:364:5: note: in expansion of macro ‘MAT3’ 364 | MAT3(uSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:363:5: note: in expansion of macro ‘MAT3’ 363 | MAT3(uNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:362:5: note: in expansion of macro ‘MAT3’ 362 | MAT3(uNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:361:5: note: in expansion of macro ‘MAT3’ 361 | MAT3( uS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:360:5: note: in expansion of macro ‘MAT3’ 360 | MAT3( uN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:359:5: note: in expansion of macro ‘MAT3’ 359 | MAT3( uW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:358:5: note: in expansion of macro ‘MAT3’ 358 | MAT3( uE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:357:5: note: in expansion of macro ‘MAT3’ 357 | MAT3(oNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:356:5: note: in expansion of macro ‘MAT3’ 356 | MAT3(oNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:355:5: note: in expansion of macro ‘MAT3’ 355 | MAT3( uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:354:5: note: in expansion of macro ‘MAT3’ 354 | MAT3( oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:353:5: note: in expansion of macro ‘MAT3’ 353 | MAT3( oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vmresid7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:451:5: note: in expansion of macro ‘MAT2’ 451 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vmresid7_1s’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_r’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:476:5: note: in expansion of macro ‘MAT3’ 476 | MAT3(r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:475:5: note: in expansion of macro ‘MAT3’ 475 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:474:5: note: in expansion of macro ‘MAT3’ 474 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:473:5: note: in expansion of macro ‘MAT3’ 473 | MAT3(fc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:472:5: note: in expansion of macro ‘MAT3’ 472 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:471:5: note: in expansion of macro ‘MAT3’ 471 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:470:5: note: in expansion of macro ‘MAT3’ 470 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:469:5: note: in expansion of macro ‘MAT3’ 469 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vmresid27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:503:5: note: in expansion of macro ‘MAT2’ 503 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vmresid27_1s’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:550:5: note: in expansion of macro ‘MAT3’ 550 | MAT3(uSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:549:5: note: in expansion of macro ‘MAT3’ 549 | MAT3(uSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:548:5: note: in expansion of macro ‘MAT3’ 548 | MAT3(uNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:547:5: note: in expansion of macro ‘MAT3’ 547 | MAT3(uNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:546:5: note: in expansion of macro ‘MAT3’ 546 | MAT3(uS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:545:5: note: in expansion of macro ‘MAT3’ 545 | MAT3(uN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:544:5: note: in expansion of macro ‘MAT3’ 544 | MAT3(uW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:543:5: note: in expansion of macro ‘MAT3’ 543 | MAT3(uE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:542:5: note: in expansion of macro ‘MAT3’ 542 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:540:5: note: in expansion of macro ‘MAT3’ 540 | MAT3(oNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:539:5: note: in expansion of macro ‘MAT3’ 539 | MAT3(oNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:538:5: note: in expansion of macro ‘MAT3’ 538 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:537:5: note: in expansion of macro ‘MAT3’ 537 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:536:5: note: in expansion of macro ‘MAT3’ 536 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_r’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:534:5: note: in expansion of macro ‘MAT3’ 534 | MAT3(r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:533:5: note: in expansion of macro ‘MAT3’ 533 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:532:5: note: in expansion of macro ‘MAT3’ 532 | MAT3(fc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:531:5: note: in expansion of macro ‘MAT3’ 531 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vnmresid7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:623:5: note: in expansion of macro ‘MAT2’ 623 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vnmresid7_1s’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_w1’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:650:5: note: in expansion of macro ‘MAT3’ 650 | MAT3(w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_r’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:649:5: note: in expansion of macro ‘MAT3’ 649 | MAT3( r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:648:5: note: in expansion of macro ‘MAT3’ 648 | MAT3( x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:647:5: note: in expansion of macro ‘MAT3’ 647 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:646:5: note: in expansion of macro ‘MAT3’ 646 | MAT3(fc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:645:5: note: in expansion of macro ‘MAT3’ 645 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_cc’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:645:5: note: in expansion of macro ‘MAT3’ 645 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_cc’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:645:5: note: in expansion of macro ‘MAT3’ 645 | MAT3(cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:644:5: note: in expansion of macro ‘MAT3’ 644 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:643:5: note: in expansion of macro ‘MAT3’ 643 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:642:5: note: in expansion of macro ‘MAT3’ 642 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vnmresid27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:681:5: note: in expansion of macro ‘MAT2’ 681 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vnmresid27_1s’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_w1’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:727:5: note: in expansion of macro ‘MAT3’ 727 | MAT3( w1, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_r’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:726:5: note: in expansion of macro ‘MAT3’ 726 | MAT3( r, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:725:5: note: in expansion of macro ‘MAT3’ 725 | MAT3( x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:724:5: note: in expansion of macro ‘MAT3’ 724 | MAT3(uSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:723:5: note: in expansion of macro ‘MAT3’ 723 | MAT3(uSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:722:5: note: in expansion of macro ‘MAT3’ 722 | MAT3(uNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:721:5: note: in expansion of macro ‘MAT3’ 721 | MAT3(uNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:720:5: note: in expansion of macro ‘MAT3’ 720 | MAT3( uS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:719:5: note: in expansion of macro ‘MAT3’ 719 | MAT3( uN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:718:5: note: in expansion of macro ‘MAT3’ 718 | MAT3( uW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:717:5: note: in expansion of macro ‘MAT3’ 717 | MAT3( uE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:716:5: note: in expansion of macro ‘MAT3’ 716 | MAT3(oNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:715:5: note: in expansion of macro ‘MAT3’ 715 | MAT3(oNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:714:5: note: in expansion of macro ‘MAT3’ 714 | MAT3( uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:713:5: note: in expansion of macro ‘MAT3’ 713 | MAT3( oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:712:5: note: in expansion of macro ‘MAT3’ 712 | MAT3( oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:711:5: note: in expansion of macro ‘MAT3’ 711 | MAT3( fc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:710:5: note: in expansion of macro ‘MAT3’ 710 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_cc’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:710:5: note: in expansion of macro ‘MAT3’ 710 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_cc’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:710:5: note: in expansion of macro ‘MAT3’ 710 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:709:5: note: in expansion of macro ‘MAT3’ 709 | MAT3( oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vrestrc’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_pc’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:786:5: note: in expansion of macro ‘MAT2’ 786 | MAT2(pc, *nxc * *nyc * *nzc, 1 ); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vrestrc2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:852:5: note: in expansion of macro ‘MAT3’ 852 | MAT3(dPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:851:5: note: in expansion of macro ‘MAT3’ 851 | MAT3(dPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:850:5: note: in expansion of macro ‘MAT3’ 850 | MAT3(dPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:849:5: note: in expansion of macro ‘MAT3’ 849 | MAT3(dPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:847:5: note: in expansion of macro ‘MAT3’ 847 | MAT3(dPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:846:5: note: in expansion of macro ‘MAT3’ 846 | MAT3(dPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:845:5: note: in expansion of macro ‘MAT3’ 845 | MAT3(dPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:844:5: note: in expansion of macro ‘MAT3’ 844 | MAT3(dPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:843:5: note: in expansion of macro ‘MAT3’ 843 | MAT3(dPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:841:5: note: in expansion of macro ‘MAT3’ 841 | MAT3(uPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:840:5: note: in expansion of macro ‘MAT3’ 840 | MAT3(uPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:839:5: note: in expansion of macro ‘MAT3’ 839 | MAT3(uPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:838:5: note: in expansion of macro ‘MAT3’ 838 | MAT3(uPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:836:5: note: in expansion of macro ‘MAT3’ 836 | MAT3(uPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:835:5: note: in expansion of macro ‘MAT3’ 835 | MAT3(uPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:834:5: note: in expansion of macro ‘MAT3’ 834 | MAT3(uPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:833:5: note: in expansion of macro ‘MAT3’ 833 | MAT3(uPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:832:5: note: in expansion of macro ‘MAT3’ 832 | MAT3(uPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:830:5: note: in expansion of macro ‘MAT3’ 830 | MAT3(oPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:829:5: note: in expansion of macro ‘MAT3’ 829 | MAT3(oPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:828:5: note: in expansion of macro ‘MAT3’ 828 | MAT3(oPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:827:5: note: in expansion of macro ‘MAT3’ 827 | MAT3(oPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:825:5: note: in expansion of macro ‘MAT3’ 825 | MAT3(oPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:824:5: note: in expansion of macro ‘MAT3’ 824 | MAT3(oPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:823:5: note: in expansion of macro ‘MAT3’ 823 | MAT3(oPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:822:5: note: in expansion of macro ‘MAT3’ 822 | MAT3(oPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:821:5: note: in expansion of macro ‘MAT3’ 821 | MAT3(oPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_xout’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:819:5: note: in expansion of macro ‘MAT3’ 819 | MAT3(xout, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_xin’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:818:5: note: in expansion of macro ‘MAT3’ 818 | MAT3(xin, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:816:12: warning: variable ‘dimfac’ set but not used [-Wunused-but-set-variable] 816 | double dimfac; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘VinterpPMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_pc’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:920:5: note: in expansion of macro ‘MAT2’ 920 | MAT2(pc, *nxc * *nyc * *nzc, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘VinterpPMG2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:982:5: note: in expansion of macro ‘MAT3’ 982 | MAT3(dPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:981:5: note: in expansion of macro ‘MAT3’ 981 | MAT3(dPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:980:5: note: in expansion of macro ‘MAT3’ 980 | MAT3(dPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:979:5: note: in expansion of macro ‘MAT3’ 979 | MAT3(dPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:977:5: note: in expansion of macro ‘MAT3’ 977 | MAT3( dPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:976:5: note: in expansion of macro ‘MAT3’ 976 | MAT3( dPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:975:5: note: in expansion of macro ‘MAT3’ 975 | MAT3( dPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:974:5: note: in expansion of macro ‘MAT3’ 974 | MAT3( dPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_dPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:973:5: note: in expansion of macro ‘MAT3’ 973 | MAT3( dPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:971:5: note: in expansion of macro ‘MAT3’ 971 | MAT3(uPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:970:5: note: in expansion of macro ‘MAT3’ 970 | MAT3(uPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:969:5: note: in expansion of macro ‘MAT3’ 969 | MAT3(uPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:968:5: note: in expansion of macro ‘MAT3’ 968 | MAT3(uPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:966:5: note: in expansion of macro ‘MAT3’ 966 | MAT3( uPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:965:5: note: in expansion of macro ‘MAT3’ 965 | MAT3( uPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:964:5: note: in expansion of macro ‘MAT3’ 964 | MAT3( uPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:963:5: note: in expansion of macro ‘MAT3’ 963 | MAT3( uPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:962:5: note: in expansion of macro ‘MAT3’ 962 | MAT3( uPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:960:5: note: in expansion of macro ‘MAT3’ 960 | MAT3(oPSW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:959:5: note: in expansion of macro ‘MAT3’ 959 | MAT3(oPSE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:958:5: note: in expansion of macro ‘MAT3’ 958 | MAT3(oPNW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:957:5: note: in expansion of macro ‘MAT3’ 957 | MAT3(oPNE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:955:5: note: in expansion of macro ‘MAT3’ 955 | MAT3( oPW, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:954:5: note: in expansion of macro ‘MAT3’ 954 | MAT3( oPE, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:953:5: note: in expansion of macro ‘MAT3’ 953 | MAT3( oPS, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:952:5: note: in expansion of macro ‘MAT3’ 952 | MAT3( oPN, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oPC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:951:5: note: in expansion of macro ‘MAT3’ 951 | MAT3( oPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:78:9: warning: unused variable ‘dy_oPC’ [-Wunused-variable] 78 | int dy_##mat = dy; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:951:5: note: in expansion of macro ‘MAT3’ 951 | MAT3( oPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:77:9: warning: unused variable ‘dx_oPC’ [-Wunused-variable] 77 | int dx_##mat = dx; \ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:951:5: note: in expansion of macro ‘MAT3’ 951 | MAT3( oPC, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_xout’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:949:5: note: in expansion of macro ‘MAT3’ 949 | MAT3(xout, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_xin’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:948:5: note: in expansion of macro ‘MAT3’ 948 | MAT3( xin, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c: In function ‘Vextrac’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_xout’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:1086:5: note: in expansion of macro ‘MAT3’ 1086 | MAT3(xout, *nxc, *nyc, *nzc); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_xin’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c:1085:5: note: in expansion of macro ‘MAT3’ 1085 | MAT3( xin, *nxf, *nyf, *nzf); | ^~~~ [ 35%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgcsd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.h:58, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.c: In function ‘Vmvcs’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.c:99:5: note: in expansion of macro ‘MAT2’ 99 | MAT2(iz, 50, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.c:560:13: warning: ‘rsden’ may be used uninitialized [-Wmaybe-uninitialized] 560 | Vprtstp(*iok, *iters, rsnrm, rsden, orsnrm); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.c:88:12: note: ‘rsden’ was declared here 88 | double rsden; // @todo: doc | ^~~~~ [ 36%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgdrvd.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c: In function ‘Vmgdriv’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:85:9: warning: unused variable ‘ierror’ [-Wunused-variable] 85 | int ierror = 0; | ^~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.h:62, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c: In function ‘Vmgdriv2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:267:5: note: in expansion of macro ‘MAT2’ 267 | MAT2(iz, 50, nlev); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:234:12: warning: unused variable ‘tsolve’ [-Wunused-variable] 234 | double tsolve = 0.0; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:233:12: warning: unused variable ‘tsetupc’ [-Wunused-variable] 233 | double tsetupc = 0.0; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:232:12: warning: unused variable ‘tsetupf’ [-Wunused-variable] 232 | double tsetupf = 0.0; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:231:12: warning: unused variable ‘oh’ [-Wunused-variable] 231 | double oh = 0.0; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:230:12: warning: unused variable ‘bf’ [-Wunused-variable] 230 | double bf = 0.0; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:226:12: warning: unused variable ‘epsmac’ [-Wunused-variable] 226 | double epsmac = 0.0; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c: In function ‘Vmgsz’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:655:26: warning: ‘num_narrc_oper’ may be used uninitialized [-Wmaybe-uninitialized] 655 | + (num_narrc + num_narrc_oper) * *narrc | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:580:22: note: ‘num_narrc_oper’ was declared here 580 | int num_nf_oper, num_narrc_oper; | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:654:41: warning: ‘num_nf_oper’ may be used uninitialized [-Wmaybe-uninitialized] 654 | + (num_nf + num_nf_oper) * *nf | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:580:9: note: ‘num_nf_oper’ was declared here 580 | int num_nf_oper, num_narrc_oper; | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:656:13: warning: ‘n_band’ may be used uninitialized [-Wmaybe-uninitialized] 653 | *iretot = num_narr * *narr | ~~~~~~~~~~~~~~~~ 654 | + (num_nf + num_nf_oper) * *nf | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 655 | + (num_narrc + num_narrc_oper) * *narrc | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 656 | + n_band | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c:577:28: note: ‘n_band’ was declared here 577 | int nc_band, num_band, n_band; | ^~~~~~ [ 37%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgsubd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.h:58, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c: In function ‘Vbuildops’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:83:5: note: in expansion of macro ‘MAT2’ 83 | MAT2(iz, 50, *nlev); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c: In function ‘Vbuildstr’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:266:5: note: in expansion of macro ‘MAT2’ 266 | MAT2(iz, 50, *nlev); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c: In function ‘Vbuildcopy0’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fcf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:628:5: note: in expansion of macro ‘MAT3’ 628 | MAT3( fcf, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_ccf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:627:5: note: in expansion of macro ‘MAT3’ 627 | MAT3( ccf, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_tcf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:626:5: note: in expansion of macro ‘MAT3’ 626 | MAT3( tcf, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a3cf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:625:5: note: in expansion of macro ‘MAT3’ 625 | MAT3(a3cf, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a2cf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:624:5: note: in expansion of macro ‘MAT3’ 624 | MAT3(a2cf, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a1cf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:623:5: note: in expansion of macro ‘MAT3’ 623 | MAT3(a1cf, *nxf, *nyf, *nzf); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gzcf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:622:5: note: in expansion of macro ‘MAT3’ 622 | MAT3(gzcf, *nxf, *nyf, 4); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gycf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:621:5: note: in expansion of macro ‘MAT3’ 621 | MAT3(gycf, *nxf, *nzf, 4); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gxcf’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:620:5: note: in expansion of macro ‘MAT3’ 620 | MAT3(gxcf, *nyf, *nzf, 4); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_tc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:619:5: note: in expansion of macro ‘MAT3’ 619 | MAT3( tc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_fc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:618:5: note: in expansion of macro ‘MAT3’ 618 | MAT3( fc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_cc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:617:5: note: in expansion of macro ‘MAT3’ 617 | MAT3( cc, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a3c’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:616:5: note: in expansion of macro ‘MAT3’ 616 | MAT3( a3c, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a2c’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:615:5: note: in expansion of macro ‘MAT3’ 615 | MAT3( a2c, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_a1c’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:614:5: note: in expansion of macro ‘MAT3’ 614 | MAT3( a1c, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gzc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:613:5: note: in expansion of macro ‘MAT3’ 613 | MAT3( gzc, *nx, *ny, 4); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gyc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:612:5: note: in expansion of macro ‘MAT3’ 612 | MAT3( gyc, *nx, *nz, 4); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gxc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:611:5: note: in expansion of macro ‘MAT3’ 611 | MAT3( gxc, *ny, *nz, 4); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c: In function ‘Vbuildalg’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c:914:5: note: in expansion of macro ‘MAT2’ 914 | MAT2(iz, 50, *nlev); | ^~~~ [ 39%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mikpckd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.h:58, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vxcopy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:60:5: note: in expansion of macro ‘MAT3’ 60 | MAT3(y, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:59:5: note: in expansion of macro ‘MAT3’ 59 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vxcopy_small’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:78:5: note: in expansion of macro ‘MAT3’ 78 | MAT3(y, *nx - 2, *ny - 2, *nz - 2); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:77:5: note: in expansion of macro ‘MAT3’ 77 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vxcopy_large’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:99:5: note: in expansion of macro ‘MAT3’ 99 | MAT3(y, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:98:5: note: in expansion of macro ‘MAT3’ 98 | MAT3(x, *nx - 2, *ny - 2, *nz - 2); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vxaxpy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:117:5: note: in expansion of macro ‘MAT3’ 117 | MAT3(y, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:116:5: note: in expansion of macro ‘MAT3’ 116 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vxnrm1’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:136:5: note: in expansion of macro ‘MAT3’ 136 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vxnrm2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:157:5: note: in expansion of macro ‘MAT3’ 157 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vxdot’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_y’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:182:5: note: in expansion of macro ‘MAT3’ 182 | MAT3(y, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:181:5: note: in expansion of macro ‘MAT3’ 181 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vazeros’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:198:9: warning: unused variable ‘nproc’ [-Wunused-variable] 198 | int nproc = 1; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘VfboundPMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gzc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:218:5: note: in expansion of macro ‘MAT3’ 218 | MAT3(gzc, *nx, *ny, 2); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gyc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:217:5: note: in expansion of macro ‘MAT3’ 217 | MAT3(gyc, *nx, *nz, 2); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_gxc’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:216:5: note: in expansion of macro ‘MAT3’ 216 | MAT3(gxc, *ny, *nz, 2); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:215:5: note: in expansion of macro ‘MAT3’ 215 | MAT3( x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘VfboundPMG00’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:262:5: note: in expansion of macro ‘MAT3’ 262 | MAT3( x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vaxrand’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:295:12: warning: variable ‘xdum’ set but not used [-Wunused-but-set-variable] 295 | double xdum; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:293:33: warning: variable ‘iflag’ set but not used [-Wunused-but-set-variable] 293 | int n, i, ii, ipara, ivect, iflag; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:293:26: warning: variable ‘ivect’ set but not used [-Wunused-but-set-variable] 293 | int n, i, ii, ipara, ivect, iflag; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vxscal’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_x’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:322:5: note: in expansion of macro ‘MAT3’ 322 | MAT3(x, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vprtmatd’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_ac’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:337:5: note: in expansion of macro ‘MAT2’ 337 | MAT2(ac, *nx * *ny * *nz, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vprtmatd7’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:370:5: note: in expansion of macro ‘MAT3’ 370 | MAT3(uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:369:5: note: in expansion of macro ‘MAT3’ 369 | MAT3(oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:368:5: note: in expansion of macro ‘MAT3’ 368 | MAT3(oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:367:5: note: in expansion of macro ‘MAT3’ 367 | MAT3(oC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c: In function ‘Vprtmatd27’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:415:5: note: in expansion of macro ‘MAT3’ 415 | MAT3(uSW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uSE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:414:5: note: in expansion of macro ‘MAT3’ 414 | MAT3(uSE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:413:5: note: in expansion of macro ‘MAT3’ 413 | MAT3(uNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:412:5: note: in expansion of macro ‘MAT3’ 412 | MAT3(uNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uS’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:411:5: note: in expansion of macro ‘MAT3’ 411 | MAT3( uS, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:410:5: note: in expansion of macro ‘MAT3’ 410 | MAT3( uN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:409:5: note: in expansion of macro ‘MAT3’ 409 | MAT3( uW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:408:5: note: in expansion of macro ‘MAT3’ 408 | MAT3( uE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNW’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:407:5: note: in expansion of macro ‘MAT3’ 407 | MAT3(oNW, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oNE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:406:5: note: in expansion of macro ‘MAT3’ 406 | MAT3(oNE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_uC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:405:5: note: in expansion of macro ‘MAT3’ 405 | MAT3( uC, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oN’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:404:5: note: in expansion of macro ‘MAT3’ 404 | MAT3( oN, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oE’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:403:5: note: in expansion of macro ‘MAT3’ 403 | MAT3( oE, *nx, *ny, *nz); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_oC’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c:402:5: note: in expansion of macro ‘MAT3’ 402 | MAT3( oC, *nx, *ny, *nz); | ^~~~ [ 40%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mlinpckd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.c: In function ‘Vdpbsl’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_abd’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.c:62:5: note: in expansion of macro ‘MAT2’ 62 | MAT2(abd, *lda, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.c: In function ‘Vdpbfa’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_abd’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.c:199:5: note: in expansion of macro ‘MAT2’ 199 | MAT2(abd, *lda, 1); | ^~~~ [ 41%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mypdec.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c: In function ‘Vmypdefinitsmpbe’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:96:9: warning: unused variable ‘i’ [-Wunused-variable] 96 | int i; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c: In function ‘Vc_vecsmpbe’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:223:26: warning: variable ‘ivect’ set but not used [-Wunused-but-set-variable] 223 | int n, i, ii, ipara, ivect; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:223:19: warning: variable ‘ipara’ set but not used [-Wunused-but-set-variable] 223 | int n, i, ii, ipara, ivect; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:223:15: warning: unused variable ‘ii’ [-Wunused-variable] 223 | int n, i, ii, ipara, ivect; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:222:9: warning: unused variable ‘iion’ [-Wunused-variable] 222 | int iion; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:219:28: warning: unused variable ‘fact’ [-Wunused-variable] 219 | double argument, poly, fact; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:219:22: warning: unused variable ‘poly’ [-Wunused-variable] 219 | double argument, poly, fact; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:219:12: warning: unused variable ‘argument’ [-Wunused-variable] 219 | double argument, poly, fact; | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:218:29: warning: unused variable ‘am_pos’ [-Wunused-variable] 218 | double am_zero, am_neg, am_pos; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:218:21: warning: unused variable ‘am_neg’ [-Wunused-variable] 218 | double am_zero, am_neg, am_pos; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:217:18: warning: unused variable ‘zu2’ [-Wunused-variable] 217 | double zcf2, zu2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:217:12: warning: unused variable ‘zcf2’ [-Wunused-variable] 217 | double zcf2, zu2; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:216:9: warning: unused variable ‘ideg’ [-Wunused-variable] 216 | int ideg; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c: In function ‘Vdc_vec’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:345:9: warning: unused variable ‘n’ [-Wunused-variable] 345 | int n = *nx * *ny * *nz; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:344:9: warning: unused variable ‘i’ [-Wunused-variable] 344 | int i; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c: In function ‘Vdc_vecpmg’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:360:28: warning: unused variable ‘fact’ [-Wunused-variable] 360 | double argument, poly, fact; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:360:22: warning: unused variable ‘poly’ [-Wunused-variable] 360 | double argument, poly, fact; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:357:9: warning: unused variable ‘ideg’ [-Wunused-variable] 357 | int ideg, iion; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c: In function ‘Vdc_vecsmpbe’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:433:16: warning: variable ‘ivect’ set but not used [-Wunused-but-set-variable] 433 | int ipara, ivect; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:433:9: warning: variable ‘ipara’ set but not used [-Wunused-but-set-variable] 433 | int ipara, ivect; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:432:15: warning: unused variable ‘ii’ [-Wunused-variable] 432 | int n, i, ii; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:429:28: warning: unused variable ‘fact’ [-Wunused-variable] 429 | double argument, poly, fact; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:429:22: warning: unused variable ‘poly’ [-Wunused-variable] 429 | double argument, poly, fact; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:429:12: warning: unused variable ‘argument’ [-Wunused-variable] 429 | double argument, poly, fact; | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:428:29: warning: unused variable ‘am_pos’ [-Wunused-variable] 428 | double am_zero, am_neg, am_pos; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:428:21: warning: unused variable ‘am_neg’ [-Wunused-variable] 428 | double am_zero, am_neg, am_pos; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:427:18: warning: unused variable ‘zu2’ [-Wunused-variable] 427 | double zcf2, zu2; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:427:12: warning: unused variable ‘zcf2’ [-Wunused-variable] 427 | double zcf2, zu2; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:426:15: warning: unused variable ‘iion’ [-Wunused-variable] 426 | int ideg, iion; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c:426:9: warning: unused variable ‘ideg’ [-Wunused-variable] 426 | int ideg, iion; | ^~~~ [ 42%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/newtond.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c:56: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c: In function ‘Vfnewton’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c:77:5: note: in expansion of macro ‘MAT2’ 77 | MAT2( iz, 50, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c: In function ‘Vnewton’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c:187:5: note: in expansion of macro ‘MAT2’ 187 | MAT2(iz, 50, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c: In function ‘Vgetjac’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c:560:5: note: in expansion of macro ‘MAT2’ 560 | MAT2(iz, 50, 1); | ^~~~ [ 43%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/newdrvd.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c: In function ‘Vnewdriv’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:86:9: warning: unused variable ‘maxlev’ [-Wunused-variable] 86 | int maxlev; /// @todo: Doc | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:85:9: warning: unused variable ‘ierror’ [-Wunused-variable] 85 | int ierror; /// @todo: Doc | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c: In function ‘Vnewdriv2’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:223:9: warning: unused variable ‘i’ [-Wunused-variable] 223 | int i; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:221:12: warning: unused variable ‘orsnrm_t’ [-Wunused-variable] 221 | double orsnrm_t; | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:220:12: warning: unused variable ‘rsden_t’ [-Wunused-variable] 220 | double rsden_t; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:219:12: warning: unused variable ‘rsnrm_t’ [-Wunused-variable] 219 | double rsnrm_t; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:218:9: warning: unused variable ‘iters_t’ [-Wunused-variable] 218 | int iters_t; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:217:9: warning: unused variable ‘iok_t’ [-Wunused-variable] 217 | int iok_t; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:215:9: warning: unused variable ‘numlev’ [-Wunused-variable] 215 | int numlev; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:210:12: warning: unused variable ‘tsolve’ [-Wunused-variable] 210 | double tsolve; /// @todo: Doc | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:209:12: warning: unused variable ‘tsetupc’ [-Wunused-variable] 209 | double tsetupc; /// @todo: Doc | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:208:12: warning: unused variable ‘tsetupf’ [-Wunused-variable] 208 | double tsetupf; /// @todo: Doc | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:207:12: warning: unused variable ‘oh’ [-Wunused-variable] 207 | double oh; /// @todo: Doc | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:206:12: warning: unused variable ‘bf’ [-Wunused-variable] 206 | double bf; /// @todo: Doc | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:204:12: warning: variable ‘omegal’ set but not used [-Wunused-but-set-variable] 204 | double omegal; /// @todo: Doc | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c:202:12: warning: unused variable ‘epsmac’ [-Wunused-variable] 202 | double epsmac; /// @todo: Doc | ^~~~~~ [ 44%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/powerd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c: In function ‘Vpower’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c:74:5: note: in expansion of macro ‘MAT2’ 74 | MAT2(iz, 50, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c:71:9: warning: unused variable ‘skipIters’ [-Wunused-variable] 71 | int skipIters = 0; | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c: In function ‘Vipower’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c:188:5: note: in expansion of macro ‘MAT2’ 188 | MAT2(iz, 50, 1); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c: In function ‘Vmpower’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c:311:5: note: in expansion of macro ‘MAT2’ 311 | MAT2(iz, 50, 1); | ^~~~ [ 45%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/smoothd.c.o [ 47%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgfasd.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/smoothd.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.h:57, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c:55: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c: In function ‘Vfmvfas’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c:79:5: note: in expansion of macro ‘MAT2’ 79 | MAT2(iz, 50, *nlev); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c:74:12: warning: variable ‘errd’ set but not used [-Wunused-but-set-variable] 74 | double errd; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c: In function ‘Vmvfas’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:66:9: warning: unused variable ‘dy_iz’ [-Wunused-variable] 66 | int dy_##mat = dy | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c:182:5: note: in expansion of macro ‘MAT2’ 182 | MAT2(iz, 50, *nlev); | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c:171:33: warning: unused variable ‘ivariv’ [-Wunused-variable] 171 | int itmax_s, iters_s, nuuu, ivariv, mgsmoo_s, iresid; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c:254:13: warning: ‘rsden’ may be used uninitialized [-Wmaybe-uninitialized] 254 | if (rsden == 0.0) { | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c:176:12: note: ‘rsden’ was declared here 176 | double rsden, rsnrm, orsnrm; | ^~~~~ [ 47%] Built target apbs_pmgc [ 48%] Linking C shared library ../lib/libapbs.so [ 48%] Built target apbs [ 49%] Building C object src/CMakeFiles/apbs_routines.dir/routines.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘loadDielMaps’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:296:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 296 | for (ii=0; ii<(nx*ny*nz); ii++) | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:298:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 298 | sum = sum*hx*hy*hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:331:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 331 | for (ii=0; ii<(nx*ny*nz); ii++) | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:333:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 333 | sum = sum*hx*hy*hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:420:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 420 | for (ii=0; ii<(nx*ny*nz); ii++) | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:422:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 422 | sum = sum*hx*hy*hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:454:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 454 | for (ii=0; ii<(nx*ny*nz); ii++) | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:456:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 456 | sum = sum*hx*hy*hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘initMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1234:12: warning: variable ‘iparm’ set but not used [-Wunused-but-set-variable] 1234 | iparm, | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘energyMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1584:13: warning: variable ‘mgparm’ set but not used [-Wunused-but-set-variable] 1584 | MGparm *mgparm; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writematMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1803:10: warning: variable ‘mxtype’ set but not used [-Wunused-but-set-variable] 1803 | char mxtype[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘printApolForce’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:3485:12: warning: variable ‘scalar’ set but not used [-Wunused-but-set-variable] 3485 | scalar, | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:3484:12: warning: variable ‘temp’ set but not used [-Wunused-but-set-variable] 3484 | double temp, | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘initAPOL’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4496:12: warning: variable ‘sav’ set but not used [-Wunused-but-set-variable] 4496 | sav, /**< @todo document */ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4495:12: warning: variable ‘sasa’ set but not used [-Wunused-but-set-variable] 4495 | double sasa, /**< @todo document */ | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4489:12: warning: unused variable ‘ts’ [-Wunused-variable] 4489 | time_t ts; /**< Temporary timing variable for debugging (PCE) */ | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘forceAPOL’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4753:13: warning: unused variable ‘apos’ [-Wunused-variable] 4753 | *apos; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4737:46: warning: unused variable ‘ts_sub’ [-Wunused-variable] 4737 | time_t ts, ts_main, ts_sub; | ^~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:64, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:54: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘initAPOL’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4590:20: warning: ‘Vparam_getAtomData’ accessing 1024 bytes in a region of size 4 [-Wstringop-overflow=] 4590 | atomData = Vparam_getAtomData(param, "WAT", "OW"); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4590:20: note: referencing argument 2 of type ‘char[1024]’ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4590:20: warning: ‘Vparam_getAtomData’ accessing 1024 bytes in a region of size 3 [-Wstringop-overflow=] /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4590:20: note: referencing argument 3 of type ‘char[1024]’ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.h:73, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:73: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.h:304:27: note: in a call to function ‘Vparam_getAtomData’ 304 | VEXTERNC Vparam_AtomData* Vparam_getAtomData(Vparam *thee, | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4591:43: warning: ‘Vparam_getAtomData’ accessing 1024 bytes in a region of size 4 [-Wstringop-overflow=] 4591 | if (atomData == VNULL) atomData = Vparam_getAtomData(param, "WAT", "O"); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4591:43: note: referencing argument 2 of type ‘char[1024]’ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4591:43: warning: ‘Vparam_getAtomData’ accessing 1024 bytes in a region of size 2 [-Wstringop-overflow=] /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4591:43: note: referencing argument 3 of type ‘char[1024]’ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.h:304:27: note: in a call to function ‘Vparam_getAtomData’ 304 | VEXTERNC Vparam_AtomData* Vparam_getAtomData(Vparam *thee, | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writematMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1826:34: warning: ‘-PE’ directive writing 3 bytes into a region of size between 1 and 1024 [-Wformat-overflow=] 1826 | sprintf(writematstem, "%s-PE%d", pbeparm->writematstem,nosh->proc_rank); | ^~~ In file included from /usr/include/stdio.h:970, from /usr/include/maloc/maloc_base.h:80, from /usr/include/maloc/maloc.h:38, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:67: In function ‘sprintf’, inlined from ‘writematMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1826:9: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1038 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writematMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1840:30: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 1840 | sprintf(outpath, "%s.%s", writematstem, "mat"); | ^~ ~~~~~ In function ‘sprintf’, inlined from ‘writematMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1840:9: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1028 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataFlat’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2105:33: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2105 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1906:44: note: ‘scalar’ was declared here 1906 | double conversion, ltenergy, gtenergy, scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataXML’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2363:33: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2363 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2140:44: note: ‘scalar’ was declared here 2140 | double conversion, ltenergy, gtenergy, scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2676:30: warning: ‘%s’ directive writing 5 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2676 | sprintf(outpath, "%s.%s", writestem, "dxbin"); | ^~ ~~~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2676:9: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 7 and 1030 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2720:38: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2720 | sprintf(outpath, "%s.%s", writestem, "txt"); | ^~ ~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2720:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1028 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2711:38: warning: ‘%s’ directive writing 5 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2711 | sprintf(outpath, "%s.%s", writestem, "dx.gz"); | ^~ ~~~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2711:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 7 and 1030 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2694:38: warning: ‘%s’ directive writing 4 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2694 | sprintf(outpath, "%s.%s", writestem, "mcsf"); | ^~ ~~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2694:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 6 and 1029 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2687:38: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2687 | sprintf(outpath, "%s.%s", writestem, "ucd"); | ^~ ~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2687:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1028 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2701:38: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2701 | sprintf(outpath, "%s.%s", writestem, "grd"); | ^~ ~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2701:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1028 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2666:38: warning: ‘%s’ directive writing 2 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2666 | sprintf(outpath, "%s.%s", writestem, "dx"); | ^~ ~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2666:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 4 and 1027 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘returnEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2778:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2778 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2762:12: note: ‘scalar’ was declared here 2762 | scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘printEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2839:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2839 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2795:12: note: ‘scalar’ was declared here 2795 | scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘printElecEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2904:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2904 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2863:12: note: ‘scalar’ was declared here 2863 | scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘printApolEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2970:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2970 | gtenergy += (scalar * ((apolparm->gamma*apolparm->sasa) + | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2971 | (apolparm->press*apolparm->sav) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2972 | (apolparm->wcaEnergy))); | ~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2925:12: note: ‘scalar’ was declared here 2925 | scalar; | ^~~~~~ [ 49%] Built target apbs_routines [ 50%] Building C object src/CMakeFiles/apbs-bin.dir/main.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c:117:11: warning: unused variable ‘gm’ [-Wunused-variable] 117 | void *gm[NOSH_MAXMOL]; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c:116:11: warning: variable ‘fetk’ set but not used [-Wunused-but-set-variable] 116 | void *fetk[NOSH_MAXCALC]; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c:96:18: warning: unused variable ‘geoflowparm’ [-Wunused-variable] 96 | GEOFLOWparm *geoflowparm = VNULL; | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c:92:14: warning: unused variable ‘feparm’ [-Wunused-variable] 92 | FEMparm *feparm = VNULL; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c:86:17: warning: unused variable ‘te’ [-Wunused-variable] 86 | clock_t ts, te; | ^~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:64, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c:70: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 51%] Building C object src/CMakeFiles/apbs-bin.dir/routines.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘loadDielMaps’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:296:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 296 | for (ii=0; ii<(nx*ny*nz); ii++) | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:298:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 298 | sum = sum*hx*hy*hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:331:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 331 | for (ii=0; ii<(nx*ny*nz); ii++) | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:333:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 333 | sum = sum*hx*hy*hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:420:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 420 | for (ii=0; ii<(nx*ny*nz); ii++) | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:422:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 422 | sum = sum*hx*hy*hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:454:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 454 | for (ii=0; ii<(nx*ny*nz); ii++) | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:456:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 456 | sum = sum*hx*hy*hzed; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘initMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1234:12: warning: variable ‘iparm’ set but not used [-Wunused-but-set-variable] 1234 | iparm, | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘energyMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1584:13: warning: variable ‘mgparm’ set but not used [-Wunused-but-set-variable] 1584 | MGparm *mgparm; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writematMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1803:10: warning: variable ‘mxtype’ set but not used [-Wunused-but-set-variable] 1803 | char mxtype[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘printApolForce’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:3485:12: warning: variable ‘scalar’ set but not used [-Wunused-but-set-variable] 3485 | scalar, | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:3484:12: warning: variable ‘temp’ set but not used [-Wunused-but-set-variable] 3484 | double temp, | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘initAPOL’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4496:12: warning: variable ‘sav’ set but not used [-Wunused-but-set-variable] 4496 | sav, /**< @todo document */ | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4495:12: warning: variable ‘sasa’ set but not used [-Wunused-but-set-variable] 4495 | double sasa, /**< @todo document */ | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4489:12: warning: unused variable ‘ts’ [-Wunused-variable] 4489 | time_t ts; /**< Temporary timing variable for debugging (PCE) */ | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘forceAPOL’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4753:13: warning: unused variable ‘apos’ [-Wunused-variable] 4753 | *apos; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4737:46: warning: unused variable ‘ts_sub’ [-Wunused-variable] 4737 | time_t ts, ts_main, ts_sub; | ^~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:64, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:54: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘initAPOL’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4590:20: warning: ‘Vparam_getAtomData’ accessing 1024 bytes in a region of size 4 [-Wstringop-overflow=] 4590 | atomData = Vparam_getAtomData(param, "WAT", "OW"); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4590:20: note: referencing argument 2 of type ‘char[1024]’ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4590:20: warning: ‘Vparam_getAtomData’ accessing 1024 bytes in a region of size 3 [-Wstringop-overflow=] /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4590:20: note: referencing argument 3 of type ‘char[1024]’ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.h:73, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:73: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.h:304:27: note: in a call to function ‘Vparam_getAtomData’ 304 | VEXTERNC Vparam_AtomData* Vparam_getAtomData(Vparam *thee, | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4591:43: warning: ‘Vparam_getAtomData’ accessing 1024 bytes in a region of size 4 [-Wstringop-overflow=] 4591 | if (atomData == VNULL) atomData = Vparam_getAtomData(param, "WAT", "O"); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4591:43: note: referencing argument 2 of type ‘char[1024]’ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4591:43: warning: ‘Vparam_getAtomData’ accessing 1024 bytes in a region of size 2 [-Wstringop-overflow=] /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4591:43: note: referencing argument 3 of type ‘char[1024]’ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.h:304:27: note: in a call to function ‘Vparam_getAtomData’ 304 | VEXTERNC Vparam_AtomData* Vparam_getAtomData(Vparam *thee, | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writematMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1826:34: warning: ‘-PE’ directive writing 3 bytes into a region of size between 1 and 1024 [-Wformat-overflow=] 1826 | sprintf(writematstem, "%s-PE%d", pbeparm->writematstem,nosh->proc_rank); | ^~~ In file included from /usr/include/stdio.h:970, from /usr/include/maloc/maloc_base.h:80, from /usr/include/maloc/maloc.h:38, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:67: In function ‘sprintf’, inlined from ‘writematMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1826:9: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1038 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writematMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1840:30: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 1840 | sprintf(outpath, "%s.%s", writematstem, "mat"); | ^~ ~~~~~ In function ‘sprintf’, inlined from ‘writematMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1840:9: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1028 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataFlat’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2105:33: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2105 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:1906:44: note: ‘scalar’ was declared here 1906 | double conversion, ltenergy, gtenergy, scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataXML’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2363:33: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2363 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2140:44: note: ‘scalar’ was declared here 2140 | double conversion, ltenergy, gtenergy, scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2676:30: warning: ‘%s’ directive writing 5 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2676 | sprintf(outpath, "%s.%s", writestem, "dxbin"); | ^~ ~~~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2676:9: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 7 and 1030 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2720:38: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2720 | sprintf(outpath, "%s.%s", writestem, "txt"); | ^~ ~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2720:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1028 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2711:38: warning: ‘%s’ directive writing 5 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2711 | sprintf(outpath, "%s.%s", writestem, "dx.gz"); | ^~ ~~~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2711:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 7 and 1030 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2694:38: warning: ‘%s’ directive writing 4 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2694 | sprintf(outpath, "%s.%s", writestem, "mcsf"); | ^~ ~~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2694:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 6 and 1029 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2687:38: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2687 | sprintf(outpath, "%s.%s", writestem, "ucd"); | ^~ ~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2687:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1028 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2701:38: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2701 | sprintf(outpath, "%s.%s", writestem, "grd"); | ^~ ~~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2701:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 5 and 1028 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘writedataMG’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2666:38: warning: ‘%s’ directive writing 2 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 2666 | sprintf(outpath, "%s.%s", writestem, "dx"); | ^~ ~~~~ In function ‘sprintf’, inlined from ‘writedataMG’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2666:17: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 4 and 1027 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘returnEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2778:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2778 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2762:12: note: ‘scalar’ was declared here 2762 | scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘printEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2839:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2839 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2795:12: note: ‘scalar’ was declared here 2795 | scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘printElecEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2904:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2904 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2863:12: note: ‘scalar’ was declared here 2863 | scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c: In function ‘printApolEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2970:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 2970 | gtenergy += (scalar * ((apolparm->gamma*apolparm->sasa) + | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2971 | (apolparm->press*apolparm->sav) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2972 | (apolparm->wcaEnergy))); | ~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:2925:12: note: ‘scalar’ was declared here 2925 | scalar; | ^~~~~~ [ 52%] Linking C executable ../bin/apbs [ 52%] Built target apbs-bin [ 54%] Generating documentation with Doxygen warning: Tag 'TCL_SUBST' at line 213 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'COLS_IN_ALPHA_INDEX' at line 857 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'HTML_TIMESTAMP' at line 953 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'FORMULA_TRANSPARENT' at line 1175 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'LATEX_SOURCE_CODE' at line 1313 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'PERL_PATH' at line 1565 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'CLASS_DIAGRAMS' at line 1577 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MSCGEN_PATH' at line 1586 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTNAME' at line 1616 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTSIZE' at line 1621 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_TRANSPARENT' at line 1770 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: tag INPUT: input source '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/doc/license/LICENSE.txt' does not exist warning: source '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/doc/license/LICENSE.txt' is not a readable file or directory... skipping. Doxygen version used: 1.12.0 Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for files to exclude Searching INPUT for files to process... 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Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/smoothd.c... Par/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.h:7: warning: the name 'beparm.h' supplied as the argument in the \file statement is not an input file sing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/smoothd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/smoothd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/smoothd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/mainpage.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/mainpage.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Building concept list... Computing nesting relations for classes... Associating documentation with classes... Associating documentation with concepts... Associating documentation with modules... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Computing module relations... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Computing tooltip texts... Generating style sheet... Generating search indices... Generating images for formulas in HTML... Generating image form_0.png for formula Generating image form_1.png for formula Generating image form_2.png for formula Generating image form_3.png for formula Generating image form_4.png for formula Generating image form_5.png for formula Generating image form_6.png for formula Generating image form_7.png for formula Generating image form_8.png for formula Generating image form_9.png for formula Generating image form_10.png for formula Generating image form_11.png for formula Generating image form_12.png for formula Generating image form_13.png for formula Generating image form_14.png for formula Generating image form_15.png for formula Generating image form_16.png for formula Generating image form_17.png for formula Generating image form_18.png for formula Generating image form_19.png for formula Generating image form_20.png for formula Generating image form_21.png for formula Generating image form_22.png for formula Generating image form_23.png for formula Generating image form_24.png for formula Generating image form_25.png for formula Generating image form_26.png for formula Generating image form_27.png for formula Generating image form_28.png for formula Generating image form_29.png for formula Generating image form_30.png for formula Generating image form_31.png for formula Generating image form_32.png for formula Generating image form_33.png for formula Generating image form_34.png for formula Generating image form_35.png for formula Generating image form_36.png for formula Generating image form_37.png for formula Generating image form_38.png for formula Generating image form_39.png for formula Generating image form_40.png for formula Generating image form_41.png for formula Generating image form_42.png for formula Generating image form_43.png for formula Generating image form_44.png for formula Generating image form_45.png for formula Generating image form_46.png for formula Generating image form_47.png for formula Generating image form_48.png for formula Generating image form_49.png for formula Generating image form_50.png for formula Generating image form_51.png for formula Generating image form_52.png for formula Generating image form_53.png for formula Generating image form_54.png for formula Generating image form_55.png for formula Generating image form_56.png for formula Generating image form_57.png for formula Generating image form_58.png for formula Generating image form_59.png for formula Generating image form_60.png for formula Generating image form_61.png for formula Generating image form_62.png for formula Generating image form_63.png for formula Generating image form_64.png for formula Generating image form_0_dark.png for formula Generating image form_1_dark.png for formula Generating image form_2_dark.png for formula Generating image form_3_dark.png for formula Generating image form_4_dark.png for formula Generating image form_5_dark.png for formula Generating image form_6_dark.png for formula Generating image form_7_dark.png for formula Generating image form_8_dark.png for formula Generating image form_9_dark.png for formula Generating image form_10_dark.png for formula Generating image form_11_dark.png for formula Generating image form_12_dark.png for formula Generating image form_13_dark.png for formula Generating image form_14_dark.png for formula Generating image form_15_dark.png for formula Generating image form_16_dark.png for formula Generating image form_17_dark.png for formula Generating image form_18_dark.png for formula Generating image form_19_dark.png for formula Generating image form_20_dark.png for formula Generating image form_21_dark.png for formula Generating image form_22_dark.png for formula Generating image form_23_dark.png for formula Generating image form_24_dark.png for formula Generating image form_25_dark.png for formula Generating image form_26_dark.png for formula Generating image form_27_dark.png for formula Generating image form_28_dark.png for formula Generating image form_29_dark.png for formula Generating image form_30_dark.png for formula Generating image form_31_dark.png for formula Generating image form_32_dark.png for formula Generating image form_33_dark.png for formula Generating image form_34_dark.png for formula Generating image form_35_dark.png for formula Generating image form_36_dark.png for formula Generating image form_37_dark.png for formula Generating image form_38_dark.png for formula Generating image form_39_dark.png for formula Generating image form_40_dark.png for formula Generating image form_41_dark.png for formula Generating image form_42_dark.png for formula Generating image form_43_dark.png for formula Generating image form_44_dark.png for formula Generating image form_45_dark.png for formula Generating image form_46_dark.png for formula Generating image form_47_dark.png for formula Generating image form_48_dark.png for formula Generating image form_49_dark.png for formula Generating image form_50_dark.png for formula Generating image form_51_dark.png for formula Generating image form_52_dark.png for formula Generating image form_53_dark.png for formula Generating image form_54_dark.png for formula Generating image form_55_dark.png for formula Generating image form_56_dark.png for formula Generating image form_57_dark.png for formula Generating image form_58_dark.png for formula Generating image form_59_dark.png for formula Generating image form_60_dark.png for formula Generating image form_61_dark.png for formula Generating image form_62_dark.png for formula Generating image form_63_dark.png for formula Generating image form_64_dark.png for formula Generating example documentation... Generating file sources... Generating code for file doc/programmer/mainpage.h... Generating code for file src/apbs.h... Generating code for file src/fem/vcsm.c... Generating code for file src/fem/vcsm.h... Generating code for file src/fem/vfetk.c... Generating code for file src/fem/vfetk.h... Generating code for file src/fem/vpee.c... Generating code for file src/fem/vpee.h... Generating code for file src/generic/apolparm.c... Generating code for file src/generic/apolparm.h... Generating code for file src/generic/bemparm.c... Generating code for file src/generic/bemparm.h... Generating code for file src/generic/femparm.c... Generating code for file src/generic/femparm.h... Generating code for file src/generic/geoflowparm.c... Generating code for file src/generic/geoflowparm.h... Generating code for file src/generic/mgparm.c... Generating code for file src/generic/mgparm.h... Generating code for file src/generic/nosh.c... Generating code for file src/generic/nosh.h... Generating code for file src/generic/pbamparm.c... Generating code for file src/generic/pbamparm.h... Generating code for file src/generic/pbeparm.c... Generating code for file src/generic/pbeparm.h... Generating code for file src/generic/pbsamparm.c... Generating code for file src/generic/pbsamparm.h... Generating code for file src/generic/vacc.c... Generating code for file src/generic/vacc.h... Generating code for file src/generic/valist.c... Generating code for file src/generic/valist.h... Generating code for file src/generic/vatom.c... Generating code for file src/generic/vatom.h... Generating code for file src/generic/vcap.c... Generating code for file src/generic/vcap.h... Generating code for file src/generic/vclist.c... Generating code for file src/generic/vclist.h... Generating code for file src/generic/vgreen.c... Generating code for file src/generic/vgreen.h... Generating code for file src/generic/vhal.h... Generating code for file src/generic/vmatrix.h... Generating code for file src/generic/vparam.c... Generating code for file src/generic/vparam.h... Generating code for file src/generic/vpbe.c... Generating code for file src/generic/vpbe.h... Generating code for file src/generic/vstring.c... Generating code for file src/generic/vstring.h... Generating code for file src/generic/vunit.h... Generating code for file src/main.c... Generating code for file src/mg/vgrid.c... Generating code for file src/mg/vgrid.h... Generating code for file src/mg/vmgrid.c... Generating code for file src/mg/vmgrid.h... Generating code for file src/mg/vopot.c... Generating code for file src/mg/vopot.h... Generating code for file src/mg/vpmg.c... Generating code for file src/mg/vpmg.h... Generating code for file src/mg/vpmgp.c... Generating code for file src/mg/vpmgp.h... Generating code for file src/pmgc/buildAd.c... Generating code for file src/pmgc/buildAd.h... Generating code for file src/pmgc/buildBd.c... Generating code for file src/pmgc/buildBd.h... Generating code for file src/pmgc/buildGd.c... Generating code for file src/pmgc/buildGd.h... Generating code for file src/pmgc/buildPd.c... Generating code for file src/pmgc/buildPd.h... Generating code for file src/pmgc/cgd.c... Generating code for file src/pmgc/cgd.h... Generating code for file src/pmgc/gsd.c... Generating code for file src/pmgc/gsd.h... Generating code for file src/pmgc/matvecd.c... Generating code for file src/pmgc/matvecd.h... Generating code for file src/pmgc/mgcsd.c... Generating code for file src/pmgc/mgcsd.h... Generating code for file src/pmgc/mgdrvd.c... Generating code for file src/pmgc/mgdrvd.h... Generating code for file src/pmgc/mgfasd.c... Generating code for file src/pmgc/mgfasd.h... Generating code for file src/pmgc/mgsubd.c... Generating code for file src/pmgc/mgsubd.h... Generating code for file src/pmgc/mikpckd.c... Generating code for file src/pmgc/mikpckd.h... Generating code for file src/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:2095: warning: Member polyEval(int numP, double p[], double c[][VMAXP], double xv[]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1528: warning: Member Vfetk_PDE_initElement(PDE *thee, int elementType, int chart, double tvx[][3], void *data) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1571: warning: Member Vfetk_PDE_initPoint(PDE *thee, int pointType, int chart, double txq[], double tU[], double tdU[][3]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1741: warning: Member Vfetk_PDE_DFu_wv(PDE *thee, int key, double W[], double dW[][VAPBS_DIM], double V[], double dV[][3]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1902: warning: Member Vfetk_PDE_bisectEdge(int dim, int dimII, int edgeType, int chart[], double vx[][3]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1912: warning: Member Vfetk_PDE_mapBoundary(int dim, int dimII, int vertexType, int chart, double vx[3]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1917: warning: Member Vfetk_PDE_markSimplex(int dim, int dimII, int simplexType, int faceType[VAPBS_NVS], int vertexType[VAPBS_NVS], int chart[], double vx[][3], void *simplex) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1998: warning: Member Vfetk_PDE_oneChart(int dim, int dimII, int objType, int chart[], double vx[][3], int dimV) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:86: warning: Member var (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:93: warning: Member diriCubeString (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:130: warning: Member neumCubeString (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:366: warning: Member dim_2DP1 (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:386: warning: Member lgr_2DP1[3][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:395: warning: Member lgr_2DP1x[3][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:402: warning: Member lgr_2DP1y[3][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:409: warning: Member lgr_2DP1z[3][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:437: warning: Member dim_3DP1 (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:438: warning: Member lgr_3DP1[VAPBS_NVS][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:446: warning: Member lgr_3DP1x[VAPBS_NVS][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:454: warning: Member lgr_3DP1y[VAPBS_NVS][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:462: warning: Member lgr_3DP1z[VAPBS_NVS][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:476: warning: Member P_DEG (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:482: warning: Member numP (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:483: warning: Member c[VMAXP][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:484: warning: Member cx[VMAXP][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:485: warning: Member cy[VMAXP][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:486: warning: Member cz[VMAXP][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:498: warning: Member Vpee_userDefined(Vpee *thee, SS *sm) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:532: warning: Member Vpee_ourSimp(Vpee *thee, SS *sm, int rcol) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:66: warning: Member Aprx_estNonlinResid(Aprx *thee, SS *sm, Bvec *u, Bvec *ud, Bvec *f) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:72: warning: Member Aprx_estLocalProblem(Aprx *thee, SS *sm, Bvec *u, Bvec *ud, Bvec *f) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:77: warning: Member Aprx_estDualProblem(Aprx *thee, SS *sm, Bvec *u, Bvec *ud, Bvec *f) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:237: warning: Member APOLparm_parseGRID(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:268: warning: Member APOLparm_parseMOL(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:287: warning: Member APOLparm_parseSRFM(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:309: warning: Member APOLparm_parseSRAD(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:328: warning: Member APOLparm_parseSWIN(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:347: warning: Member APOLparm_parseTEMP(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:366: warning: Member APOLparm_parseGAMMA(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:385: warning: Member APOLparm_parseCALCENERGY(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:438: warning: Member APOLparm_parseCALCFORCE(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:491: warning: Member APOLparm_parseBCONC(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:510: warning: Member APOLparm_parseSDENS(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:529: warning: Member APOLparm_parseDPOS(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:558: warning: Member APOLparm_parsePRESS(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:210: warning: Member BEMparm_parseTREE_ORDER(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:233: warning: Member BEMparm_parseTREE_N0(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:256: warning: Member BEMparm_parseMAC(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:279: warning: Member BEMparm_parseMESH(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:308: warning: Member BEMparm_parseOUTDATA(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:196: warning: Member FEMparm_parseDOMAINLENGTH(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:221: warning: Member FEMparm_parseETOL(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:244: warning: Member FEMparm_parseEKEY(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:276: warning: Member FEMparm_parseAKEYPRE(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:303: warning: Member FEMparm_parseAKEYSOLVE(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:333: warning: Member FEMparm_parseTARGETNUM(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:352: warning: Member FEMparm_parseTARGETRES(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:372: warning: Member FEMparm_parseMAXSOLVE(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:391: warning: Member FEMparm_parseMAXVERT(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:411: warning: Member FEMparm_parseUSEMESH(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:138: warning: Member FUBAR(const char *name) (function) of file geoflowparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:143: warning: Member parseNonNeg(double *tf, double def, int *set, char *name, Vio *sock) (function) of file geoflowparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:164: warning: Member GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock) (function) of file geoflowparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:186: warning: Member GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock) (function) of file geoflowparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169: warning: Member GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock) (function) of file geoflowparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171: warning: Member GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock) (function) of file geoflowparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:415: warning: Member MGparm_parseDIME(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:446: warning: Member MGparm_parseCHGM(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:497: warning: Member MGparm_parseNLEV(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:516: warning: Member MGparm_parseETOL(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:539: warning: Member MGparm_parseGRID(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:570: warning: Member MGparm_parseGLEN(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:601: warning: Member MGparm_parseGAMMA(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:616: warning: Member MGparm_parseGCENT(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:668: warning: Member MGparm_parseCGLEN(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:699: warning: Member MGparm_parseFGLEN(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:730: warning: Member MGparm_parseCGCENT(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:782: warning: Member MGparm_parseFGCENT(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:834: warning: Member MGparm_parsePDIME(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:872: warning: Member MGparm_parseOFRAC(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:892: warning: Member MGparm_parseASYNC(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:912: warning: Member MGparm_parseUSEAQUA(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:970: warning: Member NOsh_parseREAD(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1021: warning: Member NOsh_parsePRINT(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1187: warning: Member NOsh_parseELEC(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1313: warning: Member NOsh_parseAPOLAR(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2385: warning: Member NOsh_parseFEM(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1510: warning: Member NOsh_parseMG(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2845: warning: Member NOsh_parseBEM(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2934: warning: Member NOsh_parseGEOFLOW(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:3048: warning: Member NOsh_parsePBAM(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:3166: warning: Member NOsh_parsePBSAM(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2508: warning: Member NOsh_parseAPOL(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1603: warning: Member NOsh_setupCalcMG(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1815: warning: Member NOsh_setupCalcMGAUTO(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1747: warning: Member NOsh_setupCalcMGMANUAL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2090: warning: Member NOsh_setupCalcMGPARA(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1722: warning: Member NOsh_setupCalcFEM(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2471: warning: Member NOsh_setupCalcFEMANUAL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1638: warning: Member NOsh_setupCalcBEM(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1666: warning: Member NOsh_setupCalcGEOFLOW(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1686: warning: Member NOsh_setupCalcPBAM(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1704: warning: Member NOsh_setupCalcPBSAM(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2612: warning: Member NOsh_setupCalcBEMMANUAL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2677: warning: Member NOsh_setupCalcGEOFLOWMANUAL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2735: warning: Member NOsh_setupCalcPBAMAUTO(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2786: warning: Member NOsh_setupCalcPBSAMAUTO(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2581: warning: Member NOsh_setupCalcAPOL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:598: warning: Member NOsh_parseREAD_MOL(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:675: warning: Member NOsh_parseREAD_PARM(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:739: warning: Member NOsh_parseREAD_DIEL(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:793: warning: Member NOsh_parseREAD_KAPPA(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:839: warning: Member NOsh_parseREAD_POTENTIAL(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:884: warning: Member NOsh_parseREAD_CHARGE(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:930: warning: Member NOsh_parseREAD_MESH(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:458: warning: Member PBAMparm_parseNtraj(PBAMparm *thee, Vio *sock) (function) of file pbamparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:549: warning: Member PBAMparm_parseTerm(PBAMparm *thee, Vio *sock) (function) of file pbamparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:77: warning: Member PBAMPARM_MAXWRITE (macro definition) of file pbamparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:78: warning: Member PBAMPARM_MAXMOL (macro definition) of file pbamparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:87: warning: Member PBEparm_getzmem(PBEparm *thee) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:91: warning: Member PBEparm_getLmem(PBEparm *thee) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:95: warning: Member PBEparm_getmembraneDiel(PBEparm *thee) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:99: warning: Member PBEparm_getmemv(PBEparm *thee) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:368: warning: Member PBEparm_parseLPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:375: warning: Member PBEparm_parseNPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:382: warning: Member PBEparm_parseMOL(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:401: warning: Member PBEparm_parseLRPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:408: warning: Member PBEparm_parseNRPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:415: warning: Member PBEparm_parseSMPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:474: warning: Member PBEparm_parseBCFL(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:555: warning: Member PBEparm_parseION(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:652: warning: Member PBEparm_parsePDIE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:671: warning: Member PBEparm_parseSDENS(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:690: warning: Member PBEparm_parseSDIE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:709: warning: Member PBEparm_parseSRFM(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:780: warning: Member PBEparm_parseSRAD(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:799: warning: Member PBEparm_parseSWIN(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:818: warning: Member PBEparm_parseTEMP(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:837: warning: Member PBEparm_parseUSEMAP(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:895: warning: Member PBEparm_parseCALCENERGY(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:948: warning: Member PBEparm_parseCALCFORCE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1005: warning: Member PBEparm_parseZMEM(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1025: warning: Member PBEparm_parseLMEM(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1044: warning: Member PBEparm_parseMDIE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1063: warning: Member PBEparm_parseMEMV(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1084: warning: Member PBEparm_parseWRITE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1178: warning: Member PBEparm_parseWRITEMAT(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:77: warning: Member PBSAMPARM_MAXWRITE (macro definition) of file pbsamparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:78: warning: Member PBSAMPARM_MAXMOL (macro definition) of file pbsamparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:277: warning: Member Vacc_vdwAcc(Vacc *thee, double center[3]) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:307: warning: Member Vacc_ivdwAcc(Vacc *thee, double center[3], double radius) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:679: warning: Member Vacc_writeGMV(Vacc *thee, double radius, int meth, Gem *gm, char *iodev, char *iofmt, char *iohost, char *iofile) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1252: warning: Member Vacc_SASAPos(Vacc *thee, double radius) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1277: warning: Member Vacc_atomSASAPos(Vacc *thee, double radius, Vatom *atom, int mode) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:76: warning: The following parameter of ivdwAccExclus(Vacc *thee, double center[3], double radius, int atomID) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:490: warning: The following parameter of splineAcc(Vacc *thee, double center[VAPBS_DIM], double win, double infrad, VclistCell *cell) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:186: warning: Member Valist_readPDBSerial(Valist *thee, Vio *sock, int *serial) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:206: warning: Member Valist_readPDBAtomName(Valist *thee, Vio *sock, char atomName[VMAX_ARGLEN]) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:224: warning: Member Valist_readPDBResidueName(Valist *thee, Vio *sock, char resName[VMAX_ARGLEN]) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:242: warning: Member Valist_readPDBResidueNumber(Valist *thee, Vio *sock, int *resSeq) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:298: warning: Member Valist_readPDBAtomCoord(Valist *thee, Vio *sock, double *coord) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:316: warning: Member Valist_readPDBChargeRadius(Valist *thee, Vio *sock, double *charge, double *radius) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:344: warning: Member Valist_readPDB_throughXYZ(Valist *thee, Vio *sock, int *serial, char atomName[VMAX_ARGLEN], char resName[VMAX_ARGLEN], int *resSeq, double *x, double *y, double *z) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:424: warning: Member Valist_getAtomStorage(Valist *thee, Vatom **plist, int *pnlist, int *pnatoms) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:480: warning: Member Valist_setAtomArray(Valist *thee, Vatom **plist, int nlist, int natoms) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:60: warning: Member Valist_whiteChars (variable) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:61: warning: Member Valist_commChars (variable) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:62: warning: Member Valist_xmlwhiteChars (variable) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:128: warning: Member VCLIST_INFLATE (macro definition) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:90: warning: Member Vclist_getMolDims(Vclist *thee, double lower_corner[VAPBS_DIM], double upper_corner[VAPBS_DIM], double *r_max) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:125: warning: Member Vclist_setupGrid(Vclist *thee) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:174: warning: Member Vclist_storeParms(Vclist *thee, Valist *alist, double max_radius, int npts[VAPBS_DIM], Vclist_DomainMode mode, double lower_corner[VAPBS_DIM], double upper_corner[VAPBS_DIM]) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:231: warning: Member Vclist_gridSpan(Vclist *thee, Vatom *atom, int imin[VAPBS_DIM], int imax[VAPBS_DIM]) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:262: warning: Member Vclist_arrayIndex(Vclist *thee, int i, int j, int k) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:270: warning: Member Vclist_assignAtoms(Vclist *thee) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:425: warning: Member treesetup(Vgreen *thee) (function) of file vgreen.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:505: warning: Member treecleanup(Vgreen *thee) (function) of file vgreen.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:525: warning: Member treecalc(Vgreen *thee, double *xtar, double *ytar, double *ztar, double *qtar, int numtars, double *tpengtar, double *x, double *y, double *z, double *q, int numpars, double *fx, double *fy, double *fz, int iflag, int farrdim, int arrdim) (function) of file vgreen.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:458: warning: Member MAX_HASH_DIM (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:572: warning: Member OS_SEP_STR (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:573: warning: Member OS_SEP_CHAR (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:600: warning: Member ANNOUNCE_FUNCTION (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:601: warning: Member WARN_UNTESTED (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:602: warning: Member WARN_PARTTESTED (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:653: warning: Member VCHANNELEDMESSAGE0(channel, msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:658: warning: Member VCHANNELEDMESSAGE1(channel, msg, arg0) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:665: warning: Member VCHANNELEDMESSAGE2(channel, msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:672: warning: Member VCHANNELEDMESSAGE3(channel, msg, arg0, arg1, arg2) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:679: warning: Member VMESSAGE0(msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:680: warning: Member VMESSAGE1(msg, arg0) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:681: warning: Member VMESSAGE2(msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:682: warning: Member VMESSAGE3(msg, arg0, arg1, arg2) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:684: warning: Member VERRMSG0(msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:685: warning: Member VERRMSG1(msg, arg0) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:686: warning: Member VERRMSG2(msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:687: warning: Member VERRMSG3(msg, arg0, arg1, arg2) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:731: warning: Member VASSERT_MSG0(cnd, msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:741: warning: Member VASSERT_MSG1(cnd, msg, arg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:753: warning: Member VASSERT_MSG2(cnd, msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:825: warning: Member VWARN_MSG0(cnd, msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:838: warning: Member VWARN_MSG1(cnd, msg, arg0) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:853: warning: Member VWARN_MSG2(cnd, msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:899: warning: Member VABORT_MSG0(msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:907: warning: Member VABORT_MSG1(msg, arg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:917: warning: Member VABORT_MSG2(msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:944: warning: Member PRINT_INT(expr) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:945: warning: Member PRINT_DBL(expr) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:948: warning: Member VMALLOC(vmem, n, type) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:950: warning: Member VFREE(vmem, n, type, ptr) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:952: warning: Member VFILL(vec, n, val) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:959: warning: Member VCOPY(srcvec, dstvec, i, n) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:968: warning: Member VAT(array, i) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:969: warning: Member RAT(array, i) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:73: warning: Member Vrc_Codes (typedef) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:95: warning: Member Vsol_Meth (typedef) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:966: warning: Member wrap_text(char *str, int right_margin, int left_padding) (function) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:64: warning: Member MAT2(mat, dx, dy) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:68: warning: Member RAT2(mat, x, y) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:71: warning: Member VAT2(mat, x, y) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:76: warning: Member MAT3(mat, dx, dy, dz) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:81: warning: Member RAT3(mat, x, y, z) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:84: warning: Member VAT3(mat, x, y, z) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vpbe.c:62: warning: Member MAX_SPLINE_WINDOW (macro definition) of file vpbe.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:67: warning: Member IJK(i, j, k) (macro definition) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:77: warning: Member MCwhiteChars (variable) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:78: warning: Member MCcommChars (variable) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:79: warning: Member Vcompare (variable) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:80: warning: Member Vprecision[26] (variable) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.c:113: warning: Member IJK(i, j, k) (macro definition) of file vopot.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1401: warning: Member Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2828: warning: Member bcCalcOrig(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3130: warning: Member gridPointIsValid(int i, int j, int k, int nx, int ny, int nz) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3313: warning: Member packAtoms(double *ax, double *ay, double *az, double *charge, double *size, Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3338: warning: Member packUnpack(int nx, int ny, int nz, int ngrid, double *gx, double *gy, double *gz, double *value, Vpmg *thee, int pack) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3407: warning: Member bcflnew(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3597: warning: Member bcfl_sdh(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3868: warning: Member bcfl_mdh(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3995: warning: Member bcfl_mem(double zmem, double L, double eps_m, double eps_w, double V, double xkappa, double *gxcf, double *gycf, double *gzcf, double *xf, double *yf, double *zf, int nx, int ny, int nz) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4174: warning: Member bcfl_map(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6684: warning: Member markFrac(double rtot, double *tpos, int nx, int ny, int nz, double hx, double hy, double hzed, double xmin, double ymin, double zmin, double *xarray, double *yarray, double *zarray) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10260: warning: Member fillcoPermanentInduced(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1056: warning: The following parameter of bcfl1(double size, double *apos, double charge, double xkappa, double pre1, double *gxcf, double *gycf, double *gzcf, double *xf, double *yf, double *zf, int nx, int ny, int nz) is not documented: parameter 'size' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1362: warning: argument 'hz' of command @param is not found in the argument list of markSphere(double rtot, double *tpos, int nx, int ny, int nz, double hx, double hy, double hzed, double xmin, double ymin, double zmin, double *array, double markVal) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1362: warning: The following parameter of markSphere(double rtot, double *tpos, int nx, int ny, int nz, double hx, double hy, double hzed, double xmin, double ymin, double zmin, double *array, double markVal) is not documented: parameter 'rtot' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1107: warning: The following parameter of multipolebc(double r, double kappa, double eps_p, double eps_w, double rad, double tsr[3]) is not documented: parameter 'r' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1315: warning: The following parameters of qfForceSpline1(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1325: warning: The following parameters of qfForceSpline2(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1335: warning: The following parameters of qfForceSpline4(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:995: warning: The following parameter of Vpmg_polarizEnergy(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1006: warning: The following parameter of Vpmg_qfEnergyPoint(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1017: warning: The following parameter of Vpmg_qfEnergyVolume(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1029: warning: The following parameter of Vpmg_splineSelect(int srfm, Vacc *acc, double *gpos, double win, double infrad, Vatom *atom, double *force) is not documented: parameter 'srfm' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1348: warning: The following parameters of zlapSolve(Vpmg *thee, double **solution, double **source, double **work1) are not documented: parameter 'thee' parameter 'solution' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:105: warning: Member VPMGMAXPART (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1392: warning: Member VCUB(x) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1393: warning: Member VLOG(x) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1395: warning: Member IJK(i, j, k) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1396: warning: Member IJKx(j, k, i) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1397: warning: Member IJKy(i, k, j) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1398: warning: Member IJKz(i, j, k) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1399: warning: Member VFCHI(iint, iflt) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385: warning: Member Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag) (function) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1056: warning: The following parameter of bcfl1(double size, double *apos, double charge, double xkappa, double pre1, double *gxcf, double *gycf, double *gzcf, double *xf, double *yf, double *zf, int nx, int ny, int nz) is not documented: parameter 'size' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1362: warning: The following parameter of markSphere(double rtot, double *tpos, int nx, int ny, int nz, double hx, double hy, double hzed, double xmin, double ymin, double zmin, double *array, double markVal) is not documented: parameter 'rtot' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1107: warning: The following parameter of multipolebc(double r, double kappa, double eps_p, double eps_w, double rad, double tsr[3]) is not documented: parameter 'r' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1315: warning: The following parameters of qfForceSpline1(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1325: warning: The following parameters of qfForceSpline2(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1335: warning: The following parameters of qfForceSpline4(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:995: warning: The following parameter of Vpmg_polarizEnergy(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1006: warning: The following parameter of Vpmg_qfEnergyPoint(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1017: warning: The following parameter of Vpmg_qfEnergyVolume(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1029: warning: The following parameter of Vpmg_splineSelect(int srfm, Vacc *acc, double *gpos, double win, double infrad, Vatom *atom, double *force) is not documented: parameter 'srfm' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1348: warning: The following parameters of zlapSolve(Vpmg *thee, double **solution, double **source, double **work1) are not documented: parameter 'thee' parameter 'solution' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmgp.c:294: warning: Member coarsenThis(int nOld) (function) of file vpmgp.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.h:17: warning: end of comment block while expecting command /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:247: warning: argument 'parm' of command @param is not found in the argument list of PBAMparm_parseSalt(PBAMparm *thee, Vio *sock) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:247: warning: The following parameter of PBAMparm_parseSalt(PBAMparm *thee, Vio *sock) is not documented: parameter 'sock' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:513: warning: The following parameter of energyAPOL(APOLparm *apolparm, double sasa, double sav, double atomsasa[], double atomwcaEnergy[], int numatoms) is not documented: parameter 'apolparm' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:610: warning: The following parameter of killFE(NOsh *nosh, Vpbe *pbe[NOSH_MAXCALC], Vfetk *fetk[NOSH_MAXCALC], Gem *gem[NOSH_MAXMOL]) is not documented: parameter 'nosh' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:262: warning: The following parameter of killMG(NOsh *nosh, Vpbe *pbe[NOSH_MAXCALC], Vpmgp *pmgp[NOSH_MAXCALC], Vpmg *pmg[NOSH_MAXCALC]) is not documented: parameter 'nosh' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:882: warning: argument 'charge' of command @param is not found in the argument list of loadChargeMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:882: warning: The following parameter of loadChargeMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) is not documented: parameter 'map' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:662: warning: argument 'kappa' of command @param is not found in the argument list of loadKappaMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:662: warning: The following parameter of loadKappaMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) is not documented: parameter 'map' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:791: warning: argument 'pot' of command @param is not found in the argument list of loadPotMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:791: warning: The following parameter of loadPotMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) is not documented: parameter 'map' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:622: warning: argument 'nosh' of command @param is not found in the argument list of preRefineFE(int i, FEMparm *feparm, Vfetk *fetk[NOSH_MAXCALC]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:494: warning: The following parameter of printApolForce(Vcom *com, NOsh *nosh, int nforce[NOSH_MAXCALC], AtomForce *atomForce[NOSH_MAXCALC], int i) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:445: warning: The following parameter of printElecEnergy(Vcom *com, NOsh *nosh, double totEnergy[NOSH_MAXCALC], int iprint) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:481: warning: The following parameter of printElecForce(Vcom *com, NOsh *nosh, int nforce[NOSH_MAXCALC], AtomForce *atomForce[NOSH_MAXCALC], int i) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:432: warning: The following parameter of printEnergy(Vcom *com, NOsh *nosh, double totEnergy[NOSH_MAXCALC], int iprint) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:468: warning: The following parameter of printForce(Vcom *com, NOsh *nosh, int nforce[NOSH_MAXCALC], AtomForce *atomForce[NOSH_MAXCALC], int i) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4125: warning: argument 'i' of command @param is not found in the argument list of solveFE(int icalc, PBEparm *pbeparm, FEMparm *feparm, Vfetk *fetk[NOSH_MAXCALC]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:104: warning: Member vdw (variable) of struct sGEOFLOWparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:105: warning: Member setvdw (variable) of struct sGEOFLOWparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:111: warning: Member salt (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:112: warning: Member setsalt (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:115: warning: Member runtype[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:116: warning: Member setruntype (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:119: warning: Member runname[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:120: warning: Member setrunname (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:123: warning: Member setrandorient (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:126: warning: Member pbcboxlen (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:127: warning: Member setpbcs (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:130: warning: Member units[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:131: warning: Member setunits (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:137: warning: Member gridpt (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:138: warning: Member setgridpt (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:141: warning: Member map3dname[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:142: warning: Member set3dmap (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:145: warning: Member grid2Dname[PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:146: warning: Member grid2Dax[PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:147: warning: Member grid2Dloc[PBAMPARM_MAXWRITE] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:148: warning: Member grid2Dct (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:149: warning: Member setgrid2Dname (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:152: warning: Member dxname[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:153: warning: Member setdxname (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:158: warning: Member ntraj (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:159: warning: Member setntraj (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:161: warning: Member termcombine[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:162: warning: Member settermcombine (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:164: warning: Member diffct (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:165: warning: Member moveType[PBAMPARM_MAXMOL][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:166: warning: Member transDiff[PBAMPARM_MAXMOL] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:167: warning: Member rotDiff[PBAMPARM_MAXMOL] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:169: warning: Member termct (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:170: warning: Member setterm (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:172: warning: Member termnam[PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:173: warning: Member termnu[PBAMPARM_MAXWRITE][1] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:174: warning: Member termVal[PBAMPARM_MAXWRITE] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:175: warning: Member confil[PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:176: warning: Member conpad[PBAMPARM_MAXWRITE] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:177: warning: Member confilct (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:179: warning: Member setxyz (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:180: warning: Member xyzct[PBAMPARM_MAXMOL] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:181: warning: Member xyzfil[PBAMPARM_MAXMOL][PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.h:202: warning: Member pbam_3dmapstem[VMAX_ARGLEN] (variable) of struct sPBEparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.h:203: warning: Member pbam_3dmapflag (variable) of struct sPBEparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:112: warning: Member settolsp (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:113: warning: Member tolsp (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:115: warning: Member setmsms (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:116: warning: Member probe_radius (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:117: warning: Member density (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:119: warning: Member setsurf (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:120: warning: Member surfct (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:121: warning: Member surffil[PBSAMPARM_MAXMOL][CHR_MAXLEN] (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:123: warning: Member setimat (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:124: warning: Member imatct (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:125: warning: Member imatfil[PBSAMPARM_MAXMOL][CHR_MAXLEN] (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:127: warning: Member setexp (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:128: warning: Member expct (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:129: warning: Member expfil[PBSAMPARM_MAXMOL][CHR_MAXLEN] (variable) of struct sPBSAMparm is not documented. /pmgc/mlinpckd.c... Generating code for file src/pmgc/mlinpckd.h... Generating code for file src/pmgc/mypdec.c... Generating code for file src/pmgc/mypdec.h... Generating code for file src/pmgc/newdrvd.c... Generating code for file src/pmgc/newdrvd.h... Generating code for file src/pmgc/newtond.c... Generating code for file src/pmgc/newtond.h... Generating code for file src/pmgc/powerd.c... Generating code for file src/pmgc/powerd.h... Generating code for file src/pmgc/smoothd.c... Generating code for file src/pmgc/smoothd.h... Generating code for file src/routines.c... Generating code for file src/routines.h... Generating file documentation... Generating docs for file src/apbs.h... Generating docs for file src/fem/vcsm.c... Generating docs for file src/fem/vcsm.h... Generating docs for file src/fem/vfetk.c... Generating docs for file src/fem/vfetk.h... Generating docs for file src/fem/vpee.c... Generating docs for file src/fem/vpee.h... Generating docs for file src/generic/apolparm.c... 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Generating docs for compound sVacc... Generating docs for compound sVaccSurf... Generating docs for compound sValist... Generating docs for compound sVatom... Generating docs for compound sVclist... Generating docs for compound sVclistCell... Generating docs for compound sVcsm... Generating docs for compound sVfetk... Generating docs for compound sVfetk_LocalVar... Generating docs for compound sVgreen... Generating docs for compound sVgrid... Generating docs for compound sVmgrid... Generating docs for compound sVopot... Generating docs for compound sVparam_AtomData... Generating docs for compound sVpbe... Generating docs for compound sVpee... Generating docs for compound sVpmg... Generating docs for compound sVpmgp... Generating docs for compound Vparam... Generating docs for compound Vparam_ResData... Generating concept documentation... Generating module documentation... Generating namespace documentation... Generating graph info page... Generating directory documentation... Generating dependency graph for directory src/fem Generating dependency graph for directory src/generic Generating dependency graph for directory src/mg Generating dependency graph for directory src/pmgc Generating dependency graph for directory doc/programmer Generating dependency graph for directory src Generating index page... Generating main page... Generating page index... Generating topic index... Generating module index... Generating module member index... Generating namespace index... Generating namespace member index... Generating concept index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating graphical class hierarchy... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Running plantuml with JAVA... Running dot... Generating dot graphs using 3 parallel threads... 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Underfull \hbox (badness 10000) detected at line 975 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.39 on input line 990. Underfull \hbox (badness 10000) detected at line 1005 [][][] Underfull \hbox (badness 10000) detected at line 1008 [][][] [40] Package longtable Warning: Column widths have changed (longtable) in table 7.40 on input line 1015. Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.41 on input line 1048. Underfull \hbox (badness 10000) detected at line 1059 [][][] Underfull \hbox (badness 10000) detected at line 1062 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.42 on input line 1071. [41] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.43 on input line 1100. Underfull \hbox (badness 10000) detected at line 1115 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.44 on input line 1134. [42] Underfull \hbox (badness 10000) detected at line 1152 [][][] Underfull \hbox (badness 10000) detected at line 1155 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.45 on input line 1174. Underfull \hbox (badness 10000) detected at line 1185 [][][] Underfull \hbox (badness 10000) detected at line 1188 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.46 on input line 1195. [43] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1213 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.47 on input line 1220. Underfull \hbox (badness 10000) detected at line 1238 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.48 on input line 1253. [44] Underfull \hbox (badness 10000) detected at line 1271 [][][] Underfull \hbox (badness 10000) detected at line 1274 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.49 on input line 1289. Underfull \hbox (badness 10000) detected at line 1304 [][][] Underfull \hbox (badness 10000) detected at line 1307 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.50 on input line 1318. [45] Underfull \hbox (badness 10000) detected at line 1333 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.51 on input line 1350. Underfull \hbox (badness 10000) detected at line 1361 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.52 on input line 1376. [46] Underfull \hbox (badness 10000) detected at line 1391 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.53 on input line 1412. Underfull \hbox (badness 10000) detected at line 1425 [][][] Underfull \hbox (badness 10000) detected at line 1428 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.54 on input line 1439. [47] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.55 on input line 1472. Underfull \hbox (badness 10000) detected at line 1483 [][][] Underfull \hbox (badness 10000) detected at line 1486 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.56 on input line 1509. [48] Underfull \hbox (badness 10000) detected at line 1520 [][][] Underfull \hbox (badness 10000) detected at line 1523 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.57 on input line 1540. Underfull \hbox (badness 10000) detected at line 1551 [][][] [49] Package longtable Warning: Column widths have changed (longtable) in table 7.58 on input line 1570. Underfull \hbox (badness 10000) detected at line 1585 [][][] Underfull \hbox (badness 10000) detected at line 1588 [][][] [50] Package longtable Warning: Column widths have changed (longtable) in table 7.59 on input line 1656. [51] Underfull \hbox (badness 10000) detected at line 1671 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.60 on input line 1690. Underfull \hbox (badness 10000) detected at line 1705 [][][] Underfull \hbox (badness 10000) detected at line 1708 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.61 on input line 1727. [52] Underfull \hbox (badness 10000) detected at line 1751 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.62 on input line 1760. Underfull \hbox (badness 10000) detected at line 1761 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.63 on input line 1770. Underfull \hbox (badness 10000) detected at line 1785 [][][] Underfull \hbox (badness 10000) detected at line 1788 [][][] Underfull \hbox (badness 10000) detected at line 1791 [][][] [53] Package longtable Warning: Column widths have changed (longtable) in table 7.64 on input line 1802. Underfull \hbox (badness 10000) detected at line 1813 [][][] Underfull \hbox (badness 10000) detected at line 1816 [][][] Underfull \hbox (badness 10000) detected at line 1819 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.65 on input line 1826. Underfull \hbox (badness 10000) detected at line 1841 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.66 on input line 1852. [54] Underfull \hbox (badness 10000) detected at line 1867 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.67 on input line 1886. Underfull \hbox (badness 10000) detected at line 1887 [][][] Underfull \hbox (badness 10000) detected at line 1892 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.68 on input line 1911. ) (./group___vpee.tex [55] Underfull \hbox (badness 849) in paragraph at lines 45--46 \T1/phv/m/n/10 Holst par-al-lel re-fine-ment rou-tine es-sen-tially re-duces th e er-ror out-side the \T1/pcr/m/n/10 local" partition to zero. Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 However, this leads to the need for a few final overlapping Schw arz solves to Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 smooth out the errors near partition boundaries. Supposedly, if the region in Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 which we allow error-based refinement includes the$\OML/cmm/m/it /10 <$\T1/pcr/m/n/10 /tt$\OML/cmm/m/it/10 >$\T1/pcr/m/n/10 local" partition and an Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 external buffer zone approximately equal in size to the local re gion, then the Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 solution will asymptotically approach the solution obtained via more typical Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 methods. This is essentially a more flexible parallel implementa tion of MC\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s [56] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.69 on input line 93. Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [57] Package longtable Warning: Column widths have changed (longtable) in table 7.70 on input line 131. Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 149 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.71 on input line 156. Underfull \hbox (badness 10000) detected at line 171 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.72 on input line 178. [58] Underfull \hbox (badness 10000) detected at line 195 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.73 on input line 226. [59] Underfull \hbox (badness 10000) detected at line 241 [][][] Underfull \hbox (badness 10000) detected at line 244 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.74 on input line 251. ) (./group___a_p_o_lparm.tex [60] Package longtable Warning: Column widths have changed (longtable) in table 7.75 on input line 154. [61] Package longtable Warning: Column widths have changed (longtable) in table 7.76 on input line 182. Package longtable Warning: Column widths have changed (longtable) in table 7.77 on input line 210. Underfull \hbox (badness 10000) detected at line 228 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.78 on input line 235. Underfull \hbox (badness 10000) detected at line 236 [][][] [62] Underfull \hbox (badness 10000) detected at line 253 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.79 on input line 262. Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 280 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.80 on input line 304. Underfull \hbox (badness 10000) detected at line 305 [][][] [63] Underfull \hbox (badness 10000) detected at line 322 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.81 on input line 329. Underfull \hbox (badness 10000) detected at line 344 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.82 on input line 351. ) (./group___b_e_mparm.tex [64] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] [65] Package longtable Warning: Column widths have changed (longtable) in table 7.83 on input line 107. Underfull \hbox (badness 10000) detected at line 125 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.84 on input line 132. Underfull \hbox (badness 10000) detected at line 133 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.85 on input line 157. Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] [66] Package longtable Warning: Column widths have changed (longtable) in table 7.86 on input line 184. Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.87 on input line 209. Underfull \hbox (badness 10000) detected at line 224 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.88 on input line 231. Underfull \hbox (badness 10000) detected at line 246 [][][] [67] Package longtable Warning: Column widths have changed (longtable) in table 7.89 on input line 257. Underfull \hbox (badness 10000) detected at line 258 [][][] ) (./group___f_e_mparm.tex [68] Underfull \hbox (badness 10000) detected at line 127 [][][] [69] Package longtable Warning: Column widths have changed (longtable) in table 7.90 on input line 156. Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.91 on input line 198. Underfull \hbox (badness 10000) detected at line 213 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.92 on input line 229. [70] Underfull \hbox (badness 10000) detected at line 247 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.93 on input line 254. Underfull \hbox (badness 10000) detected at line 255 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.94 on input line 281. Underfull \hbox (badness 10000) detected at line 296 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.95 on input line 303. Underfull \hbox (badness 10000) detected at line 304 [][][] [71] Underfull \hbox (badness 10000) detected at line 321 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.96 on input line 330. Underfull \hbox (badness 10000) detected at line 331 [][][] Underfull \hbox (badness 10000) detected at line 348 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.97 on input line 355. Underfull \hbox (badness 10000) detected at line 370 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.98 on input line 377. ) (./group___g_e_o_f_l_o_wparm.tex [72] [73] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.99 on input line 106. Underfull \hbox (badness 10000) detected at line 124 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.100 on input line 131. Underfull \hbox (badness 10000) detected at line 132 [][][] [74] Underfull \hbox (badness 10000) detected at line 149 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.101 on input line 158. Underfull \hbox (badness 10000) detected at line 173 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.102 on input line 180. Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.103 on input line 207. Underfull \hbox (badness 10000) detected at line 208 [][][] [75] Underfull \hbox (badness 10000) detected at line 225 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.104 on input line 232. Underfull \hbox (badness 10000) detected at line 247 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.105 on input line 254. Underfull \hbox (badness 10000) detected at line 269 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.106 on input line 280. Underfull \hbox (badness 10000) detected at line 281 [][][] ) (./group___m_gparm.tex [76] [77] [78] Package longtable Warning: Column widths have changed (longtable) in table 7.107 on input line 175. Package longtable Warning: Column widths have changed (longtable) in table 7.108 on input line 203. Underfull \hbox (badness 10000) detected at line 221 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.109 on input line 232. Underfull \hbox (badness 10000) detected at line 233 [][][] [79] Underfull \hbox (badness 10000) detected at line 250 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.110 on input line 261. Underfull \hbox (badness 10000) detected at line 262 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.111 on input line 286. Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [80] Package longtable Warning: Column widths have changed (longtable) in table 7.112 on input line 313. Underfull \hbox (badness 10000) detected at line 328 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.113 on input line 335. Underfull \hbox (badness 10000) detected at line 336 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.114 on input line 362. Underfull \hbox (badness 10000) detected at line 363 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [81] Package longtable Warning: Column widths have changed (longtable) in table 7.115 on input line 387. Underfull \hbox (badness 10000) detected at line 402 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.116 on input line 409. Underfull \hbox (badness 10000) detected at line 424 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.117 on input line 431. Underfull \hbox (badness 10000) detected at line 432 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.118 on input line 456. Underfull \hbox (badness 10000) detected at line 457 [][][] [82] Underfull \hbox (badness 10000) detected at line 474 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.119 on input line 481. Underfull \hbox (badness 10000) detected at line 482 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.120 on input line 506. Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 524 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.121 on input line 531. Underfull \hbox (badness 10000) detected at line 532 [][][] [83] Underfull \hbox (badness 10000) detected at line 549 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.122 on input line 556. Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 574 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.123 on input line 581. Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 599 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.124 on input line 606. Underfull \hbox (badness 10000) detected at line 607 [][][] [84] Underfull \hbox (badness 10000) detected at line 624 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.125 on input line 631. Underfull \hbox (badness 10000) detected at line 632 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.126 on input line 660. Underfull \hbox (badness 10000) detected at line 661 [][][] Underfull \hbox (badness 10000) detected at line 678 [][][] [85] Package longtable Warning: Column widths have changed (longtable) in table 7.127 on input line 687. Underfull \hbox (badness 10000) detected at line 702 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.128 on input line 711. Underfull \hbox (badness 10000) detected at line 726 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.129 on input line 735. ) (./group___n_osh.tex [86] [87] [88] [89] Package longtable Warning: Column widths have changed (longtable) in table 7.130 on input line 337. [90] Package longtable Warning: Column widths have changed (longtable) in table 7.131 on input line 365. Package longtable Warning: Column widths have changed (longtable) in table 7.132 on input line 389. Package longtable Warning: Column widths have changed (longtable) in table 7.133 on input line 429. Underfull \hbox (badness 10000) detected at line 447 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.134 on input line 456. [91] Underfull \hbox (badness 10000) detected at line 457 [][][] Underfull \hbox (badness 10000) detected at line 474 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.135 on input line 483. Underfull \hbox (badness 10000) detected at line 498 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.136 on input line 505. Underfull \hbox (badness 10000) detected at line 506 [][][] Underfull \hbox (badness 10000) detected at line 523 [][][] [92] Package longtable Warning: Column widths have changed (longtable) in table 7.137 on input line 530. Underfull \hbox (badness 10000) detected at line 545 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.138 on input line 554. Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 572 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.139 on input line 583. Underfull \hbox (badness 10000) detected at line 584 [][][] [93] Underfull \hbox (badness 10000) detected at line 601 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.140 on input line 608. Underfull \hbox (badness 10000) detected at line 623 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.141 on input line 630. Underfull \hbox (badness 10000) detected at line 645 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.142 on input line 654. Underfull \hbox (badness 10000) detected at line 655 [][][] [94] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.143 on input line 684. Underfull \hbox (badness 10000) detected at line 685 [][][] Underfull \hbox (badness 10000) detected at line 688 [][][] Underfull \hbox (badness 10000) detected at line 705 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.144 on input line 714. Underfull \hbox (badness 10000) detected at line 715 [][][] [95] Underfull \hbox (badness 10000) detected at line 732 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.145 on input line 741. Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 759 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.146 on input line 768. Underfull \hbox (badness 10000) detected at line 769 [][][] Underfull \hbox (badness 10000) detected at line 786 [][][] [96] Package longtable Warning: Column widths have changed (longtable) in table 7.147 on input line 795. Underfull \hbox (badness 10000) detected at line 796 [][][] Underfull \hbox (badness 10000) detected at line 813 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.148 on input line 822. Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 840 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.149 on input line 849. Underfull \hbox (badness 10000) detected at line 850 [][][] [97] Underfull \hbox (badness 10000) detected at line 867 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.150 on input line 876. Underfull \hbox (badness 10000) detected at line 877 [][][] Underfull \hbox (badness 10000) detected at line 894 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.151 on input line 903. Underfull \hbox (badness 10000) detected at line 904 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] [98] Package longtable Warning: Column widths have changed (longtable) in table 7.152 on input line 930. Underfull \hbox (badness 10000) detected at line 931 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.153 on input line 957. Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.154 on input line 984. Underfull \hbox (badness 10000) detected at line 985 [][][] [99] Underfull \hbox (badness 10000) detected at line 1002 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.155 on input line 1011. Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1029 [][][] Underfull \hbox (badness 10000) detected at line 1032 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.156 on input line 1041. Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] [100] Underfull \hbox (badness 10000) detected at line 1064 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.157 on input line 1073. Underfull \hbox (badness 10000) detected at line 1074 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1094 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.158 on input line 1105. Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] [101] Underfull \hbox (badness 10000) detected at line 1126 [][][] Underfull \hbox (badness 10000) detected at line 1129 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.159 on input line 1138. Underfull \hbox (badness 10000) detected at line 1139 [][][] Underfull \hbox (badness 10000) detected at line 1142 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1162 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.160 on input line 1173. Underfull \hbox (badness 10000) detected at line 1174 [][][] Underfull \hbox (badness 10000) detected at line 1177 [][][] [102] Underfull \hbox (badness 10000) detected at line 1194 [][][] Underfull \hbox (badness 10000) detected at line 1197 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.161 on input line 1206. Underfull \hbox (badness 10000) detected at line 1207 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1227 [][][] Underfull \hbox (badness 10000) detected at line 1230 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.162 on input line 1239. Underfull \hbox (badness 10000) detected at line 1240 [][][] [103] Package longtable Warning: Column widths have changed (longtable) in table 7.163 on input line 1249. Underfull \hbox (badness 10000) detected at line 1264 [][][] Underfull \hbox (badness 10000) detected at line 1267 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.164 on input line 1276. Underfull \hbox (badness 10000) detected at line 1277 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.165 on input line 1286. ) (./group___p_b_a_mparm.tex [104] [105] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.166 on input line 154. [106] Underfull \hbox (badness 10000) detected at line 172 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.167 on input line 179. Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 197 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.168 on input line 206. Underfull \hbox (badness 10000) detected at line 221 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.169 on input line 228. Underfull \hbox (badness 10000) detected at line 229 [][][] [107] Underfull \hbox (badness 10000) detected at line 246 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.170 on input line 255. Underfull \hbox (badness 10000) detected at line 256 [][][] Underfull \hbox (badness 10000) detected at line 273 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.171 on input line 280. Underfull \hbox (badness 10000) detected at line 295 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.172 on input line 302. [108] Underfull \hbox (badness 10000) detected at line 317 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.173 on input line 326. Underfull \hbox (badness 10000) detected at line 341 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.174 on input line 350. Underfull \hbox (badness 10000) detected at line 365 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.175 on input line 374. [109] Underfull \hbox (badness 10000) detected at line 389 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.176 on input line 398. Underfull \hbox (badness 10000) detected at line 413 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.177 on input line 422. Underfull \hbox (badness 10000) detected at line 437 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.178 on input line 446. [110] Underfull \hbox (badness 10000) detected at line 461 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.179 on input line 470. Underfull \hbox (badness 10000) detected at line 485 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.180 on input line 494. Underfull \hbox (badness 10000) detected at line 509 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.181 on input line 518. [111] Underfull \hbox (badness 10000) detected at line 533 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.182 on input line 542. Underfull \hbox (badness 10000) detected at line 557 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.183 on input line 566. Underfull \hbox (badness 10000) detected at line 581 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.184 on input line 592. Underfull \hbox (badness 10000) detected at line 593 [][][] [112] Underfull \hbox (badness 10000) detected at line 610 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.185 on input line 619. Underfull \hbox (badness 10000) detected at line 634 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.186 on input line 643. ) (./group___p_b_eparm.tex [113] [114] Package longtable Warning: Column widths have changed (longtable) in table 7.187 on input line 163. Package longtable Warning: Column widths have changed (longtable) in table 7.188 on input line 191. [115] Underfull \hbox (badness 10000) detected at line 209 [][][] Underfull \hbox (badness 10000) detected at line 212 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.189 on input line 219. Underfull \hbox (badness 10000) detected at line 234 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.190 on input line 243. Underfull \hbox (badness 10000) detected at line 258 [][][] Underfull \hbox (badness 10000) detected at line 261 [][][] [116] Underfull \hbox (badness 10000) detected at line 278 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.191 on input line 288. Underfull \hbox (badness 10000) detected at line 303 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.192 on input line 310. Underfull \hbox (badness 10000) detected at line 325 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.193 on input line 332. [117] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.194 on input line 359. Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.195 on input line 386. Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] [118] Package longtable Warning: Column widths have changed (longtable) in table 7.196 on input line 413. Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 431 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.197 on input line 442. ) (./group___p_b_s_a_mparm.tex [119] [120] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.198 on input line 138. Underfull \hbox (badness 10000) detected at line 156 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.199 on input line 163. Underfull \hbox (badness 10000) detected at line 164 [][][] [121] Underfull \hbox (badness 10000) detected at line 181 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.200 on input line 190. Underfull \hbox (badness 10000) detected at line 205 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.201 on input line 212. Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 230 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.202 on input line 239. Underfull \hbox (badness 10000) detected at line 240 [][][] [122] Underfull \hbox (badness 10000) detected at line 257 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.203 on input line 264. Underfull \hbox (badness 10000) detected at line 279 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.204 on input line 286. Underfull \hbox (badness 10000) detected at line 301 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.205 on input line 310. [123] Underfull \hbox (badness 10000) detected at line 325 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.206 on input line 334. Underfull \hbox (badness 10000) detected at line 349 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.207 on input line 358. Underfull \hbox (badness 10000) detected at line 373 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.208 on input line 382. [124] Underfull \hbox (badness 10000) detected at line 397 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.209 on input line 408. Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 426 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.210 on input line 435. ) (./group___vacc.tex [125] [126] [127] Underfull \hbox (badness 10000) detected at line 149 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.211 on input line 164. Underfull \hbox (badness 10000) detected at line 179 [][][] [128] Package longtable Warning: Column widths have changed (longtable) in table 7.212 on input line 192. Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.213 on input line 224. Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 242 [][][] [129] Package longtable Warning: Column widths have changed (longtable) in table 7.214 on input line 253. Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.215 on input line 282. Underfull \hbox (badness 10000) detected at line 283 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.216 on input line 290. Underfull \hbox (badness 10000) detected at line 305 [][][] Underfull \hbox (badness 10000) detected at line 308 [][][] [130] Package longtable Warning: Column widths have changed (longtable) in table 7.217 on input line 319. Underfull \hbox (badness 10000) detected at line 334 [][][] Underfull \hbox (badness 10000) detected at line 337 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.218 on input line 350. Underfull \hbox (badness 10000) detected at line 365 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.219 on input line 372. [131] Underfull \hbox (badness 10000) detected at line 387 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.220 on input line 394. Underfull \hbox (badness 10000) detected at line 411 [][][] Underfull \hbox (badness 10000) detected at line 414 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.221 on input line 430. [132] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.222 on input line 461. Underfull \hbox (badness 10000) detected at line 472 [][][] Underfull \hbox (badness 10000) detected at line 475 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.223 on input line 482. Underfull \hbox (badness 10000) detected at line 499 [][][] [133] Underfull \hbox (badness 10000) detected at line 502 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.224 on input line 515. Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.225 on input line 545. Underfull \hbox (badness 10000) detected at line 562 [][][] [134] Underfull \hbox (badness 10000) detected at line 565 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.226 on input line 578. Underfull \hbox (badness 10000) detected at line 595 [][][] Underfull \hbox (badness 10000) detected at line 598 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.227 on input line 613. [135] Underfull \hbox (badness 10000) detected at line 628 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.228 on input line 643. Underfull \hbox (badness 10000) detected at line 660 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.229 on input line 677. [136] Underfull \hbox (badness 10000) detected at line 692 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.230 on input line 709. Underfull \hbox (badness 10000) detected at line 724 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.231 on input line 741. [137] Underfull \hbox (badness 10000) detected at line 758 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.232 on input line 775. Underfull \hbox (badness 10000) detected at line 790 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.233 on input line 805. Underfull \hbox (badness 10000) detected at line 820 [][][] [138] Package longtable Warning: Column widths have changed (longtable) in table 7.234 on input line 837. Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 855 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.235 on input line 867. Underfull \hbox (badness 10000) detected at line 882 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] Underfull \hbox (badness 10000) detected at line 888 [][][] [139] Package longtable Warning: Column widths have changed (longtable) in table 7.236 on input line 901. Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.237 on input line 930. Underfull \hbox (badness 10000) detected at line 941 [][][] Underfull \hbox (badness 10000) detected at line 944 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.238 on input line 957. [140] Underfull \hbox (badness 10000) detected at line 972 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.239 on input line 992. Underfull \hbox (badness 10000) detected at line 1007 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.240 on input line 1025. [141] Underfull \hbox (badness 10000) detected at line 1040 [][][] Underfull \hbox (badness 10000) detected at line 1043 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.241 on input line 1054. Underfull \hbox (badness 10000) detected at line 1069 [][][] Underfull \hbox (badness 10000) detected at line 1072 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.242 on input line 1085. [142] Underfull \hbox (badness 10000) detected at line 1100 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.243 on input line 1107. Underfull \hbox (badness 10000) detected at line 1122 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.244 on input line 1129. Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Underfull \hbox (badness 10000) detected at line 1152 [][][] [143] Package longtable Warning: Column widths have changed (longtable) in table 7.245 on input line 1161. ) (./group___valist.tex [144] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.246 on input line 121. [145] Underfull \hbox (badness 10000) detected at line 136 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.247 on input line 143. Underfull \hbox (badness 10000) detected at line 158 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.248 on input line 165. Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 183 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.249 on input line 192. [146] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.250 on input line 217. Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.251 on input line 242. Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 260 [][][] [147] Package longtable Warning: Column widths have changed (longtable) in table 7.252 on input line 267. Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.253 on input line 292. Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 310 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.254 on input line 317. Underfull \hbox (badness 10000) detected at line 332 [][][] Underfull \hbox (badness 10000) detected at line 335 [][][] [148] Underfull \hbox (badness 10000) detected at line 352 [][][] Underfull \hbox (badness 10000) detected at line 355 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.255 on input line 362. Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] Underfull \hbox (badness 10000) detected at line 383 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.256 on input line 394. Underfull \hbox (badness 10000) detected at line 409 [][][] [149] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 415 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.257 on input line 428. Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.258 on input line 462. ) (./group___vatom.tex [150] [151] Underfull \hbox (badness 10000) detected at line 97 [][][] [152] Underfull \hbox (badness 10000) detected at line 134 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.259 on input line 143. Underfull \hbox (badness 10000) detected at line 158 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.260 on input line 167. Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.261 on input line 209. [153] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 227 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.262 on input line 234. Underfull \hbox (badness 10000) detected at line 249 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.263 on input line 256. Underfull \hbox (badness 10000) detected at line 271 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.264 on input line 278. Underfull \hbox (badness 10000) detected at line 279 [][][] [154] Underfull \hbox (badness 10000) detected at line 296 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.265 on input line 305. Underfull \hbox (badness 10000) detected at line 320 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.266 on input line 327. Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 345 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.267 on input line 352. Underfull \hbox (badness 10000) detected at line 353 [][][] [155] Underfull \hbox (badness 10000) detected at line 370 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.268 on input line 377. Underfull \hbox (badness 10000) detected at line 378 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.269 on input line 402. Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.270 on input line 427. Underfull \hbox (badness 10000) detected at line 428 [][][] [156] Underfull \hbox (badness 10000) detected at line 445 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.271 on input line 454. Underfull \hbox (badness 10000) detected at line 469 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.272 on input line 476. Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 494 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.273 on input line 503. [157] Underfull \hbox (badness 10000) detected at line 518 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.274 on input line 527. Underfull \hbox (badness 10000) detected at line 542 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.275 on input line 551. Underfull \hbox (badness 10000) detected at line 566 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.276 on input line 575. [158] Underfull \hbox (badness 10000) detected at line 590 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.277 on input line 599. Underfull \hbox (badness 10000) detected at line 614 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.278 on input line 623. Underfull \hbox (badness 10000) detected at line 638 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.279 on input line 647. [159] Underfull \hbox (badness 10000) detected at line 662 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.280 on input line 671. ) (./group___vcap.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [160] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.281 on input line 103. [161] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.282 on input line 138. Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.283 on input line 173. ) (./group___vclist.tex [162] [163] Underfull \hbox (badness 10000) detected at line 126 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.284 on input line 138. [164] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.285 on input line 176. Underfull \hbox (badness 10000) detected at line 191 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.286 on input line 213. [165] Underfull \hbox (badness 10000) detected at line 228 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.287 on input line 235. Underfull \hbox (badness 10000) detected at line 250 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.288 on input line 257. Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 275 [][][] [166] Package longtable Warning: Column widths have changed (longtable) in table 7.289 on input line 284. Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.290 on input line 309. Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.291 on input line 334. Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [167] Package longtable Warning: Column widths have changed (longtable) in table 7.292 on input line 359. Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.293 on input line 386. Underfull \hbox (badness 10000) detected at line 401 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.294 on input line 408. Underfull \hbox (badness 10000) detected at line 423 [][][] [168] Package longtable Warning: Column widths have changed (longtable) in table 7.295 on input line 430. ) (./group___vgreen.tex [169] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [170] Underfull \hbox (badness 10000) detected at line 141 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.296 on input line 158. Underfull \hbox (badness 10000) detected at line 159 [][][] [171] Underfull \hbox (badness 10000) detected at line 178 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.297 on input line 195. Underfull \hbox (badness 10000) detected at line 196 [][][] [172] Underfull \hbox (badness 10000) detected at line 215 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.298 on input line 238. Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.299 on input line 281. [173] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 299 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.300 on input line 306. Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.301 on input line 333. Underfull \hbox (badness 10000) detected at line 334 [][][] [174] Underfull \hbox (badness 10000) detected at line 351 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.302 on input line 358. Underfull \hbox (badness 10000) detected at line 373 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.303 on input line 380. Underfull \hbox (badness 10000) detected at line 395 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.304 on input line 402. Underfull \hbox (badness 10000) detected at line 403 [][][] [175] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 429 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.305 on input line 448. Underfull \hbox (badness 10000) detected at line 449 [][][] [176] Underfull \hbox (badness 10000) detected at line 471 [][][] Underfull \hbox (badness 10000) detected at line 476 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.306 on input line 499. Underfull \hbox (badness 10000) detected at line 500 [][][] Underfull \hbox (badness 10000) detected at line 517 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.307 on input line 524. Underfull \hbox (badness 10000) detected at line 525 [][][] ) (./group___vhal.tex [177] [178] [179] [180] [181] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 421 [][][] Underfull \hbox (badness 10000) detected at line 438 [][][] Underfull \hbox (badness 10000) detected at line 455 [][][] [182] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Underfull \hbox (badness 10000) detected at line 526 [][][] Underfull \hbox (badness 10000) detected at line 567 [][][] [183] [184] Underfull \hbox (badness 10000) detected at line 772 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.308 on input line 804. Underfull \hbox (badness 10000) detected at line 819 [][][] [185] Package longtable Warning: Column widths have changed (longtable) in table 7.309 on input line 835. Underfull \hbox (badness 10000) detected at line 850 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.310 on input line 870. Underfull \hbox (badness 10000) detected at line 885 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.311 on input line 917. [186] Underfull \hbox (badness 10000) detected at line 932 [][][] Missing character: There is no Å in font cmr10! Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 58. Missing character: There is no Å in font cmr10! Package longtable Warning: Column widths have changed (longtable) in table 7.312 on input line 996. Package longtable Warning: Column widths have changed (longtable) in table 7.313 on input line 1024. [187] [188] Package longtable Warning: Column widths have changed (longtable) in table 7.314 on input line 1070. Package longtable Warning: Column widths have changed (longtable) in table 7.315 on input line 1094. Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1112 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.316 on input line 1125. Underfull \hbox (badness 10000) detected at line 1140 [][][] Underfull \hbox (badness 10000) detected at line 1143 [][][] [189] Underfull \hbox (badness 10000) detected at line 1160 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.317 on input line 1185. ) (./group___vmatrix.tex) (./group___vparam.tex [190] [191] [192] Underfull \hbox (badness 10000) detected at line 152 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.318 on input line 161. Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.319 on input line 188. Underfull \hbox (badness 10000) detected at line 189 [][][] Underfull \hbox (badness 10000) detected at line 206 [][][] [193] Package longtable Warning: Column widths have changed (longtable) in table 7.320 on input line 215. Underfull \hbox (badness 10000) detected at line 230 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.321 on input line 239. Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 274 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.322 on input line 281. Underfull \hbox (badness 10000) detected at line 282 [][][] [194] Underfull \hbox (badness 10000) detected at line 299 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.323 on input line 306. Underfull \hbox (badness 10000) detected at line 321 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.324 on input line 328. Underfull \hbox (badness 10000) detected at line 343 [][][] Underfull \hbox (badness 10000) detected at line 346 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] [195] Package longtable Warning: Column widths have changed (longtable) in table 7.325 on input line 370. Underfull \hbox (badness 10000) detected at line 371 [][][] Underfull \hbox (badness 10000) detected at line 388 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.326 on input line 395. Underfull \hbox (badness 10000) detected at line 410 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.327 on input line 417. Underfull \hbox (badness 10000) detected at line 432 [][][] [196] Package longtable Warning: Column widths have changed (longtable) in table 7.328 on input line 443. Underfull \hbox (badness 10000) detected at line 444 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 467 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.329 on input line 476. Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 480 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] [197] Package longtable Warning: Column widths have changed (longtable) in table 7.330 on input line 507. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.331 on input line 540. Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [198] Underfull \hbox (badness 10000) detected at line 571 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.332 on input line 586. Underfull \hbox (badness 10000) detected at line 587 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.333 on input line 613. Underfull \hbox (badness 10000) detected at line 628 [][][] [199] Package longtable Warning: Column widths have changed (longtable) in table 7.334 on input line 635. Underfull \hbox (badness 10000) detected at line 636 [][][] Underfull \hbox (badness 10000) detected at line 653 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.335 on input line 662. Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 680 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.336 on input line 687. Underfull \hbox (badness 10000) detected at line 702 [][][] [200] Package longtable Warning: Column widths have changed (longtable) in table 7.337 on input line 709. ) (./group___vpbe.tex [201] [202] [203] Underfull \hbox (badness 10000) detected at line 128 [][][] Underfull \hbox (badness 10000) detected at line 131 [][][] LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 136 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.338 on input line 171. [204] Underfull \hbox (badness 10000) detected at line 186 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 195 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.339 on input line 232. [205] Underfull \hbox (badness 10000) detected at line 247 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.340 on input line 254. Underfull \hbox (badness 10000) detected at line 269 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.341 on input line 276. Underfull \hbox (badness 10000) detected at line 291 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.342 on input line 298. [206] Underfull \hbox (badness 10000) detected at line 299 [][][] Overfull \hbox (151.96916pt too wide) in paragraph at lines 318--318 [] \T1/p cr/m/n/8 permittivity equal to the protein interior) and zero ionic[] Underfull \hbox (badness 10000) detected at line 325 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.343 on input line 332. Underfull \hbox (badness 10000) detected at line 333 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.344 on input line 357. Underfull \hbox (badness 10000) detected at line 358 [][][] Underfull \hbox (badness 10000) detected at line 375 [][][] [207] Package longtable Warning: Column widths have changed (longtable) in table 7.345 on input line 382. Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 396 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.346 on input line 411. Underfull \hbox (badness 10000) detected at line 412 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.347 on input line 435. Underfull \hbox (badness 10000) detected at line 436 [][][] [208] Underfull \hbox (badness 10000) detected at line 453 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.348 on input line 460. Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 478 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.349 on input line 485. Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.350 on input line 510. [209] Underfull \hbox (badness 10000) detected at line 525 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.351 on input line 532. Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 550 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.352 on input line 557. Underfull \hbox (badness 10000) detected at line 558 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.353 on input line 582. Underfull \hbox (badness 10000) detected at line 583 [][][] [210] Underfull \hbox (badness 10000) detected at line 600 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.354 on input line 607. Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.355 on input line 632. Underfull \hbox (badness 10000) detected at line 633 [][][] Underfull \hbox (badness 10000) detected at line 650 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.356 on input line 657. Underfull \hbox (badness 10000) detected at line 658 [][][] [211] Underfull \hbox (badness 10000) detected at line 675 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.357 on input line 682. Underfull \hbox (badness 10000) detected at line 683 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.358 on input line 707. Underfull \hbox (badness 10000) detected at line 708 [][][] Underfull \hbox (badness 10000) detected at line 725 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.359 on input line 732. Underfull \hbox (badness 10000) detected at line 733 [][][] [212] Underfull \hbox (badness 10000) detected at line 750 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.360 on input line 757. Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 775 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.361 on input line 782. Underfull \hbox (badness 10000) detected at line 783 [][][] Underfull \hbox (badness 10000) detected at line 800 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.362 on input line 807. Underfull \hbox (badness 10000) detected at line 808 [][][] [213] Underfull \hbox (badness 10000) detected at line 825 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.363 on input line 832. Underfull \hbox (badness 10000) detected at line 833 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.364 on input line 857. Underfull \hbox (badness 10000) detected at line 858 [][][] LaTeX Warning: Command \r invalid in math mode on input line 859. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 875 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.365 on input line 882. Underfull \hbox (badness 10000) detected at line 883 [][][] [214] Underfull \hbox (badness 10000) detected at line 900 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.366 on input line 907. Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 925 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.367 on input line 932. Underfull \hbox (badness 10000) detected at line 933 [][][] ) (./group___vstring.tex [215] Underfull \hbox (badness 10000) detected at line 42 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.368 on input line 49. Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.369 on input line 79. [216] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.370 on input line 116. ) (./group___vunit.tex [217] LaTeX Warning: Command \r invalid in math mode on input line 39. Missing character: There is no Å in font cmr9! [218] LaTeX Warning: Command \r invalid in math mode on input line 142. Missing character: There is no Å in font cmr10! [219]) (./group___vgrid.tex [220] [221] Underfull \hbox (badness 10000) detected at line 125 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.371 on input line 150. Underfull \hbox (badness 10000) detected at line 151 [][][] [222] Underfull \hbox (badness 10000) detected at line 168 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.372 on input line 195. Underfull \hbox (badness 10000) detected at line 196 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.373 on input line 228. [223] Underfull \hbox (badness 10000) detected at line 229 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.374 on input line 253. Underfull \hbox (badness 10000) detected at line 268 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.375 on input line 275. Underfull \hbox (badness 10000) detected at line 290 [][][] [224] Package longtable Warning: Column widths have changed (longtable) in table 7.376 on input line 301. Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 319 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.377 on input line 326. Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.378 on input line 351. Underfull \hbox (badness 10000) detected at line 352 [][][] [225] Underfull \hbox (badness 10000) detected at line 369 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.379 on input line 376. Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.380 on input line 402. Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] [226] Package longtable Warning: Column widths have changed (longtable) in table 7.381 on input line 427. Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 445 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.382 on input line 452. Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 470 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.383 on input line 488. [227] Underfull \hbox (badness 10000) detected at line 489 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.384 on input line 527. Underfull \hbox (badness 10000) detected at line 528 [][][] Underfull \hbox (badness 10000) detected at line 531 [][][] [228] Underfull \hbox (badness 10000) detected at line 548 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.385 on input line 560. Underfull \hbox (badness 10000) detected at line 575 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.386 on input line 582. Underfull \hbox (badness 10000) detected at line 583 [][][] Underfull \hbox (badness 10000) detected at line 600 [][][] [229] Package longtable Warning: Column widths have changed (longtable) in table 7.387 on input line 611. Underfull \hbox (badness 10000) detected at line 612 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.388 on input line 648. [230] Underfull \hbox (badness 10000) detected at line 663 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.389 on input line 682. Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.390 on input line 721. ) (./group___vmgrid.tex [231] [232] Underfull \hbox (badness 10000) detected at line 105 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.391 on input line 114. Underfull \hbox (badness 10000) detected at line 115 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 135 [][][] [233] Underfull \hbox (badness 10000) detected at line 152 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.392 on input line 159. Underfull \hbox (badness 10000) detected at line 160 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.393 on input line 192. Underfull \hbox (badness 10000) detected at line 193 [][][] [234] Underfull \hbox (badness 10000) detected at line 210 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.394 on input line 217. Underfull \hbox (badness 10000) detected at line 232 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.395 on input line 239. Underfull \hbox (badness 10000) detected at line 254 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.396 on input line 263. Underfull \hbox (badness 10000) detected at line 264 [][][] [235] Underfull \hbox (badness 10000) detected at line 277 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.397 on input line 286. Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 300 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.398 on input line 311. Underfull \hbox (badness 10000) detected at line 312 [][][] Underfull \hbox (badness 10000) detected at line 329 [][][] [236] Package longtable Warning: Column widths have changed (longtable) in table 7.399 on input line 340. Underfull \hbox (badness 10000) detected at line 341 [][][] ) (./group___vopot.tex [237] Underfull \hbox (badness 10000) detected at line 77 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.400 on input line 88. Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.401 on input line 119. [238] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 137 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.402 on input line 152. Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 170 [][][] [239] Package longtable Warning: Column widths have changed (longtable) in table 7.403 on input line 177. Underfull \hbox (badness 10000) detected at line 192 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.404 on input line 199. Underfull \hbox (badness 10000) detected at line 214 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.405 on input line 225. Underfull \hbox (badness 10000) detected at line 226 [][][] Underfull \hbox (badness 10000) detected at line 243 [][][] [240] Package longtable Warning: Column widths have changed (longtable) in table 7.406 on input line 254. Underfull \hbox (badness 10000) detected at line 255 [][][] ) (./group___vpmg.tex [241] [242] [243] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.407 on input line 171. [244] Underfull \hbox (badness 10000) detected at line 186 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.408 on input line 219. [245] Underfull \hbox (badness 10000) detected at line 234 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.409 on input line 261. Underfull \hbox (badness 10000) detected at line 276 [][][] [246] Package longtable Warning: Column widths have changed (longtable) in table 7.410 on input line 309. Underfull \hbox (badness 10000) detected at line 324 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.411 on input line 347. [247] Underfull \hbox (badness 10000) detected at line 362 [][][] Underfull \hbox (badness 10000) detected at line 381 [][][] Underfull \hbox (badness 10000) detected at line 384 [][][] [248] Package longtable Warning: Column widths have changed (longtable) in table 7.412 on input line 401. Underfull \hbox (badness 10000) detected at line 416 [][][] Underfull \hbox (badness 10000) detected at line 419 [][][] Underfull \hbox (badness 10000) detected at line 422 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.413 on input line 443. [249] Underfull \hbox (badness 10000) detected at line 458 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.414 on input line 473. Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.415 on input line 505. [250] Underfull \hbox (badness 10000) detected at line 520 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.416 on input line 535. Underfull \hbox (badness 10000) detected at line 546 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.417 on input line 561. [251] Underfull \hbox (badness 10000) detected at line 572 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.418 on input line 583. Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 610 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.419 on input line 619. [252] Underfull \hbox (badness 10000) detected at line 643 [][][] Underfull \hbox (badness 10000) detected at line 646 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.420 on input line 653. Underfull \hbox (badness 10000) detected at line 668 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.421 on input line 675. Underfull \hbox (badness 10000) detected at line 690 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.422 on input line 697. Underfull \hbox (badness 10000) detected at line 712 [][][] [253] Underfull \hbox (badness 10000) detected at line 715 [][][] Underfull \hbox (badness 10000) detected at line 718 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.423 on input line 727. Underfull \hbox (badness 10000) detected at line 742 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.424 on input line 753. Underfull \hbox (badness 10000) detected at line 764 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] [254] Package longtable Warning: Column widths have changed (longtable) in table 7.425 on input line 784. Underfull \hbox (badness 10000) detected at line 799 [][][] Underfull \hbox (badness 10000) detected at line 802 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.426 on input line 841. [255] Underfull \hbox (badness 10000) detected at line 856 [][][] Underfull \hbox (badness 10000) detected at line 859 [][][] Underfull \hbox (badness 10000) detected at line 864 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.427 on input line 879. [256] Underfull \hbox (badness 10000) detected at line 894 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.428 on input line 909. Underfull \hbox (badness 10000) detected at line 920 [][][] Underfull \hbox (badness 10000) detected at line 923 [][][] Underfull \hbox (badness 10000) detected at line 928 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.429 on input line 941. [257] Underfull \hbox (badness 10000) detected at line 956 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.430 on input line 971. Underfull \hbox (badness 10000) detected at line 982 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.431 on input line 997. [258] Underfull \hbox (badness 10000) detected at line 1008 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.432 on input line 1019. Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.433 on input line 1040. Underfull \hbox (badness 10000) detected at line 1055 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.434 on input line 1076. [259] Underfull \hbox (badness 10000) detected at line 1093 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] Underfull \hbox (badness 10000) detected at line 1099 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.435 on input line 1108. [260] Underfull \hbox (badness 10000) detected at line 1123 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.436 on input line 1140. Underfull \hbox (badness 10000) detected at line 1160 [][][] Underfull \hbox (badness 10000) detected at line 1163 [][][] Underfull \hbox (badness 10000) detected at line 1166 [][][] [261] Package longtable Warning: Column widths have changed (longtable) in table 7.437 on input line 1175. Underfull \hbox (badness 10000) detected at line 1190 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1198 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.438 on input line 1211. Underfull \hbox (badness 10000) detected at line 1226 [][][] [262] Package longtable Warning: Column widths have changed (longtable) in table 7.439 on input line 1241. Underfull \hbox (badness 10000) detected at line 1252 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.440 on input line 1269. Underfull \hbox (badness 10000) detected at line 1280 [][][] Underfull \hbox (badness 10000) detected at line 1283 [][][] [263] Package longtable Warning: Column widths have changed (longtable) in table 7.441 on input line 1292. Underfull \hbox (badness 10000) detected at line 1303 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.442 on input line 1316. Underfull \hbox (badness 10000) detected at line 1343 [][][] Underfull \hbox (badness 10000) detected at line 1346 [][][] Underfull \hbox (badness 10000) detected at line 1349 [][][] [264] Package longtable Warning: Column widths have changed (longtable) in table 7.443 on input line 1358. Underfull \hbox (badness 10000) detected at line 1373 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.444 on input line 1386. Underfull \hbox (badness 10000) detected at line 1401 [][][] Underfull \hbox (badness 10000) detected at line 1404 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.445 on input line 1411. [265] Underfull \hbox (badness 10000) detected at line 1426 [][][] Underfull \hbox (badness 10000) detected at line 1429 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.446 on input line 1439. Underfull \hbox (badness 10000) detected at line 1454 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.447 on input line 1461. ) (./group___vpmgp.tex [266] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] [267] Package longtable Warning: Column widths have changed (longtable) in table 7.448 on input line 85. Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.449 on input line 112. Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 130 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.450 on input line 137. Underfull \hbox (badness 10000) detected at line 152 [][][] [268] Package longtable Warning: Column widths have changed (longtable) in table 7.451 on input line 159. Underfull \hbox (badness 10000) detected at line 174 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.452 on input line 193. Underfull \hbox (badness 10000) detected at line 208 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.453 on input line 215. ) (./group___p_m_g_c.tex [269] [270] [271] [272] [273] Underfull \hbox (badness 10000) detected at line 155 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 170--170 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [274] Underfull \hbox (badness 10000) detected at line 217 [][][] Underfull \hbox (badness 10000) detected at line 220 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 232--232 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [275] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.454 on input line 298. Underfull \hbox (badness 10000) detected at line 313 [][][] Underfull \hbox (badness 10000) detected at line 316 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.455 on input line 329. [276] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [277] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 400 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 409--409 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 444 [][][] [278] Package longtable Warning: Column widths have changed (longtable) in table 7.456 on input line 493. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] [279] Overfull \hbox (304.08286pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 561 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 573--573 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [280] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 611 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.457 on input line 636. [281] Underfull \hbox (badness 10000) detected at line 651 [][][] Underfull \hbox (badness 10000) detected at line 654 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.458 on input line 709. [282] Underfull \hbox (badness 10000) detected at line 724 [][][] Underfull \hbox (badness 10000) detected at line 727 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.459 on input line 762. [283] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 780 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 793--793 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [284] Underfull \hbox (badness 10000) detected at line 830 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 842--842 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Package longtable Warning: Column widths have changed (longtable) in table 7.460 on input line 897. [285] [286] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 915 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.461 on input line 1040. [287] [288] [289] Underfull \hbox (badness 10000) detected at line 1055 [][][] Underfull \hbox (badness 10000) detected at line 1058 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.462 on input line 1219. [290] [291] [292] Underfull \hbox (badness 10000) detected at line 1234 [][][] Underfull \hbox (badness 10000) detected at line 1237 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.463 on input line 1372. [293] [294] Underfull \hbox (badness 10000) detected at line 1387 [][][] Underfull \hbox (badness 10000) detected at line 1390 [][][] Underfull \hbox (badness 10000) detected at line 1393 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.464 on input line 1436. [295] Underfull \hbox (badness 10000) detected at line 1451 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1467--1467 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [296] Underfull \hbox (badness 10000) detected at line 1504 [][][] Underfull \hbox (badness 10000) detected at line 1507 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.465 on input line 1572. [297] Underfull \hbox (badness 10000) detected at line 1587 [][][] Underfull \hbox (badness 10000) detected at line 1590 [][][] Underfull \hbox (badness 10000) detected at line 1593 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1603--1603 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [298] Underfull \hbox (badness 10000) detected at line 1640 [][][] Underfull \hbox (badness 10000) detected at line 1643 [][][] Underfull \hbox (badness 10000) detected at line 1646 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1655--1655 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [299] Package longtable Warning: Column widths have changed (longtable) in table 7.466 on input line 1718. Underfull \hbox (badness 10000) detected at line 1733 [][][] Underfull \hbox (badness 10000) detected at line 1738 [][][] Underfull \hbox (badness 10000) detected at line 1741 [][][] [300] Package longtable Warning: Column widths have changed (longtable) in table 7.467 on input line 1756. Underfull \hbox (badness 10000) detected at line 1771 [][][] Underfull \hbox (badness 10000) detected at line 1774 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.468 on input line 1793. [301] Underfull \hbox (badness 10000) detected at line 1808 [][][] Underfull \hbox (badness 10000) detected at line 1811 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.469 on input line 1830. Underfull \hbox (badness 10000) detected at line 1845 [][][] Underfull \hbox (badness 10000) detected at line 1848 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.470 on input line 1867. [302] Underfull \hbox (badness 10000) detected at line 1882 [][][] Underfull \hbox (badness 10000) detected at line 1885 [][][] Underfull \hbox (badness 10000) detected at line 1888 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1898--1898 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [303] Underfull \hbox (badness 10000) detected at line 1935 [][][] Underfull \hbox (badness 10000) detected at line 1938 [][][] Underfull \hbox (badness 10000) detected at line 1941 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1950--1950 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [304] Package longtable Warning: Column widths have changed (longtable) in table 7.471 on input line 2021. Underfull \hbox (badness 10000) detected at line 2036 [][][] Underfull \hbox (badness 10000) detected at line 2039 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.472 on input line 2058. [305] Underfull \hbox (badness 10000) detected at line 2073 [][][] Underfull \hbox (badness 10000) detected at line 2076 [][][] Underfull \hbox (badness 10000) detected at line 2079 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2089--2089 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [306] Underfull \hbox (badness 10000) detected at line 2126 [][][] Underfull \hbox (badness 10000) detected at line 2129 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2138--2138 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 2173 [][][] Underfull \hbox (badness 10000) detected at line 2176 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.473 on input line 2193. [307] Underfull \hbox (badness 10000) detected at line 2208 [][][] Underfull \hbox (badness 10000) detected at line 2211 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.474 on input line 2232. [308] Underfull \hbox (badness 10000) detected at line 2247 [][][] Underfull \hbox (badness 10000) detected at line 2250 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.475 on input line 2271. Underfull \hbox (badness 10000) detected at line 2286 [][][] Underfull \hbox (badness 10000) detected at line 2289 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.476 on input line 2302. [309] Underfull \hbox (badness 10000) detected at line 2317 [][][] Underfull \hbox (badness 10000) detected at line 2320 [][][] Underfull \hbox (badness 10000) detected at line 2323 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2333--2333 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [310] Underfull \hbox (badness 10000) detected at line 2370 [][][] Underfull \hbox (badness 10000) detected at line 2373 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2382--2382 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [311] Underfull \hbox (badness 10000) detected at line 2417 [][][] Underfull \hbox (badness 10000) detected at line 2420 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.477 on input line 2491. [312] Underfull \hbox (badness 10000) detected at line 2506 [][][] Underfull \hbox (badness 10000) detected at line 2509 [][][] Underfull \hbox (badness 10000) detected at line 2512 [][][] [313] Underfull \hbox (badness 10000) detected at line 2560 [][][] Underfull \hbox (badness 10000) detected at line 2563 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2572--2572 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [314] Underfull \hbox (badness 10000) detected at line 2607 [][][] Underfull \hbox (badness 10000) detected at line 2610 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.478 on input line 2685. [315] Underfull \hbox (badness 10000) detected at line 2700 [][][] Underfull \hbox (badness 10000) detected at line 2703 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.479 on input line 2734. [316] Underfull \hbox (badness 10000) detected at line 2749 [][][] Underfull \hbox (badness 10000) detected at line 2752 [][][] Underfull \hbox (badness 10000) detected at line 2755 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2765--2765 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [317] Underfull \hbox (badness 10000) detected at line 2802 [][][] Underfull \hbox (badness 10000) detected at line 2805 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2814--2814 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [318] Underfull \hbox (badness 10000) detected at line 2849 [][][] Underfull \hbox (badness 10000) detected at line 2852 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.480 on input line 2893. [319] Underfull \hbox (badness 10000) detected at line 2908 [][][] Underfull \hbox (badness 10000) detected at line 2911 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.481 on input line 2934. [320] Underfull \hbox (badness 10000) detected at line 2949 [][][] Underfull \hbox (badness 10000) detected at line 2960 [][][] Underfull \hbox (badness 10000) detected at line 2963 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.482 on input line 3034. [321] Underfull \hbox (badness 10000) detected at line 3049 [][][] Underfull \hbox (badness 10000) detected at line 3052 [][][] Underfull \hbox (badness 10000) detected at line 3055 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [322] Underfull \hbox (badness 10000) detected at line 3102 [][][] Underfull \hbox (badness 10000) detected at line 3105 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3114--3114 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [323] Underfull \hbox (badness 10000) detected at line 3149 [][][] Underfull \hbox (badness 10000) detected at line 3152 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.483 on input line 3175. Underfull \hbox (badness 10000) detected at line 3190 [][][] [324] Underfull \hbox (badness 10000) detected at line 3193 [][][] Underfull \hbox (badness 10000) detected at line 3196 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3206--3206 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3243 [][][] Underfull \hbox (badness 10000) detected at line 3246 [][][] Underfull \hbox (badness 10000) detected at line 3249 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3258--3258 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [325] Underfull \hbox (badness 10000) detected at line 3291 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.484 on input line 3330. [326] Underfull \hbox (badness 10000) detected at line 3345 [][][] [327] Package longtable Warning: Column widths have changed (longtable) in table 7.485 on input line 3427. [328] [329] Underfull \hbox (badness 10000) detected at line 3501 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.486 on input line 3544. [330] Underfull \hbox (badness 10000) detected at line 3559 [][][] Underfull \hbox (badness 10000) detected at line 3562 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.487 on input line 3587. [331] Underfull \hbox (badness 10000) detected at line 3602 [][][] Underfull \hbox (badness 10000) detected at line 3605 [][][] Underfull \hbox (badness 10000) detected at line 3608 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3618--3618 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [332] Underfull \hbox (badness 10000) detected at line 3655 [][][] Underfull \hbox (badness 10000) detected at line 3658 [][][] Underfull \hbox (badness 10000) detected at line 3661 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3670--3670 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [333] Underfull \hbox (badness 10000) detected at line 3719 [][][] Underfull \hbox (badness 10000) detected at line 3722 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.488 on input line 3791. [334] Underfull \hbox (badness 10000) detected at line 3806 [][][] Underfull \hbox (badness 10000) detected at line 3809 [][][] [335] Package longtable Warning: Column widths have changed (longtable) in table 7.489 on input line 3892. Underfull \hbox (badness 10000) detected at line 3907 [][][] [336] Underfull \hbox (badness 10000) detected at line 3910 [][][] Underfull \hbox (badness 10000) detected at line 3913 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3923--3923 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3960 [][][] Underfull \hbox (badness 10000) detected at line 3963 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.490 on input line 3974. [337] Underfull \hbox (badness 10000) detected at line 3989 [][][] Underfull \hbox (badness 10000) detected at line 3992 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.491 on input line 4003. Underfull \hbox (badness 10000) detected at line 4018 [][][] Underfull \hbox (badness 10000) detected at line 4021 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.492 on input line 4036. [338] Underfull \hbox (badness 10000) detected at line 4051 [][][] Underfull \hbox (badness 10000) detected at line 4054 [][][] Underfull \hbox (badness 10000) detected at line 4057 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4067--4067 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [339] Underfull \hbox (badness 10000) detected at line 4104 [][][] Underfull \hbox (badness 10000) detected at line 4107 [][][] Underfull \hbox (badness 10000) detected at line 4110 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4119--4119 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [340] Underfull \hbox (badness 10000) detected at line 4154 [][][] Underfull \hbox (badness 10000) detected at line 4157 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.493 on input line 4196. [341] Underfull \hbox (badness 10000) detected at line 4211 [][][] Underfull \hbox (badness 10000) detected at line 4239 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.494 on input line 4298. [342] [343] Underfull \hbox (badness 10000) detected at line 4313 [][][] Underfull \hbox (badness 10000) detected at line 4316 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.495 on input line 4391. [344] Underfull \hbox (badness 10000) detected at line 4406 [][][] Underfull \hbox (badness 10000) detected at line 4409 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.496 on input line 4434. [345] Underfull \hbox (badness 10000) detected at line 4449 [][][] Underfull \hbox (badness 10000) detected at line 4452 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.497 on input line 4479. [346] Underfull \hbox (badness 10000) detected at line 4494 [][][] Underfull \hbox (badness 10000) detected at line 4497 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.498 on input line 4540. [347] Underfull \hbox (badness 10000) detected at line 4555 [][][] Underfull \hbox (badness 10000) detected at line 4558 [][][] Underfull \hbox (badness 10000) detected at line 4561 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4571--4571 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [348] Underfull \hbox (badness 10000) detected at line 4608 [][][] Underfull \hbox (badness 10000) detected at line 4611 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4620--4620 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4653 [][][] Underfull \hbox (badness 10000) detected at line 4656 [][][] Underfull \hbox (badness 10000) detected at line 4659 [][][] [349] Package longtable Warning: Column widths have changed (longtable) in table 7.499 on input line 4704. Underfull \hbox (badness 10000) detected at line 4715 [][][] Underfull \hbox (badness 10000) detected at line 4718 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.500 on input line 4735. [350] Underfull \hbox (badness 10000) detected at line 4750 [][][] Underfull \hbox (badness 10000) detected at line 4753 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.501 on input line 4776. [351] Underfull \hbox (badness 10000) detected at line 4791 [][][] Underfull \hbox (badness 10000) detected at line 4794 [][][] Underfull \hbox (badness 10000) detected at line 4797 [][][] Overfull \hbox (20.88268pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute,[] Underfull \hbox (badness 10000) detected at line 4845 [][][] [352] Underfull \hbox (badness 10000) detected at line 4848 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4892 [][][] Underfull \hbox (badness 10000) detected at line 4895 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.502 on input line 4938. [353] Underfull \hbox (badness 10000) detected at line 4953 [][][] Underfull \hbox (badness 10000) detected at line 4956 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.503 on input line 4973. [354] Underfull \hbox (badness 10000) detected at line 4988 [][][] Underfull \hbox (badness 10000) detected at line 4991 [][][] Underfull \hbox (badness 10000) detected at line 4994 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 5004--5004 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 5041 [][][] Underfull \hbox (badness 10000) detected at line 5044 [][][] Underfull \hbox (badness 10000) detected at line 5047 [][][] [355] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 5056--5056 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 5091 [][][] Underfull \hbox (badness 10000) detected at line 5094 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.504 on input line 5109. [356] Underfull \hbox (badness 10000) detected at line 5124 [][][] Underfull \hbox (badness 10000) detected at line 5127 [][][] Underfull \hbox (badness 10000) detected at line 5130 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.505 on input line 5145. Underfull \hbox (badness 10000) detected at line 5160 [][][] Underfull \hbox (badness 10000) detected at line 5163 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.506 on input line 5178. [357] Underfull \hbox (badness 10000) detected at line 5193 [][][] Underfull \hbox (badness 10000) detected at line 5196 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.507 on input line 5211. Underfull \hbox (badness 10000) detected at line 5226 [][][] Underfull \hbox (badness 10000) detected at line 5229 [][][] [358] Package longtable Warning: Column widths have changed (longtable) in table 7.508 on input line 5242. Underfull \hbox (badness 10000) detected at line 5257 [][][] Underfull \hbox (badness 10000) detected at line 5260 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.509 on input line 5273. Underfull \hbox (badness 10000) detected at line 5288 [][][] Underfull \hbox (badness 10000) detected at line 5291 [][][] [359] Package longtable Warning: Column widths have changed (longtable) in table 7.510 on input line 5306. ) (./group___frontend.tex Underfull \hbox (badness 2495) in paragraph at lines 32--33 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Overfull \hbox (16.65858pt too wide) in paragraph at lines 40--41 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 42--43 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], [360] Underfull \hbox (badness 1910) in paragraph at lines 60--61 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 60--61 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 5817) in paragraph at lines 78--79 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 80--81 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [361] [362] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] [363] Package longtable Warning: Column widths have changed (longtable) in table 7.511 on input line 196. Underfull \hbox (badness 10000) detected at line 211 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.512 on input line 232. Underfull \hbox (badness 10000) detected at line 235 [][][] [364] Package longtable Warning: Column widths have changed (longtable) in table 7.513 on input line 260. Underfull \hbox (badness 10000) detected at line 275 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.514 on input line 296. Underfull \hbox (badness 10000) detected at line 297 [][][] [365] Underfull \hbox (badness 10000) detected at line 314 [][][] Underfull \hbox (badness 10000) detected at line 317 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.515 on input line 336. Underfull \hbox (badness 10000) detected at line 351 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.516 on input line 372. [366] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 393 [][][] [367] Package longtable Warning: Column widths have changed (longtable) in table 7.517 on input line 480. Underfull \hbox (badness 10000) detected at line 495 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [368] Package longtable Warning: Column widths have changed (longtable) in table 7.518 on input line 557. Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.519 on input line 610. [369] Underfull \hbox (badness 10000) detected at line 625 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.520 on input line 634. Underfull \hbox (badness 10000) detected at line 649 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.521 on input line 662. [370] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.522 on input line 705. Underfull \hbox (badness 10000) detected at line 720 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.523 on input line 733. [371] Underfull \hbox (badness 10000) detected at line 748 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.524 on input line 757. Underfull \hbox (badness 10000) detected at line 772 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.525 on input line 781. Underfull \hbox (badness 10000) detected at line 792 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.526 on input line 803. [372] Underfull \hbox (badness 10000) detected at line 818 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.527 on input line 827. Underfull \hbox (badness 10000) detected at line 842 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.528 on input line 851. Underfull \hbox (badness 10000) detected at line 866 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.529 on input line 875. Underfull \hbox (badness 10000) detected at line 876 [][][] [373] Underfull \hbox (badness 10000) detected at line 895 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.530 on input line 908. Underfull \hbox (badness 10000) detected at line 909 [][][] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.531 on input line 938. Underfull \hbox (badness 10000) detected at line 939 [][][] [374] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 961 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.532 on input line 970. Underfull \hbox (badness 10000) detected at line 981 [][][] Underfull \hbox (badness 10000) detected at line 984 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.533 on input line 995. Underfull \hbox (badness 10000) detected at line 1010 [][][] Underfull \hbox (badness 10000) detected at line 1013 [][][] [375] Package longtable Warning: Column widths have changed (longtable) in table 7.534 on input line 1020. Underfull \hbox (badness 10000) detected at line 1035 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.535 on input line 1044. Underfull \hbox (badness 10000) detected at line 1045 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1067 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.536 on input line 1076. [376] Underfull \hbox (badness 10000) detected at line 1091 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.537 on input line 1104. Underfull \hbox (badness 10000) detected at line 1105 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.538 on input line 1133. Underfull \hbox (badness 10000) detected at line 1134 [][][] Underfull \hbox (badness 10000) in paragraph at lines 1135--1136 Underfull \hbox (badness 10000) detected at line 1138 [][][] [377] Package longtable Warning: Column widths have changed (longtable) in table 7.539 on input line 1151. Underfull \hbox (badness 10000) detected at line 1166 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.540 on input line 1179. Underfull \hbox (badness 10000) detected at line 1180 [][][] Underfull \hbox (badness 10000) detected at line 1201 [][][] Underfull \hbox (badness 10000) detected at line 1204 [][][] [378] Package longtable Warning: Column widths have changed (longtable) in table 7.541 on input line 1213. Underfull \hbox (badness 10000) detected at line 1228 [][][] Underfull \hbox (badness 10000) detected at line 1231 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.542 on input line 1244. Underfull \hbox (badness 10000) detected at line 1259 [][][] Underfull \hbox (badness 10000) detected at line 1262 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.543 on input line 1273. [379] Underfull \hbox (badness 10000) detected at line 1288 [][][] Underfull \hbox (badness 10000) detected at line 1291 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.544 on input line 1304. Underfull \hbox (badness 10000) detected at line 1319 [][][] Underfull \hbox (badness 10000) detected at line 1322 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.545 on input line 1333. [380] Underfull \hbox (badness 10000) detected at line 1348 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.546 on input line 1362. Underfull \hbox (badness 10000) detected at line 1377 [][][] Underfull \hbox (badness 10000) detected at line 1380 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.547 on input line 1393. [381] Underfull \hbox (badness 10000) detected at line 1408 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.548 on input line 1417. Underfull \hbox (badness 10000) detected at line 1432 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.549 on input line 1439. Underfull \hbox (badness 10000) detected at line 1454 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.550 on input line 1467. Underfull \hbox (badness 10000) detected at line 1468 [][][] [382] Underfull \hbox (badness 10000) detected at line 1485 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.551 on input line 1496. Underfull \hbox (badness 10000) detected at line 1497 [][][] Underfull \hbox (badness 10000) detected at line 1514 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.552 on input line 1527. Underfull \hbox (badness 10000) detected at line 1528 [][][] [383] Package longtable Warning: Column widths have changed (longtable) in table 7.553 on input line 1547. Underfull \hbox (badness 10000) detected at line 1562 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.554 on input line 1573. Underfull \hbox (badness 10000) detected at line 1574 [][][] Underfull \hbox (badness 10000) detected at line 1591 [][][] Underfull \hbox (badness 10000) detected at line 1608 [][][] [384] Package longtable Warning: Column widths have changed (longtable) in table 7.555 on input line 1621. Underfull \hbox (badness 10000) detected at line 1636 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.556 on input line 1649. Underfull \hbox (badness 10000) detected at line 1650 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.557 on input line 1673. [385] Underfull \hbox (badness 10000) detected at line 1688 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.558 on input line 1715. Underfull \hbox (badness 10000) detected at line 1716 [][][] Underfull \hbox (badness 10000) detected at line 1733 [][][] [386] Package longtable Warning: Column widths have changed (longtable) in table 7.559 on input line 1746. Underfull \hbox (badness 10000) detected at line 1747 [][][] Underfull \hbox (badness 10000) detected at line 1764 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.560 on input line 1791. Underfull \hbox (badness 10000) detected at line 1792 [][][] [387] Underfull \hbox (badness 10000) detected at line 1809 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.561 on input line 1822. Underfull \hbox (badness 10000) detected at line 1823 [][][] ) [388] Chapter 8. (./struct_atom_force.tex Underfull \hbox (badness 10000) detected at line 32 [][][] [389]) (./structs_a_p_o_lparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/apolparm.[] [390] Underfull \hbox (badness 10000) detected at line 88 [][][] [391] Underfull \hbox (badness 10000) detected at line 224 [][][] [392] Underfull \hbox (badness 10000) detected at line 237 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 263 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] Underfull \hbox (badness 10000) detected at line 289 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] [393] Underfull \hbox (badness 10000) detected at line 315 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 354 [][][] Underfull \hbox (badness 10000) detected at line 367 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [394]) (./structs_b_e_mparm.tex [395] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/bemparm.[] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [396] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 155 [][][] [397] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] ) (./structs_f_e_mparm.tex Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/femparm.[] [398] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) in paragraph at lines 84--85 [399] [400] [401]) (./structs_g_e_o_f_l_o_wparm.tex Overfull \hbox (42.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/geoflowparm.[] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [402]) (./structs_m_gparm.tex [403] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] [404] Underfull \hbox (badness 10000) in paragraph at lines 149--150 Underfull \hbox (badness 10000) in paragraph at lines 180--181 [405] Underfull \hbox (badness 10000) in paragraph at lines 261--262 [406] [407] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 460 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [408] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] [409] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [410] Underfull \hbox (badness 10000) detected at line 642 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] ) (./structs_n_osh.tex [411] Underfull \hbox (badness 10000) detected at line 108 [][][] [412] [413] [414] [415] [416] [417]) (./structs_n_osh__calc.tex Underfull \hbox (badness 10000) detected at line 38 [][][] [418]) (./structs_p_b_a_mparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbamparm.[] [419] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] [420] [421] [422] [423]) (./structs_p_b_eparm.tex [424] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbeparm.[] [425] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] [426] [427] [428] Underfull \hbox (badness 10000) detected at line 391 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Underfull \hbox (badness 10000) detected at line 430 [][][] [429] Underfull \hbox (badness 10000) detected at line 473 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] [430] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] [431] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [432] [433]) (./structs_p_b_s_a_mparm.tex Overfull \hbox (30.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbsamparm.[] [434] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [435]) (./structs_vacc.tex [436] Underfull \hbox (badness 10000) detected at line 36 [][][] [437]) (./structs_vacc_surf.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [438]) (./structs_valist.tex [439] Underfull \hbox (badness 10000) detected at line 36 [][][] [440]) (./structs_vatom.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [441] Underfull \hbox (badness 10000) in paragraph at lines 62--63 Underfull \hbox (badness 10000) in paragraph at lines 93--94 Underfull \hbox (badness 10000) in paragraph at lines 114--115 ) (./structs_vclist.tex [442] Underfull \hbox (badness 10000) detected at line 40 [][][] [443]) (./structs_vclist_cell.tex [444] Underfull \hbox (badness 10000) detected at line 24 [][][] ) (./structs_vcsm.tex Underfull \hbox (badness 10000) detected at line 42 [][][] [445] [446]) (./structs_vfetk.tex Underfull \hbox (badness 10000) detected at line 60 [][][] [447] Underfull \hbox (badness 10000) in paragraph at lines 116--117 [448] [449]) (./structs_vfetk___local_var.tex [450] Underfull \hbox (badness 10000) detected at line 86 [][][] [451] [452] [453]) (./structs_vgreen.tex [454] Underfull \hbox (badness 10000) detected at line 34 [][][] [455]) (./structs_vgrid.tex Underfull \hbox (badness 10000) detected at line 52 [][][] [456] [457]) (./structs_vmgrid.tex Underfull \hbox (badness 10000) detected at line 24 [][][] [458]) (./structs_vopot.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [459]) (./structs_vparam___atom_data.tex Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [460]) (./structs_vpbe.tex [461] Underfull \hbox (badness 10000) detected at line 86 [][][] [462] [463] [464]) (./structs_vpee.tex [465] Underfull \hbox (badness 10000) detected at line 34 [][][] [466]) (./structs_vpmg.tex [467] Underfull \hbox (badness 10000) detected at line 116 [][][] [468] [469] [470] [471] [472]) (./structs_vpmgp.tex [473] [474] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) in paragraph at lines 164--165 Underfull \hbox (badness 10000) in paragraph at lines 175--176 Underfull \hbox (badness 10000) in paragraph at lines 186--187 [475] Underfull \hbox (badness 10000) in paragraph at lines 234--235 [476] [477] [478] [479] Underfull \hbox (badness 10000) in paragraph at lines 506--507 [480] Underfull \hbox (badness 10000) in paragraph at lines 527--528 Underfull \hbox (badness 10000) in paragraph at lines 548--549 Underfull \hbox (badness 10000) in paragraph at lines 589--590 [481] Underfull \hbox (badness 10000) in paragraph at lines 630--631 Underfull \hbox (badness 10000) in paragraph at lines 671--672 [482]) (./struct_vparam.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [483]) (./struct_vparam___res_data.tex Underfull \hbox (badness 10000) detected at line 28 [][][] [484]) [485] [486] Chapter 9. (./mainpage_8h_source.tex) (./apbs_8h.tex <./apbs_8h__incl.pdf> <./apbs_8h__dep __incl.pdf> [487] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [488]) (./apbs_8h_source.tex) (./vcsm_8c.tex [489] <./vcsm_8c__incl.pdf> [490] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] Underfull \hbox (badness 10000) detected at line 59 [][][] [491]) (./vcsm_8c_source.tex [492] [493] [494] [495] [496] [497]) (./vcsm_8h.tex <./vcsm_8h__incl.pdf> <./vcsm_8h__dep__incl.pdf> [498] [499] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] [500]) (./vcsm_8h_source.tex [501]) (./vfetk_8c.tex [502] <./vfetk_8c__incl.pdf > [503] [504] Underfull \hbox (badness 10000) detected at line 163 [][][] Underfull \hbox (badness 10000) detected at line 166 [][][] [505] Underfull \hbox (badness 10000) detected at line 169 [][][] [506] [507] [508] [509]) (./vfetk_8c_source.tex [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539]) (./vfetk_8h.tex [540] <./vfetk_8h__incl.pdf> <./vfetk_8h__dep__inc l.pdf> [541] [542] [543] Underfull \hbox (badness 10000) detected at line 189 [][][] [544] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 195 [][][] ) (./vfetk_8h_source.tex [545] [546] [547] [548] [549] [550]) (./vpee_8c.tex <. /vpee_8c__incl.pdf> [551] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] [552]) (./vpee_8c_source.tex [553] [554] [555] [556] [557] [558]) (./vpee_8h.tex <./vpee_8h__incl.pdf> [559] <./vpee_8h__dep__incl.pdf> [560] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] Underfull \hbox (badness 10000) detected at line 63 [][][] [561]) (./vpee_8h_source.tex [562]) (./apolparm_8c.tex <./apolparm_8c__incl.pdf > [563] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] [564] [565]) (./apolparm_8c_source.tex [566] [567] [568] [569] [570] [571] [572] [573]) (./apolparm_8h_source.tex [574]) (./bemparm_8c.tex <./bemparm_8c__ incl.pdf> [575] [576] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [577] Underfull \hbox (badness 10000) detected at line 121 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.1 on input line 130. ) (./bemparm_8c_source.tex [578] [579] [580] [581]) (./bemparm_8h_source.tex [582]) (./femparm_8c.tex <./femparm_8c__incl.pdf> [583] [584] Underfull \hbox (badness 10000) detected at line 59 [][][] Underfull \hbox (badness 10000) detected at line 62 [][][] Underfull \hbox (badness 10000) detected at line 65 [][][] [585] [586]) (./femparm_8c_source.tex [587] [588] [589] [590] [591]) (./femparm_8h.tex <./femparm_8h__incl.pdf> [592] <./femparm_8h__dep__incl.pdf> [593] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [594] Underfull \hbox (badness 10000) detected at line 95 [][][] ) (./femparm_8h_source.tex [595]) (./geoflowparm_8c.tex <./geoflowparm_8c__incl .pdf> [596] [597] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [598]) (./geoflowparm_8c_source.tex [599] [600]) (./geoflowparm_8h.tex <./geofl owparm_8h__incl.pdf> [601] <./geoflowparm_8h__dep__incl.pdf> [602] [603] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [604]) (./geoflowparm_8h_source.tex [605]) (./mgparm_8c.tex <./mgparm_8c__incl. pdf> [606] [607] Underfull \hbox (badness 10000) detected at line 95 [][][] Underfull \hbox (badness 10000) detected at line 98 [][][] Underfull \hbox (badness 10000) detected at line 101 [][][] [608] [609]) (./mgparm_8c_source.tex [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621]) (./mgparm_8h.tex <./mgparm_8h__incl.pdf> [622] <./mgparm_8h__dep__incl.pdf> [623] [624] Underfull \hbox (badness 10000) detected at line 104 [][][] Underfull \hbox (badness 10000) detected at line 107 [][][] Underfull \hbox (badness 10000) detected at line 110 [][][] [625]) (./mgparm_8h_source.tex [626]) (./nosh_8c.tex <./nosh_8c__incl.pdf> [627] [628] [629] Underfull \hbox (badness 10000) detected at line 151 [][][] Underfull \hbox (badness 10000) detected at line 154 [][][] Underfull \hbox (badness 10000) detected at line 157 [][][] [630] [631] [632] [633] [634]) (./nosh_8c_source.tex [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] [666] [667] [668] [669] [670] [671] [672] [673] [674]) (./nosh_8h.tex <./nosh_8h__incl.pdf> [675] <./nosh_8h__dep__incl.pdf> [676] [677] [678] Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] ) (./nosh_8h_source.tex [679] [680] [681]) (./pbamparm_8c.tex <./pbamparm_8c__i ncl.pdf> [682] [683] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [684]) (./pbamparm_8c_source.tex [685] [686] [687] [688] [689] [690] [691] [692] [693]) (./pbamparm_8h.tex <./pbamparm_8h__incl.pdf> <./pbamparm_8h__dep__ incl.pdf> [694] [695] Underfull \hbox (badness 10000) detected at line 102 [][][] [696] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 108 [][][] [697]) (./pbamparm_8h_source.tex [698]) (./pbeparm_8c.tex [699] <./pbeparm_8c__ incl.pdf> [700] Underfull \hbox (badness 10000) detected at line 101 [][][] Underfull \hbox (badness 10000) detected at line 104 [][][] Underfull \hbox (badness 10000) detected at line 107 [][][] [701] [702] [703] [704] [705]) (./pbeparm_8c_source.tex [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720]) (./pbeparm_8h.tex <./pbeparm_8h__incl.pdf> [721] <./pbeparm_8h__dep__incl.pdf> [722] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [723]) (./pbeparm_8h_source.tex [724] [725]) (./pbsamparm_8c.tex <./pbsamparm_8 c__incl.pdf> [726] [727] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [728]) (./pbsamparm_8c_source.tex [729] [730]) (./pbsamparm_8h.tex [731] <./pbs amparm_8h__incl.pdf> <./pbsamparm_8h__dep__incl.pdf> [732] [733] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [734]) (./pbsamparm_8h_source.tex [735]) (./vacc_8c.tex <./vacc_8c__incl.pdf> [736] [737] [738] Underfull \hbox (badness 10000) detected at line 107 [][][] Underfull \hbox (badness 10000) detected at line 110 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] [739] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.2 on input line 193. Underfull \hbox (badness 10000) detected at line 208 [][][] Underfull \hbox (badness 10000) detected at line 211 [][][] [740] Package longtable Warning: Column widths have changed (longtable) in table 9.3 on input line 224. [741]) (./vacc_8c_source.tex [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764]) (./vacc_8h.tex <./vacc_8h__incl.pdf> <./vacc_8h__dep__incl.p df> [765] [766] [767] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] [768]) (./vacc_8h_source.tex [769] [770] [771]) (./valist_8c.tex <./valist_8c__ incl.pdf> [772] [773] Underfull \hbox (badness 2293) in paragraph at lines 54--56 []\T1/phv/m/n/10 VPRIVATE Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/ m/n/10 thee, Vio $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 sock, int $\OMS/cmsy/m/n/ 10 ^^C$\T1/phv/m/n/10 serial, char atom[] Underfull \hbox (badness 10000) detected at line 82 [][][] Underfull \hbox (badness 10000) detected at line 85 [][][] Underfull \hbox (badness 10000) detected at line 88 [][][] [774] [775] [776]) (./valist_8c_source.tex [777] [778] [779] [780] [781] [782] [783] [784] [785] [786]) (./valist_8h.tex [787] <./valist_8h__incl.pdf> < ./valist_8h__dep__incl.pdf> [788] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] [789]) (./valist_8h_source.tex [790] [791]) (./vatom_8c.tex <./vatom_8c__incl.p df> [792] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [793]) (./vatom_8c_source.tex [794] [795] [796]) (./vatom_8h.tex <./vatom_8h__i ncl.pdf> [797] <./vatom_8h__dep__incl.pdf> [798] [799] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] ) (./vatom_8h_source.tex [800] [801]) (./vcap_8c.tex <./vcap_8c__incl.pdf> [802] Underfull \hbox (badness 10000) detected at line 31 [][][] Underfull \hbox (badness 10000) detected at line 34 [][][] Underfull \hbox (badness 10000) detected at line 37 [][][] [803]) (./vcap_8c_source.tex [804]) (./vcap_8h.tex <./vcap_8h__incl.pdf> <./vca p_8h__dep__incl.pdf> [805] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] [806] Underfull \hbox (badness 10000) detected at line 53 [][][] ) (./vcap_8h_source.tex [807]) (./vclist_8c.tex <./vclist_8c__incl.pdf> Underfull \hbox (badness 4060) in paragraph at lines 32--34 []\T1/phv/m/n/10 VPRIVATE void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 thee , dou-ble lower[]_[]corner[][][], dou-ble upper[]_[] [808] Underfull \hbox (badness 1297) in paragraph at lines 44--45 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m /n/10 thee, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 alist, dou-ble max[]_[]radi us, int npts[][][], Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] [809] [810]) (./vclist_8c_source.tex [811] [812] [813] [814] [815]) (./vclist_8h.tex [816] <./vclist_8h__incl.pdf> <./vclist_8h__dep__incl.pdf> [817] [818] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [819]) (./vclist_8h_source.tex [820]) (./vgreen_8c.tex <./vgreen_8c__incl.pdf> [821] [822] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] [823]) (./vgreen_8c_source.tex [824] [825] [826] [827] [828] [829]) (./vgreen_8h.tex <./vgreen_8h__incl.pdf> [830] <./vgreen_8h__dep__incl.pdf> [831] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] ) (./vgreen_8h_source.tex [832]) (./vhal_8h.tex [833] <./vhal_8h__incl.pdf> <./ vhal_8h__dep__incl.pdf> [834] [835] [836] [837] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 306 [][][] Underfull \hbox (badness 10000) detected at line 309 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 318--318 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [838] [839] [840] [841] [842] [843] [844]) (./vhal_8h_source.tex [845] [846] [847] [848] [849] [850] [851] [852]) (./vmatrix_8h.tex <./vmatrix_8h__dep__incl .pdf> [853] Underfull \hbox (badness 10000) detected at line 36 [][][] Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] [854] [855]) (./vmatrix_8h_source.tex [856]) (./vparam_8c.tex <./vparam_8c__inc l.pdf> [857] Underfull \hbox (badness 10000) detected at line 78 [][][] [858] Underfull \hbox (badness 10000) detected at line 81 [][][] Underfull \hbox (badness 10000) detected at line 84 [][][] ) (./vparam_8c_source.tex [859] [860] [861] [862] [863] [864] [865] [866]) (./vparam_8h.tex [867] <./vparam_8h__incl.pdf> <./vparam_8h__dep__incl.pdf> [868] [869] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] [870]) (./vparam_8h_source.tex [871]) (./vpbe_8c.tex <./vpbe_8c__incl.pdf> [872] [873] Underfull \hbox (badness 10000) detected at line 90 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] [874]) (./vpbe_8c_source.tex [875] [876] [877] [878] [879] [880]) (./vpbe_8h.tex <./vpbe_8h__incl.pdf> [881] <./vpbe_8h__dep__incl.pdf> [882] [883] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] Underfull \hbox (badness 10000) detected at line 117 [][][] [884]) (./vpbe_8h_source.tex [885] [886]) (./vstring_8c.tex <./vstring_8c__incl .pdf> [887] Underfull \hbox (badness 10000) detected at line 31 [][][] Underfull \hbox (badness 10000) detected at line 34 [][][] Underfull \hbox (badness 10000) detected at line 37 [][][] [888]) (./vstring_8c_source.tex [889] [890]) (./vstring_8h.tex <./vstring_8h__i ncl.pdf> [891] <./vstring_8h__dep__incl.pdf> Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [892] Underfull \hbox (badness 10000) detected at line 47 [][][] ) (./vstring_8h_source.tex [893]) (./vunit_8h.tex <./vunit_8h__dep__incl.pdf> [894] LaTeX Warning: Command \r invalid in math mode on input line 42. Missing character: There is no Å in font cmr9! Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [895]) (./vunit_8h_source.tex) (./main_8c.tex <./main_8c__incl.pdf> [896] Underfull \hbox (badness 10000) detected at line 28 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [897]) (./main_8c_source.tex [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908]) (./vgrid_8c.tex <./vgrid_8c__incl.pdf> [909] [910] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [911] Underfull \hbox (badness 10000) detected at line 174 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.4 on input line 193. [912]) (./vgrid_8c_source.tex [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935]) (./vgrid_8h.tex <./vgrid_8h__incl.pdf> [936] <./vgrid_ 8h__dep__incl.pdf> [937] [938] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] [939] Underfull \hbox (badness 10000) detected at line 165 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.5 on input line 184. ) (./vgrid_8h_source.tex [940] [941]) (./vmgrid_8c.tex <./vmgrid_8c__incl.pdf> [942] [943] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Overfull \hbox (1024.08331pt too wide) in paragraph at lines 59--59 []\T1/pcr/m/n/8 * Copyright (c) 2010, Pacific Northwest National Laboratory. Portions Copyright (c) 2002-2020, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2020, T he Regents of the University of California. Portions Copyright (c) 1995, Michae l Holst.[] ) (./vmgrid_8c_source.tex [944] [945] [946]) (./vmgrid_8h.tex <./vmgrid_8h__inc l.pdf> <./vmgrid_8h__dep__incl.pdf> [947] [948] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [949]) (./vmgrid_8h_source.tex) (./vopot_8c.tex [950] <./vopot_8c__incl.pdf> Underfull \hbox (badness 10000) detected at line 44 [][][] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] [951]) (./vopot_8c_source.tex [952] [953] [954] [955] [956]) (./vopot_8h.tex <. /vopot_8h__incl.pdf> <./vopot_8h__dep__incl.pdf> [957] [958] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] ) (./vopot_8h_source.tex [959]) (./vpmg_8c.tex <./vpmg_8c__incl.pdf> [960] [961] [962] [963] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 176 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [964] Underfull \hbox (badness 10000) detected at line 261 [][][] [965] Underfull \hbox (badness 10000) detected at line 288 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.6 on input line 319. [966] Underfull \hbox (badness 10000) detected at line 384 [][][] Underfull \hbox (badness 10000) detected at line 387 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.7 on input line 394. Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.8 on input line 419. [967] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.9 on input line 444. Underfull \hbox (badness 10000) detected at line 459 [][][] Underfull \hbox (badness 10000) detected at line 462 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.10 on input line 469. Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] [968] Package longtable Warning: Column widths have changed (longtable) in table 9.11 on input line 494. Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.12 on input line 519. Underfull \hbox (badness 10000) detected at line 534 [][][] Underfull \hbox (badness 10000) detected at line 537 [][][] Underfull \hbox (badness 10000) detected at line 554 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] [969] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 591 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 642 [][][] [970] Underfull \hbox (badness 10000) detected at line 659 [][][] Underfull \hbox (badness 10000) detected at line 676 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 717 [][][] [971] Underfull \hbox (badness 10000) detected at line 734 [][][] Underfull \hbox (badness 10000) detected at line 751 [][][] Underfull \hbox (badness 10000) detected at line 768 [][][] Underfull \hbox (badness 10000) detected at line 795 [][][] [972] Underfull \hbox (badness 10000) detected at line 832 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.13 on input line 861. [973] Underfull \hbox (badness 10000) detected at line 876 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.14 on input line 891. [974] Underfull \hbox (badness 10000) detected at line 926 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.15 on input line 933. Underfull \hbox (badness 10000) detected at line 948 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.16 on input line 955. [975] Underfull \hbox (badness 10000) detected at line 970 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.17 on input line 977. Underfull \hbox (badness 10000) detected at line 992 [][][] Underfull \hbox (badness 10000) detected at line 995 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1015 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.18 on input line 1022. Underfull \hbox (badness 10000) detected at line 1037 [][][] Underfull \hbox (badness 10000) detected at line 1040 [][][] [976] Package longtable Warning: Column widths have changed (longtable) in table 9.19 on input line 1047. Underfull \hbox (badness 10000) detected at line 1062 [][][] Underfull \hbox (badness 10000) detected at line 1065 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.20 on input line 1072. Underfull \hbox (badness 10000) detected at line 1097 [][][] [977] Underfull \hbox (badness 10000) detected at line 1114 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.21 on input line 1131. Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.22 on input line 1158. ) (./vpmg_8c_source.tex [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113]) (./vpmg_8h.tex <./vpmg_8h__incl.pdf> [1114] <./vpmg_8h__dep__incl.pdf> [1115] [1116] [1117] [1118] [1119] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 238 [][][] Underfull \hbox (badness 10000) detected at line 241 [][][] [1120] [1121] Underfull \hbox (badness 10000) detected at line 441 [][][] [1122] Underfull \hbox (badness 10000) detected at line 458 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.23 on input line 489. Underfull \hbox (badness 10000) detected at line 504 [][][] [1123] Underfull \hbox (badness 10000) detected at line 507 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.24 on input line 514. Underfull \hbox (badness 10000) detected at line 529 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.25 on input line 539. Underfull \hbox (badness 10000) detected at line 554 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.26 on input line 564. Underfull \hbox (badness 10000) detected at line 579 [][][] [1124] Underfull \hbox (badness 10000) detected at line 582 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.27 on input line 589. Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.28 on input line 614. Underfull \hbox (badness 10000) detected at line 629 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] [1125] Package longtable Warning: Column widths have changed (longtable) in table 9.29 on input line 639. Underfull \hbox (badness 10000) detected at line 654 [][][] Underfull \hbox (badness 10000) detected at line 657 [][][] Underfull \hbox (badness 10000) detected at line 674 [][][] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 711 [][][] [1126] Underfull \hbox (badness 10000) detected at line 728 [][][] Underfull \hbox (badness 10000) detected at line 745 [][][] Underfull \hbox (badness 10000) detected at line 762 [][][] Underfull \hbox (badness 10000) detected at line 779 [][][] Underfull \hbox (badness 10000) detected at line 796 [][][] [1127] Underfull \hbox (badness 10000) detected at line 817 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] Underfull \hbox (badness 10000) detected at line 837 [][][] Underfull \hbox (badness 10000) detected at line 854 [][][] Underfull \hbox (badness 10000) detected at line 871 [][][] [1128] Underfull \hbox (badness 10000) detected at line 888 [][][] Underfull \hbox (badness 10000) detected at line 905 [][][] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 931 [][][] [1129] Underfull \hbox (badness 10000) detected at line 948 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.30 on input line 977. Underfull \hbox (badness 10000) detected at line 992 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.31 on input line 1007. [1130] Underfull \hbox (badness 10000) detected at line 1022 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.32 on input line 1029. Underfull \hbox (badness 10000) detected at line 1044 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.33 on input line 1051. Underfull \hbox (badness 10000) detected at line 1066 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.34 on input line 1073. [1131] Underfull \hbox (badness 10000) detected at line 1088 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1108 [][][] Underfull \hbox (badness 10000) detected at line 1111 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.35 on input line 1118. Underfull \hbox (badness 10000) detected at line 1133 [][][] Underfull \hbox (badness 10000) detected at line 1136 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.36 on input line 1143. [1132] Underfull \hbox (badness 10000) detected at line 1158 [][][] Underfull \hbox (badness 10000) detected at line 1161 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.37 on input line 1168. Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] [1133] Package longtable Warning: Column widths have changed (longtable) in table 9.38 on input line 1227. Underfull \hbox (badness 10000) detected at line 1242 [][][] Underfull \hbox (badness 10000) detected at line 1245 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.39 on input line 1254. ) (./vpmg_8h_source.tex [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142]) (./vpmgp_8c.tex <./vpmgp_8c__incl.pdf> [1143] Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 45 [][][] [1144]) (./vpmgp_8c_source.tex [1145] [1146] [1147]) (./vpmgp_8h.tex [1148] <./ vpmgp_8h__incl.pdf> <./vpmgp_8h__dep__incl.pdf> [1149] [1150] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] [1151]) (./vpmgp_8h_source.tex [1152]) (./build_ad_8c_source.tex [1153] [1154] [1155]) (./build_ad_8h_source.tex [1156]) (./build_bd_8c_source.tex [1157] [1158] [1159] [1160]) (./build_bd_8h_source.tex [1161]) (./build_gd_8c_source.tex [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199]) (./build_gd_8h_source.tex [1200] [1201]) (./build_pd_8c_source.tex [1202] [1203] [1204] [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220]) (./build_pd_8h_source.tex [1221] [1222] [1223]) (./cgd_8c_source.tex) (./cgd_8h_source.tex [1224]) (./gsd_8c_source.tex [1225] [1226] [1227] [1228]) (./gsd_8h_source.tex [1229]) (./matvecd_8c_source.tex [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242]) (./matvecd_8h_source.tex [1243] [1244] [1245] [1246] [1247] [1248]) (./mgcsd_8c_source.tex [1249] [1250] [1251] [1252] [1253] [1254]) (./mgcsd_8h_source.tex [1255]) (./mgdrvd_8c_source.tex [1256] [1257] [1258] [1259] [1260] [1261] [1262]) (./mgdrvd_8h_source.tex [1263] [1264]) (./mgfasd_8c_source.tex [1265] [1266] [1267] [1268] [1269] [1270]) (./mgfasd_8h_source.tex [1271] [1272]) (./mgsubd_8c_source.tex [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283]) (./mgsubd_8h_source.tex [1284] [1285] [1286] [1287]) (./mikpckd_8c_source.tex [1288] [1289] [1290] [1291]) (./mikpckd_8h_source.tex [1292] [1293] [1294]) (./mlinpckd_8c_source.tex [1295] [1296]) (./mlinpckd_8h_source.tex) (./mypdec_8c_source.tex [1297] [1298] [1299] [1300] [1301] [1302] [1303]) (./mypdec_8h_source.tex [1304]) (./newdrvd_8c_source.tex [1305] [1306] [1307] [1308]) (./newdrvd_8h_source.tex [1309]) (./newtond_8c_source.tex [1310] [1311] [1312] [1313] [1314] [1315] [1316]) (./newtond_8h_source.tex [1317]) (./powerd_8c_source.tex [1318] [1319] [1320] [1321] [1322]) (./powerd_8h_source.tex [1323]) (./smoothd_8c_source.tex [1324]) (./smoothd_8h_source.tex [1325]) (./routines_8c.tex <./routines_8c__incl.pdf> [1326] Underfull \hbox (badness 776) in paragraph at lines 48--49 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv /m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[] Underfull \hbox (badness 2856) in paragraph at lines 48--49 \T1/phv/m/n/10 YMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]ZMap[] [][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 kappa[]Map[][][], [] Underfull \hbox (badness 1237) in paragraph at lines 48--49 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 905) in paragraph at lines 62--63 []\T1/phv/m/n/10 VPUBLIC void [] (Vmem $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 mem , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy /m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 5817) in paragraph at lines 68--69 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 70--71 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1327] Underfull \hbox (badness 1442) in paragraph at lines 82--83 []\T1/phv/m/n/10 VPUBLIC int [] (Vcom $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 com, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy/ m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 931) in paragraph at lines 88--89 []\T1/phv/m/n/10 VPUBLIC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T 1/phv/m/n/10 fetk[][][], Gem Underfull \hbox (badness 2495) 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LaTeX Warning: Label `group___vhal_ga068e237d419d537df01fc0fad01e24e8' multiply defined. ) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (./refman.out) (./refman.out) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texlive/texmf-dist/tex/latex/wasysym/uwasy.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}{/usr/share/texlive/texmf-dist/fonts/enc/dvips /base/8r.enc}] [2] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] (./index.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1phv.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [1] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [2]) (./bug.tex [3] [4] Chapter 2. Underfull \hbox (badness 10000) in paragraph at lines 5--9 Underfull \hbox (badness 10000) in paragraph at lines 9--13 Underfull \hbox (badness 10000) in paragraph at lines 13--17 Underfull \hbox (badness 10000) in paragraph at lines 25--29 Underfull \hbox (badness 10000) in paragraph at lines 29--33 Underfull \hbox (badness 10000) in paragraph at lines 33--37 Underfull \hbox (badness 10000) in paragraph at lines 37--41 Underfull \hbox (badness 10000) in paragraph at lines 41--45 Underfull \hbox (badness 10000) in paragraph at lines 45--49 Underfull \hbox (badness 10000) in paragraph at lines 49--53 Underfull \hbox (badness 10000) in paragraph at lines 53--57 [5] Underfull \hbox (badness 10000) in paragraph at lines 57--61 Underfull \hbox (badness 10000) in paragraph at lines 61--65 Underfull \hbox (badness 10000) in paragraph at lines 65--69 Underfull \hbox (badness 10000) in paragraph at lines 73--77 Underfull \hbox (badness 10000) in paragraph at lines 77--81 Underfull \hbox (badness 10000) in paragraph at lines 81--85 Underfull \hbox (badness 10000) in paragraph at lines 85--89 Underfull \hbox (badness 10000) in paragraph at lines 93--97 Underfull \hbox (badness 10000) in paragraph at lines 97--101 Underfull \hbox (badness 10000) in paragraph at lines 101--105 Underfull \hbox (badness 10000) in paragraph at lines 109--113 Underfull \hbox (badness 10000) in paragraph at lines 113--117 Underfull \hbox (badness 10000) in paragraph at lines 117--121 Underfull \hbox (badness 10000) in paragraph at lines 121--125 [6] Underfull \hbox (badness 10000) in paragraph at lines 125--129 Underfull \hbox (badness 10000) in paragraph at lines 129--133 Underfull \hbox (badness 10000) in paragraph at lines 133--137 Underfull \hbox (badness 10000) in paragraph at lines 137--141 Underfull \hbox (badness 10000) in paragraph at lines 141--145 Underfull \hbox (badness 10000) in paragraph at lines 145--149 ) (./deprecated.tex [7] [8] Chapter 3. Underfull \hbox (badness 10000) in paragraph at lines 5--9 ) [9] [10] Chapter 4. (./topics.tex) [11] [12] Chapter 5. (./annotated.tex [13]) [14] Chapter 6. (./files.tex [15] [16] [17]) [18] Chapter 7. (./group___header.tex) (./group___vcsm.tex [19] Underfull \hbox (badness 10000) detected at line 93 [][][] [20] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 121 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] Underfull \hbox (badness 10000) detected at line 148 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] [21] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] [22] Underfull \hbox (badness 10000) detected at line 252 [][][] Underfull \hbox (badness 10000) detected at line 255 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 284 [][][] Underfull \hbox (badness 10000) 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10000) detected at line 677 [][][] [35] Underfull \hbox (badness 10000) detected at line 707 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] Underfull \hbox (badness 10000) detected at line 736 [][][] Underfull \hbox (badness 10000) detected at line 741 [][][] [36] Underfull \hbox (badness 10000) detected at line 767 [][][] Underfull \hbox (badness 10000) detected at line 795 [][][] Underfull \hbox (badness 10000) detected at line 798 [][][] [37] Underfull \hbox (badness 10000) detected at line 820 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 826 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 853 [][][] Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 878 [][][] [38] Underfull \hbox (badness 10000) detected at line 881 [][][] Underfull \hbox (badness 10000) detected at line 905 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 930 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] [39] Underfull \hbox (badness 10000) detected at line 955 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1005 [][][] Underfull \hbox (badness 10000) detected at line 1008 [][][] [40] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] Underfull \hbox (badness 10000) detected at line 1062 [][][] [41] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Underfull \hbox (badness 10000) detected at line 1115 [][][] [42] Underfull \hbox (badness 10000) detected at line 1152 [][][] Underfull \hbox (badness 10000) detected at line 1155 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1813 [][][] Underfull \hbox (badness 10000) detected at line 1816 [][][] Underfull \hbox (badness 10000) detected at line 1819 [][][] Underfull \hbox (badness 10000) detected at line 1841 [][][] [54] Underfull \hbox (badness 10000) detected at line 1867 [][][] Underfull \hbox (badness 10000) detected at line 1887 [][][] Underfull \hbox (badness 10000) detected at line 1892 [][][] ) (./group___vpee.tex [55] Underfull \hbox (badness 849) in paragraph at lines 45--46 \T1/phv/m/n/10 Holst par-al-lel re-fine-ment rou-tine es-sen-tially re-duces th e er-ror out-side the \T1/pcr/m/n/10 local" partition to zero. Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 However, this leads to the need for a few final overlapping Schw arz solves to Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 smooth out the errors near partition boundaries. Supposedly, if the region in Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 which we allow error-based refinement includes the$\OML/cmm/m/it /10 <$\T1/pcr/m/n/10 /tt$\OML/cmm/m/it/10 >$\T1/pcr/m/n/10 local" partition and an Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 external buffer zone approximately equal in size to the local re gion, then the Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 solution will asymptotically approach the solution obtained via more typical Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 methods. This is essentially a more flexible parallel implementa tion of MC\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s [56] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [57] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 171 [][][] [58] Underfull \hbox (badness 10000) detected at line 195 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] [59] Underfull \hbox (badness 10000) detected at line 241 [][][] Underfull \hbox (badness 10000) detected at line 244 [][][] ) (./group___a_p_o_lparm.tex [60] [61] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] [62] Underfull \hbox (badness 10000) detected at line 253 [][][] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 280 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] [63] Underfull \hbox (badness 10000) detected at line 322 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] ) (./group___b_e_mparm.tex [64] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] [65] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 133 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] [66] Underfull \hbox (badness 10000) detected at line 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detected at line 348 [][][] Underfull \hbox (badness 10000) detected at line 370 [][][] ) (./group___g_e_o_f_l_o_wparm.tex [72] [73] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] [74] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] [75] Underfull \hbox (badness 10000) detected at line 225 [][][] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] ) (./group___m_gparm.tex [76] [77] [78] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 233 [][][] [79] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 262 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [80] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 336 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [81] Underfull \hbox (badness 10000) detected at line 402 [][][] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Underfull \hbox (badness 10000) detected at line 457 [][][] [82] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 482 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 524 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] [83] Underfull \hbox (badness 10000) detected at line 549 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 599 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] [84] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] Underfull \hbox (badness 10000) detected at line 661 [][][] Underfull \hbox (badness 10000) detected at line 678 [][][] [85] Underfull \hbox (badness 10000) detected at line 702 [][][] Underfull \hbox (badness 10000) detected at line 726 [][][] ) (./group___n_osh.tex [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) detected at line 447 [][][] [91] Underfull \hbox (badness 10000) detected at line 457 [][][] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 498 [][][] Underfull \hbox (badness 10000) detected at line 506 [][][] Underfull \hbox (badness 10000) detected at line 523 [][][] [92] Underfull \hbox (badness 10000) detected at line 545 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 584 [][][] [93] Underfull \hbox (badness 10000) detected at line 601 [][][] Underfull \hbox (badness 10000) detected at line 623 [][][] Underfull \hbox (badness 10000) detected at line 645 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] [94] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 685 [][][] Underfull \hbox (badness 10000) detected at line 688 [][][] Underfull \hbox (badness 10000) detected at line 705 [][][] Underfull \hbox (badness 10000) detected at line 715 [][][] [95] Underfull \hbox (badness 10000) detected at line 732 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 759 [][][] Underfull \hbox (badness 10000) detected at line 769 [][][] Underfull \hbox (badness 10000) detected at line 786 [][][] [96] Underfull \hbox (badness 10000) detected at line 796 [][][] Underfull \hbox (badness 10000) detected at line 813 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 840 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] [97] Underfull \hbox (badness 10000) detected at line 867 [][][] Underfull \hbox (badness 10000) detected at line 877 [][][] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 904 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] [98] Underfull \hbox (badness 10000) detected at line 931 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 985 [][][] [99] Underfull \hbox (badness 10000) detected at line 1002 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1029 [][][] Underfull \hbox (badness 10000) detected at line 1032 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] [100] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1074 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1094 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] [101] Underfull \hbox (badness 10000) detected at line 1126 [][][] Underfull \hbox (badness 10000) detected at line 1129 [][][] Underfull \hbox (badness 10000) detected at line 1139 [][][] Underfull \hbox (badness 10000) detected at line 1142 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1162 [][][] Underfull \hbox (badness 10000) detected at line 1174 [][][] Underfull \hbox (badness 10000) detected at line 1177 [][][] [102] Underfull \hbox (badness 10000) detected at line 1194 [][][] Underfull \hbox (badness 10000) detected at line 1197 [][][] Underfull \hbox (badness 10000) detected at line 1207 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1227 [][][] Underfull \hbox (badness 10000) detected at line 1230 [][][] Underfull \hbox (badness 10000) detected at line 1240 [][][] [103] Underfull \hbox (badness 10000) detected at line 1264 [][][] Underfull \hbox (badness 10000) detected at line 1267 [][][] Underfull \hbox (badness 10000) detected at line 1277 [][][] ) (./group___p_b_a_mparm.tex [104] [105] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] [106] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 197 [][][] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 229 [][][] [107] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 256 [][][] Underfull \hbox (badness 10000) detected at line 273 [][][] Underfull \hbox (badness 10000) detected at line 295 [][][] [108] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [109] Underfull \hbox (badness 10000) detected at line 389 [][][] Underfull \hbox (badness 10000) detected at line 413 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] [110] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 485 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] [111] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 581 [][][] Underfull \hbox (badness 10000) detected at line 593 [][][] [112] Underfull \hbox (badness 10000) detected at line 610 [][][] Underfull \hbox (badness 10000) detected at line 634 [][][] ) (./group___p_b_eparm.tex [113] [114] [115] Underfull \hbox (badness 10000) detected at line 209 [][][] Underfull \hbox (badness 10000) detected at line 212 [][][] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] Underfull \hbox (badness 10000) detected at line 261 [][][] [116] Underfull \hbox (badness 10000) detected at line 278 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 325 [][][] [117] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] [118] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 431 [][][] ) (./group___p_b_s_a_mparm.tex [119] [120] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] [121] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 205 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 240 [][][] [122] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 301 [][][] [123] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] [124] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 426 [][][] ) (./group___vacc.tex [125] [126] [127] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [128] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 242 [][][] [129] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 283 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] Underfull \hbox (badness 10000) detected at line 308 [][][] [130] Underfull \hbox (badness 10000) detected at line 334 [][][] Underfull \hbox (badness 10000) detected at line 337 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [131] Underfull \hbox (badness 10000) detected at line 387 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] Underfull \hbox (badness 10000) detected at line 414 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] [132] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 472 [][][] Underfull \hbox (badness 10000) detected at line 475 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] [133] Underfull \hbox (badness 10000) detected at line 502 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 562 [][][] [134] Underfull \hbox (badness 10000) detected at line 565 [][][] Underfull \hbox (badness 10000) detected at line 595 [][][] Underfull \hbox (badness 10000) detected at line 598 [][][] [135] Underfull \hbox (badness 10000) detected at line 628 [][][] Underfull \hbox (badness 10000) detected at line 660 [][][] [136] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 724 [][][] [137] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 790 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] [138] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 855 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] Underfull \hbox (badness 10000) detected at line 882 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] Underfull \hbox (badness 10000) detected at line 888 [][][] [139] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] Underfull \hbox (badness 10000) detected at line 941 [][][] Underfull \hbox (badness 10000) detected at line 944 [][][] [140] Underfull \hbox (badness 10000) detected at line 972 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1007 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] [141] Underfull \hbox (badness 10000) detected at line 1040 [][][] Underfull \hbox (badness 10000) detected at line 1043 [][][] Underfull \hbox (badness 10000) detected at line 1069 [][][] Underfull \hbox (badness 10000) detected at line 1072 [][][] [142] Underfull \hbox (badness 10000) detected at line 1100 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Underfull \hbox (badness 10000) detected at line 1152 [][][] [143]) (./group___valist.tex [144] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [145] Underfull \hbox (badness 10000) detected at line 136 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 183 [][][] [146] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 260 [][][] [147] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 310 [][][] Underfull \hbox (badness 10000) detected at line 332 [][][] Underfull \hbox (badness 10000) detected at line 335 [][][] [148] Underfull \hbox (badness 10000) detected at line 352 [][][] Underfull \hbox (badness 10000) detected at line 355 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] [149] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 415 [][][] Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] ) (./group___vatom.tex [150] [151] Underfull \hbox (badness 10000) detected at line 97 [][][] [152] Underfull \hbox (badness 10000) detected at line 134 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] [153] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 227 [][][] Underfull \hbox (badness 10000) detected at line 249 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] [154] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 320 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 345 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] [155] Underfull \hbox (badness 10000) detected at line 370 [][][] Underfull \hbox (badness 10000) detected at line 378 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] Underfull \hbox (badness 10000) detected at line 428 [][][] [156] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 469 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 494 [][][] [157] Underfull \hbox (badness 10000) detected at line 518 [][][] Underfull \hbox (badness 10000) detected at line 542 [][][] Underfull \hbox (badness 10000) detected at line 566 [][][] [158] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 614 [][][] Underfull \hbox (badness 10000) detected at line 638 [][][] [159] Underfull \hbox (badness 10000) detected at line 662 [][][] ) (./group___vcap.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [160] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [161] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] ) (./group___vclist.tex [162] [163] Underfull \hbox (badness 10000) detected at line 126 [][][] [164] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] Underfull \hbox (badness 10000) detected at line 191 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] [165] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 275 [][][] [166] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [167] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 423 [][][] [168]) (./group___vgreen.tex [169] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [170] Underfull \hbox (badness 10000) detected at line 141 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] [171] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] [172] Underfull \hbox (badness 10000) detected at line 215 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] [173] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 334 [][][] [174] Underfull \hbox (badness 10000) detected at line 351 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] [175] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 429 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] [176] Underfull \hbox (badness 10000) detected at line 471 [][][] Underfull \hbox (badness 10000) detected at line 476 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] Underfull \hbox (badness 10000) detected at line 517 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] ) (./group___vhal.tex [177] [178] [179] [180] [181] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 421 [][][] Underfull \hbox (badness 10000) detected at line 438 [][][] Underfull \hbox (badness 10000) detected at line 455 [][][] [182] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Underfull \hbox (badness 10000) detected at line 526 [][][] Underfull \hbox (badness 10000) detected at line 567 [][][] [183] [184] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 819 [][][] [185] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] [186] Underfull \hbox (badness 10000) detected at line 932 [][][] Missing character: There is no Å in font cmr10! Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 58. Missing character: There is no Å in font cmr10! [187] [188] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1112 [][][] Underfull \hbox (badness 10000) detected at line 1140 [][][] Underfull \hbox (badness 10000) detected at line 1143 [][][] [189] Underfull \hbox (badness 10000) detected at line 1160 [][][] ) (./group___vmatrix.tex) (./group___vparam.tex [190] [191] [192] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] Underfull \hbox (badness 10000) detected at line 206 [][][] [193] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 274 [][][] Underfull \hbox (badness 10000) detected at line 282 [][][] [194] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 343 [][][] Underfull \hbox (badness 10000) detected at line 346 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] [195] Underfull \hbox (badness 10000) detected at line 371 [][][] Underfull \hbox (badness 10000) detected at line 388 [][][] Underfull \hbox (badness 10000) detected at line 410 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] [196] Underfull \hbox (badness 10000) detected at line 444 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 467 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 480 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] [197] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [198] Underfull \hbox (badness 10000) detected at line 571 [][][] Underfull \hbox (badness 10000) detected at line 587 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 628 [][][] [199] Underfull \hbox (badness 10000) detected at line 636 [][][] Underfull \hbox (badness 10000) detected at line 653 [][][] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 680 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] [200]) (./group___vpbe.tex [201] [202] [203] Underfull \hbox (badness 10000) detected at line 128 [][][] Underfull \hbox (badness 10000) detected at line 131 [][][] LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 136 [][][] [204] Underfull \hbox (badness 10000) detected at line 186 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 195 [][][] [205] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 291 [][][] [206] Underfull \hbox (badness 10000) detected at line 299 [][][] Overfull \hbox (151.96916pt too wide) in paragraph at lines 318--318 [] \T1/p cr/m/n/8 permittivity equal to the protein interior) and zero ionic[] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 333 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 358 [][][] Underfull \hbox (badness 10000) detected at line 375 [][][] [207] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 396 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] [208] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 478 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] [209] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 550 [][][] Underfull \hbox (badness 10000) detected at line 558 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] [210] Underfull \hbox (badness 10000) detected at line 600 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 633 [][][] Underfull \hbox (badness 10000) detected at line 650 [][][] Underfull \hbox (badness 10000) detected at line 658 [][][] [211] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 683 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 708 [][][] Underfull \hbox (badness 10000) detected at line 725 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] [212] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 775 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Underfull \hbox (badness 10000) detected at line 800 [][][] Underfull \hbox (badness 10000) detected at line 808 [][][] [213] Underfull \hbox (badness 10000) detected at line 825 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] LaTeX Warning: Command \r invalid in math mode on input line 859. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 883 [][][] [214] Underfull \hbox (badness 10000) detected at line 900 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] ) (./group___vstring.tex [215] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [216] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] ) (./group___vunit.tex [217] LaTeX Warning: Command \r invalid in math mode on input line 39. Missing character: There is no Å in font cmr9! [218] LaTeX Warning: Command \r invalid in math mode on input line 142. Missing character: There is no Å in font cmr10! [219]) (./group___vgrid.tex [220] [221] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 151 [][][] [222] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [223] Underfull \hbox (badness 10000) detected at line 229 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 290 [][][] [224] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 319 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [225] Underfull \hbox (badness 10000) detected at line 369 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] [226] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 470 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [227] Underfull \hbox (badness 10000) detected at line 489 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 528 [][][] Underfull \hbox (badness 10000) detected at line 531 [][][] [228] Underfull \hbox (badness 10000) detected at line 548 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] Underfull \hbox (badness 10000) detected at line 600 [][][] [229] Underfull \hbox (badness 10000) detected at line 612 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [230] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] ) (./group___vmgrid.tex [231] [232] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 135 [][][] [233] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 160 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] [234] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 264 [][][] [235] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 300 [][][] Underfull \hbox (badness 10000) detected at line 312 [][][] Underfull \hbox (badness 10000) detected at line 329 [][][] [236] Underfull \hbox (badness 10000) detected at line 341 [][][] ) (./group___vopot.tex [237] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [238] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 137 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 170 [][][] [239] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 214 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] Underfull \hbox (badness 10000) detected at line 243 [][][] [240] Underfull \hbox (badness 10000) detected at line 255 [][][] ) (./group___vpmg.tex [241] [242] [243] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] [244] Underfull \hbox (badness 10000) detected at line 186 [][][] [245] Underfull \hbox (badness 10000) detected at line 234 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.409 on input line 261. Underfull \hbox (badness 10000) detected at line 276 [][][] [246] Package longtable Warning: Column widths have changed (longtable) in table 7.410 on input line 309. Underfull \hbox (badness 10000) detected at line 324 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.411 on input line 347. [247] Underfull \hbox (badness 10000) detected at line 362 [][][] Underfull \hbox (badness 10000) detected at line 381 [][][] Underfull \hbox (badness 10000) detected at line 384 [][][] [248] Underfull \hbox (badness 10000) detected at line 416 [][][] Underfull \hbox (badness 10000) detected at line 419 [][][] Underfull \hbox (badness 10000) detected at line 422 [][][] [249] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] [250] Underfull \hbox (badness 10000) detected at line 520 [][][] Underfull \hbox (badness 10000) detected at line 546 [][][] [251] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 610 [][][] [252] Underfull \hbox (badness 10000) detected at line 643 [][][] Underfull \hbox (badness 10000) detected at line 646 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] Underfull \hbox (badness 10000) detected at line 690 [][][] Underfull \hbox (badness 10000) detected at line 712 [][][] [253] Underfull \hbox (badness 10000) detected at line 715 [][][] Underfull \hbox (badness 10000) detected at line 718 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 764 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] [254] Underfull \hbox (badness 10000) detected at line 799 [][][] Underfull \hbox (badness 10000) detected at line 802 [][][] [255] Underfull \hbox (badness 10000) detected at line 856 [][][] Underfull \hbox (badness 10000) detected at line 859 [][][] Underfull \hbox (badness 10000) detected at line 864 [][][] [256] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 920 [][][] Underfull \hbox (badness 10000) detected at line 923 [][][] Underfull \hbox (badness 10000) detected at line 928 [][][] [257] Underfull \hbox (badness 10000) detected at line 956 [][][] Underfull \hbox (badness 10000) detected at line 982 [][][] [258] Underfull \hbox (badness 10000) detected at line 1008 [][][] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1055 [][][] [259] Underfull \hbox (badness 10000) detected at line 1093 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] Underfull \hbox (badness 10000) detected at line 1099 [][][] [260] Underfull \hbox (badness 10000) detected at line 1123 [][][] Underfull \hbox (badness 10000) detected at line 1160 [][][] Underfull \hbox (badness 10000) detected at line 1163 [][][] Underfull \hbox (badness 10000) detected at line 1166 [][][] [261] Underfull \hbox (badness 10000) detected at line 1190 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1198 [][][] Underfull \hbox (badness 10000) detected at line 1226 [][][] [262] Underfull \hbox (badness 10000) detected at line 1252 [][][] Underfull \hbox (badness 10000) detected at line 1280 [][][] Underfull \hbox (badness 10000) detected at line 1283 [][][] [263] Underfull \hbox (badness 10000) detected at line 1303 [][][] Underfull \hbox (badness 10000) detected at line 1343 [][][] Underfull \hbox (badness 10000) detected at line 1346 [][][] Underfull \hbox (badness 10000) detected at line 1349 [][][] [264] Underfull \hbox (badness 10000) detected at line 1373 [][][] Underfull \hbox (badness 10000) detected at line 1401 [][][] Underfull \hbox (badness 10000) detected at line 1404 [][][] [265] Underfull \hbox (badness 10000) detected at line 1426 [][][] Underfull \hbox (badness 10000) detected at line 1429 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] ) (./group___vpmgp.tex [266] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] [267] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 130 [][][] Underfull \hbox (badness 10000) detected at line 152 [][][] [268] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] ) (./group___p_m_g_c.tex [269] [270] [271] [272] [273] Underfull \hbox (badness 10000) detected at line 155 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 170--170 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [274] Underfull \hbox (badness 10000) detected at line 217 [][][] Underfull \hbox (badness 10000) detected at line 220 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 232--232 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [275] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 313 [][][] Underfull \hbox (badness 10000) detected at line 316 [][][] [276] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [277] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 400 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 409--409 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 444 [][][] [278] Package longtable Warning: Column widths have changed (longtable) in table 7.456 on input line 493. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] [279] Overfull \hbox (304.08286pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 561 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 573--573 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [280] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 611 [][][] [281] Underfull \hbox (badness 10000) detected at line 651 [][][] Underfull \hbox (badness 10000) detected at line 654 [][][] [282] Underfull \hbox (badness 10000) detected at line 724 [][][] Underfull \hbox (badness 10000) detected at line 727 [][][] [283] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 780 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 793--793 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [284] Underfull \hbox (badness 10000) detected at line 830 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 842--842 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Package longtable Warning: Column widths have changed (longtable) in table 7.460 on input line 897. [285] [286] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 915 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.461 on input line 1040. [287] [288] [289] Underfull \hbox (badness 10000) detected at line 1055 [][][] Underfull \hbox (badness 10000) detected at line 1058 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.462 on input line 1219. [290] [291] [292] Underfull \hbox (badness 10000) detected at line 1234 [][][] Underfull \hbox (badness 10000) detected at line 1237 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.463 on input line 1372. [293] [294] Underfull \hbox (badness 10000) detected at line 1387 [][][] Underfull \hbox (badness 10000) detected at line 1390 [][][] Underfull \hbox (badness 10000) detected at line 1393 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.464 on input line 1436. [295] Underfull \hbox (badness 10000) detected at line 1451 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1467--1467 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [296] Underfull \hbox (badness 10000) detected at line 1504 [][][] Underfull \hbox (badness 10000) detected at line 1507 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.465 on input line 1572. [297] Underfull \hbox (badness 10000) detected at line 1587 [][][] Underfull \hbox (badness 10000) detected at line 1590 [][][] Underfull \hbox (badness 10000) detected at line 1593 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1603--1603 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [298] Underfull \hbox (badness 10000) detected at line 1640 [][][] Underfull \hbox (badness 10000) detected at line 1643 [][][] Underfull \hbox (badness 10000) detected at line 1646 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1655--1655 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [299] Package longtable Warning: Column widths have changed (longtable) in table 7.466 on input line 1718. Underfull \hbox (badness 10000) detected at line 1733 [][][] Underfull \hbox (badness 10000) detected at line 1738 [][][] Underfull \hbox (badness 10000) detected at line 1741 [][][] [300] Underfull \hbox (badness 10000) detected at line 1771 [][][] Underfull \hbox (badness 10000) detected at line 1774 [][][] [301] Underfull \hbox (badness 10000) detected at line 1808 [][][] Underfull \hbox (badness 10000) detected at line 1811 [][][] Underfull \hbox (badness 10000) detected at line 1845 [][][] Underfull \hbox (badness 10000) detected at line 1848 [][][] [302] Underfull \hbox (badness 10000) detected at line 1882 [][][] Underfull \hbox (badness 10000) detected at line 1885 [][][] Underfull \hbox (badness 10000) detected at line 1888 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1898--1898 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [303] Underfull \hbox (badness 10000) detected at line 1935 [][][] Underfull \hbox (badness 10000) detected at line 1938 [][][] Underfull \hbox (badness 10000) detected at line 1941 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1950--1950 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [304] Package longtable Warning: Column widths have changed (longtable) in table 7.471 on input line 2021. Underfull \hbox (badness 10000) detected at line 2036 [][][] Underfull \hbox (badness 10000) detected at line 2039 [][][] [305] Underfull \hbox (badness 10000) detected at line 2073 [][][] Underfull \hbox (badness 10000) detected at line 2076 [][][] Underfull \hbox (badness 10000) detected at line 2079 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2089--2089 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [306] Underfull \hbox (badness 10000) detected at line 2126 [][][] Underfull \hbox (badness 10000) detected at line 2129 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2138--2138 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 2173 [][][] Underfull \hbox (badness 10000) detected at line 2176 [][][] [307] Underfull \hbox (badness 10000) detected at line 2208 [][][] Underfull \hbox (badness 10000) detected at line 2211 [][][] [308] Underfull \hbox (badness 10000) detected at line 2247 [][][] Underfull \hbox (badness 10000) detected at line 2250 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.475 on input line 2271. Underfull \hbox (badness 10000) detected at line 2286 [][][] Underfull \hbox (badness 10000) detected at line 2289 [][][] [309] Underfull \hbox (badness 10000) detected at line 2317 [][][] Underfull \hbox (badness 10000) detected at line 2320 [][][] Underfull \hbox (badness 10000) detected at line 2323 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2333--2333 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [310] Underfull \hbox (badness 10000) detected at line 2370 [][][] Underfull \hbox (badness 10000) detected at line 2373 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2382--2382 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [311] Underfull \hbox (badness 10000) detected at line 2417 [][][] Underfull \hbox (badness 10000) detected at line 2420 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.477 on input line 2491. [312] Underfull \hbox (badness 10000) detected at line 2506 [][][] Underfull \hbox (badness 10000) detected at line 2509 [][][] Underfull \hbox (badness 10000) detected at line 2512 [][][] [313] Underfull \hbox (badness 10000) detected at line 2560 [][][] Underfull \hbox (badness 10000) detected at line 2563 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2572--2572 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [314] Underfull \hbox (badness 10000) detected at line 2607 [][][] Underfull \hbox (badness 10000) detected at line 2610 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.478 on input line 2685. [315] Underfull \hbox (badness 10000) detected at line 2700 [][][] Underfull \hbox (badness 10000) detected at line 2703 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.479 on input line 2734. [316] Underfull \hbox (badness 10000) detected at line 2749 [][][] Underfull \hbox (badness 10000) detected at line 2752 [][][] Underfull \hbox (badness 10000) detected at line 2755 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2765--2765 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [317] Underfull \hbox (badness 10000) detected at line 2802 [][][] Underfull \hbox (badness 10000) detected at line 2805 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2814--2814 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [318] Underfull \hbox (badness 10000) detected at line 2849 [][][] Underfull \hbox (badness 10000) detected at line 2852 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.480 on input line 2893. [319] Underfull \hbox (badness 10000) detected at line 2908 [][][] Underfull \hbox (badness 10000) detected at line 2911 [][][] [320] Underfull \hbox (badness 10000) detected at line 2949 [][][] Underfull \hbox (badness 10000) detected at line 2960 [][][] Underfull \hbox (badness 10000) detected at line 2963 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.482 on input line 3034. [321] Underfull \hbox (badness 10000) detected at line 3049 [][][] Underfull \hbox (badness 10000) detected at line 3052 [][][] Underfull \hbox (badness 10000) detected at line 3055 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [322] Underfull \hbox (badness 10000) detected at line 3102 [][][] Underfull \hbox (badness 10000) detected at line 3105 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3114--3114 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [323] Underfull \hbox (badness 10000) detected at line 3149 [][][] Underfull \hbox (badness 10000) detected at line 3152 [][][] Underfull \hbox (badness 10000) detected at line 3190 [][][] [324] Underfull \hbox (badness 10000) detected at line 3193 [][][] Underfull \hbox (badness 10000) detected at line 3196 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3206--3206 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3243 [][][] Underfull \hbox (badness 10000) detected at line 3246 [][][] Underfull \hbox (badness 10000) detected at line 3249 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3258--3258 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [325] Underfull \hbox (badness 10000) detected at line 3291 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.484 on input line 3330. [326] Underfull \hbox (badness 10000) detected at line 3345 [][][] [327] Package longtable Warning: Column widths have changed (longtable) in table 7.485 on input line 3427. [328] [329] Underfull \hbox (badness 10000) detected at line 3501 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.486 on input line 3544. [330] Underfull \hbox (badness 10000) detected at line 3559 [][][] Underfull \hbox (badness 10000) detected at line 3562 [][][] [331] Underfull \hbox (badness 10000) detected at line 3602 [][][] Underfull \hbox (badness 10000) detected at line 3605 [][][] Underfull \hbox (badness 10000) detected at line 3608 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3618--3618 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [332] Underfull \hbox (badness 10000) detected at line 3655 [][][] Underfull \hbox (badness 10000) detected at line 3658 [][][] Underfull \hbox (badness 10000) detected at line 3661 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3670--3670 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [333] Underfull \hbox (badness 10000) detected at line 3719 [][][] Underfull \hbox (badness 10000) detected at line 3722 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.488 on input line 3791. [334] Underfull \hbox (badness 10000) detected at line 3806 [][][] Underfull \hbox (badness 10000) detected at line 3809 [][][] [335] Package longtable Warning: Column widths have changed (longtable) in table 7.489 on input line 3892. Underfull \hbox (badness 10000) detected at line 3907 [][][] [336] Underfull \hbox (badness 10000) detected at line 3910 [][][] Underfull \hbox (badness 10000) detected at line 3913 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3923--3923 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3960 [][][] Underfull \hbox (badness 10000) detected at line 3963 [][][] [337] Underfull \hbox (badness 10000) detected at line 3989 [][][] Underfull \hbox (badness 10000) detected at line 3992 [][][] Underfull \hbox (badness 10000) detected at line 4018 [][][] Underfull \hbox (badness 10000) detected at line 4021 [][][] [338] Underfull \hbox (badness 10000) detected at line 4051 [][][] Underfull \hbox (badness 10000) detected at line 4054 [][][] Underfull \hbox (badness 10000) detected at line 4057 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4067--4067 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [339] Underfull \hbox (badness 10000) detected at line 4104 [][][] Underfull \hbox (badness 10000) detected at line 4107 [][][] Underfull \hbox (badness 10000) detected at line 4110 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4119--4119 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [340] Underfull \hbox (badness 10000) detected at line 4154 [][][] Underfull \hbox (badness 10000) detected at line 4157 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.493 on input line 4196. [341] Underfull \hbox (badness 10000) detected at line 4211 [][][] Underfull \hbox (badness 10000) detected at line 4239 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.494 on input line 4298. [342] [343] Underfull \hbox (badness 10000) detected at line 4313 [][][] Underfull \hbox (badness 10000) detected at line 4316 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.495 on input line 4391. [344] Underfull \hbox (badness 10000) detected at line 4406 [][][] Underfull \hbox (badness 10000) detected at line 4409 [][][] [345] Underfull \hbox (badness 10000) detected at line 4449 [][][] Underfull \hbox (badness 10000) detected at line 4452 [][][] [346] Underfull \hbox (badness 10000) detected at line 4494 [][][] Underfull \hbox (badness 10000) detected at line 4497 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.498 on input line 4540. [347] Underfull \hbox (badness 10000) detected at line 4555 [][][] Underfull \hbox (badness 10000) detected at line 4558 [][][] Underfull \hbox (badness 10000) detected at line 4561 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4571--4571 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [348] Underfull \hbox (badness 10000) detected at line 4608 [][][] Underfull \hbox (badness 10000) detected at line 4611 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4620--4620 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4653 [][][] Underfull \hbox (badness 10000) detected at line 4656 [][][] Underfull \hbox (badness 10000) detected at line 4659 [][][] [349] Package longtable Warning: Column widths have changed (longtable) in table 7.499 on input line 4704. Underfull \hbox (badness 10000) detected at line 4715 [][][] Underfull \hbox (badness 10000) detected at line 4718 [][][] [350] Underfull \hbox (badness 10000) detected at line 4750 [][][] Underfull \hbox (badness 10000) detected at line 4753 [][][] [351] Underfull \hbox (badness 10000) detected at line 4791 [][][] Underfull \hbox (badness 10000) detected at line 4794 [][][] Underfull \hbox (badness 10000) detected at line 4797 [][][] Overfull \hbox (20.88268pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute,[] Underfull \hbox (badness 10000) detected at line 4845 [][][] [352] Underfull \hbox (badness 10000) detected at line 4848 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4892 [][][] Underfull \hbox (badness 10000) detected at line 4895 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.502 on input line 4938. [353] Underfull \hbox (badness 10000) detected at line 4953 [][][] Underfull \hbox (badness 10000) detected at line 4956 [][][] [354] Underfull \hbox (badness 10000) detected at line 4988 [][][] Underfull \hbox (badness 10000) detected at line 4991 [][][] Underfull \hbox (badness 10000) detected at line 4994 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 5004--5004 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 5041 [][][] Underfull \hbox (badness 10000) detected at line 5044 [][][] Underfull \hbox (badness 10000) detected at line 5047 [][][] [355] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 5056--5056 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 5091 [][][] Underfull \hbox (badness 10000) detected at line 5094 [][][] [356] Underfull \hbox (badness 10000) detected at line 5124 [][][] Underfull \hbox (badness 10000) detected at line 5127 [][][] Underfull \hbox (badness 10000) detected at line 5130 [][][] Underfull \hbox (badness 10000) detected at line 5160 [][][] Underfull \hbox (badness 10000) detected at line 5163 [][][] [357] Underfull \hbox (badness 10000) detected at line 5193 [][][] Underfull \hbox (badness 10000) detected at line 5196 [][][] Underfull \hbox (badness 10000) detected at line 5226 [][][] Underfull \hbox (badness 10000) detected at line 5229 [][][] [358] Underfull \hbox (badness 10000) detected at line 5257 [][][] Underfull \hbox (badness 10000) detected at line 5260 [][][] Underfull \hbox (badness 10000) detected at line 5288 [][][] Underfull \hbox (badness 10000) detected at line 5291 [][][] [359]) (./group___frontend.tex Underfull \hbox (badness 2495) in paragraph at lines 32--33 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Overfull \hbox (16.65858pt too wide) in paragraph at lines 40--41 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 42--43 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], [360] Underfull \hbox (badness 1910) in paragraph at lines 60--61 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 60--61 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 5817) in paragraph at lines 78--79 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 80--81 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [361] [362] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] [363] Underfull \hbox (badness 10000) detected at line 211 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] [364] Underfull \hbox (badness 10000) detected at line 275 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] [365] Underfull \hbox (badness 10000) detected at line 314 [][][] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 351 [][][] [366] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 393 [][][] [367] Underfull \hbox (badness 10000) detected at line 495 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [368] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] [369] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] [370] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 720 [][][] [371] Underfull \hbox (badness 10000) detected at line 748 [][][] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 792 [][][] [372] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 842 [][][] Underfull \hbox (badness 10000) detected at line 866 [][][] Underfull \hbox (badness 10000) detected at line 876 [][][] [373] Underfull \hbox (badness 10000) detected at line 895 [][][] Underfull \hbox (badness 10000) detected at line 909 [][][] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] Underfull \hbox (badness 10000) detected at line 939 [][][] [374] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 961 [][][] Underfull \hbox (badness 10000) detected at line 981 [][][] Underfull \hbox (badness 10000) detected at line 984 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] Underfull \hbox (badness 10000) detected at line 1013 [][][] [375] Underfull \hbox (badness 10000) detected at line 1035 [][][] Underfull \hbox (badness 10000) detected at line 1045 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1067 [][][] [376] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1105 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] Underfull \hbox (badness 10000) in paragraph at lines 1135--1136 Underfull \hbox (badness 10000) detected at line 1138 [][][] [377] Underfull \hbox (badness 10000) detected at line 1166 [][][] Underfull \hbox (badness 10000) detected at line 1180 [][][] Underfull \hbox (badness 10000) detected at line 1201 [][][] Underfull \hbox (badness 10000) detected at line 1204 [][][] [378] Underfull \hbox (badness 10000) detected at line 1228 [][][] Underfull \hbox (badness 10000) detected at line 1231 [][][] Underfull \hbox (badness 10000) detected at line 1259 [][][] Underfull \hbox (badness 10000) detected at line 1262 [][][] [379] Underfull \hbox (badness 10000) detected at line 1288 [][][] Underfull \hbox (badness 10000) detected at line 1291 [][][] Underfull \hbox (badness 10000) detected at line 1319 [][][] Underfull \hbox (badness 10000) detected at line 1322 [][][] [380] Underfull \hbox (badness 10000) detected at line 1348 [][][] Underfull \hbox (badness 10000) detected at line 1377 [][][] Underfull \hbox (badness 10000) detected at line 1380 [][][] [381] Underfull \hbox (badness 10000) detected at line 1408 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1468 [][][] [382] Underfull \hbox (badness 10000) detected at line 1485 [][][] Underfull \hbox (badness 10000) detected at line 1497 [][][] Underfull \hbox (badness 10000) detected at line 1514 [][][] Underfull \hbox (badness 10000) detected at line 1528 [][][] [383] Underfull \hbox (badness 10000) detected at line 1562 [][][] Underfull \hbox (badness 10000) detected at line 1574 [][][] Underfull \hbox (badness 10000) detected at line 1591 [][][] Underfull \hbox (badness 10000) detected at line 1608 [][][] [384] Underfull \hbox (badness 10000) detected at line 1636 [][][] Underfull \hbox (badness 10000) detected at line 1650 [][][] [385] Underfull \hbox (badness 10000) detected at line 1688 [][][] Underfull \hbox (badness 10000) detected at line 1716 [][][] Underfull \hbox (badness 10000) detected at line 1733 [][][] [386] Underfull \hbox (badness 10000) detected at line 1747 [][][] Underfull \hbox (badness 10000) detected at line 1764 [][][] Underfull \hbox (badness 10000) detected at line 1792 [][][] [387] Underfull \hbox (badness 10000) detected at line 1809 [][][] Underfull \hbox (badness 10000) detected at line 1823 [][][] ) [388] Chapter 8. (./struct_atom_force.tex Underfull \hbox (badness 10000) detected at line 32 [][][] [389]) (./structs_a_p_o_lparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/apolparm.[] [390] Underfull \hbox (badness 10000) detected at line 88 [][][] [391] Underfull \hbox (badness 10000) detected at line 224 [][][] [392] Underfull \hbox (badness 10000) detected at line 237 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 263 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] Underfull \hbox (badness 10000) detected at line 289 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] [393] Underfull \hbox (badness 10000) detected at line 315 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 354 [][][] Underfull \hbox (badness 10000) detected at line 367 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [394]) (./structs_b_e_mparm.tex [395] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/bemparm.[] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [396] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 155 [][][] [397] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] ) (./structs_f_e_mparm.tex Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/femparm.[] [398] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) in paragraph at lines 84--85 [399] [400] [401]) (./structs_g_e_o_f_l_o_wparm.tex Overfull \hbox (42.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/geoflowparm.[] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [402]) (./structs_m_gparm.tex [403] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] [404] Underfull \hbox (badness 10000) in paragraph at lines 149--150 Underfull \hbox (badness 10000) in paragraph at lines 180--181 [405] Underfull \hbox (badness 10000) in paragraph at lines 261--262 [406] [407] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 460 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [408] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] [409] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [410] Underfull \hbox (badness 10000) detected at line 642 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] ) (./structs_n_osh.tex [411] Underfull \hbox (badness 10000) detected at line 108 [][][] [412] [413] [414] [415] [416] [417]) (./structs_n_osh__calc.tex Underfull \hbox (badness 10000) detected at line 38 [][][] [418]) (./structs_p_b_a_mparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbamparm.[] [419] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] [420] [421] [422] [423]) (./structs_p_b_eparm.tex [424] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbeparm.[] [425] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] [426] [427] [428] Underfull \hbox (badness 10000) detected at line 391 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Underfull \hbox (badness 10000) detected at line 430 [][][] [429] Underfull \hbox (badness 10000) detected at line 473 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] [430] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] [431] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [432] [433]) (./structs_p_b_s_a_mparm.tex Overfull \hbox (30.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbsamparm.[] [434] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [435]) (./structs_vacc.tex [436] Underfull \hbox (badness 10000) detected at line 36 [][][] [437]) (./structs_vacc_surf.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [438]) (./structs_valist.tex [439] Underfull \hbox (badness 10000) detected at line 36 [][][] [440]) (./structs_vatom.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [441] Underfull \hbox (badness 10000) in paragraph at lines 62--63 Underfull \hbox (badness 10000) in paragraph at lines 93--94 Underfull \hbox (badness 10000) in paragraph at lines 114--115 ) (./structs_vclist.tex [442] Underfull \hbox (badness 10000) detected at line 40 [][][] [443]) (./structs_vclist_cell.tex [444] Underfull \hbox (badness 10000) detected at line 24 [][][] ) (./structs_vcsm.tex Underfull \hbox (badness 10000) detected at line 42 [][][] [445] [446]) (./structs_vfetk.tex Underfull \hbox (badness 10000) detected at line 60 [][][] [447] Underfull \hbox (badness 10000) in paragraph at lines 116--117 [448] [449]) (./structs_vfetk___local_var.tex [450] Underfull \hbox (badness 10000) detected at line 86 [][][] [451] [452] [453]) (./structs_vgreen.tex [454] Underfull \hbox (badness 10000) detected at line 34 [][][] [455]) (./structs_vgrid.tex Underfull \hbox (badness 10000) detected at line 52 [][][] [456] [457]) (./structs_vmgrid.tex Underfull \hbox (badness 10000) detected at line 24 [][][] [458]) (./structs_vopot.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [459]) (./structs_vparam___atom_data.tex Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [460]) (./structs_vpbe.tex [461] Underfull \hbox (badness 10000) detected at line 86 [][][] [462] [463] [464]) (./structs_vpee.tex [465] Underfull \hbox (badness 10000) detected at line 34 [][][] [466]) (./structs_vpmg.tex [467] Underfull \hbox (badness 10000) detected at line 116 [][][] [468] [469] [470] [471] [472]) (./structs_vpmgp.tex [473] [474] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) in paragraph at lines 164--165 Underfull \hbox (badness 10000) in paragraph at lines 175--176 Underfull \hbox (badness 10000) in paragraph at lines 186--187 [475] Underfull \hbox (badness 10000) in paragraph at lines 234--235 [476] [477] [478] [479] Underfull \hbox (badness 10000) in paragraph at lines 506--507 [480] Underfull \hbox (badness 10000) in paragraph at lines 527--528 Underfull \hbox (badness 10000) in paragraph at lines 548--549 Underfull \hbox (badness 10000) in paragraph at lines 589--590 [481] Underfull \hbox (badness 10000) in paragraph at lines 630--631 Underfull \hbox (badness 10000) in paragraph at lines 671--672 [482]) (./struct_vparam.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [483]) (./struct_vparam___res_data.tex Underfull \hbox (badness 10000) detected at line 28 [][][] [484]) [485] [486] Chapter 9. (./mainpage_8h_source.tex) (./apbs_8h.tex <./apbs_8h__incl.pdf> <./apbs_8h__dep __incl.pdf> [487] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [488]) (./apbs_8h_source.tex) (./vcsm_8c.tex [489] <./vcsm_8c__incl.pdf> [490] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] Underfull \hbox (badness 10000) detected at line 59 [][][] [491]) (./vcsm_8c_source.tex [492] [493] [494] [495] [496] [497]) (./vcsm_8h.tex <./vcsm_8h__incl.pdf> <./vcsm_8h__dep__incl.pdf> [498] [499] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] [500]) (./vcsm_8h_source.tex [501]) (./vfetk_8c.tex [502] <./vfetk_8c__incl.pdf > [503] [504] Underfull \hbox (badness 10000) detected at line 163 [][][] Underfull \hbox (badness 10000) detected at line 166 [][][] [505] Underfull \hbox (badness 10000) detected at line 169 [][][] [506] [507] [508] [509]) (./vfetk_8c_source.tex [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539]) (./vfetk_8h.tex [540] <./vfetk_8h__incl.pdf> <./vfetk_8h__dep__inc l.pdf> [541] [542] [543] Underfull \hbox (badness 10000) detected at line 189 [][][] [544] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 195 [][][] ) (./vfetk_8h_source.tex [545] [546] [547] [548] [549] [550]) (./vpee_8c.tex <. /vpee_8c__incl.pdf> [551] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] [552]) (./vpee_8c_source.tex [553] [554] [555] [556] [557] [558]) (./vpee_8h.tex <./vpee_8h__incl.pdf> [559] <./vpee_8h__dep__incl.pdf> [560] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] Underfull \hbox (badness 10000) detected at line 63 [][][] [561]) (./vpee_8h_source.tex [562]) (./apolparm_8c.tex <./apolparm_8c__incl.pdf > [563] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] [564] [565]) (./apolparm_8c_source.tex [566] [567] [568] [569] [570] [571] [572] [573]) (./apolparm_8h_source.tex [574]) (./bemparm_8c.tex <./bemparm_8c__ incl.pdf> [575] [576] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [577] Underfull \hbox (badness 10000) detected at line 121 [][][] ) (./bemparm_8c_source.tex [578] [579] [580] [581]) (./bemparm_8h_source.tex [582]) (./femparm_8c.tex <./femparm_8c__incl.pdf> [583] [584] Underfull \hbox (badness 10000) detected at line 59 [][][] Underfull \hbox (badness 10000) detected at line 62 [][][] Underfull \hbox (badness 10000) detected at line 65 [][][] [585] [586]) (./femparm_8c_source.tex [587] [588] [589] [590] [591]) (./femparm_8h.tex <./femparm_8h__incl.pdf> [592] <./femparm_8h__dep__incl.pdf> [593] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [594] Underfull \hbox (badness 10000) detected at line 95 [][][] ) (./femparm_8h_source.tex [595]) (./geoflowparm_8c.tex <./geoflowparm_8c__incl .pdf> [596] [597] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [598]) (./geoflowparm_8c_source.tex [599] [600]) (./geoflowparm_8h.tex <./geofl owparm_8h__incl.pdf> [601] <./geoflowparm_8h__dep__incl.pdf> [602] [603] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [604]) (./geoflowparm_8h_source.tex [605]) (./mgparm_8c.tex <./mgparm_8c__incl. pdf> [606] [607] Underfull \hbox (badness 10000) detected at line 95 [][][] Underfull \hbox (badness 10000) detected at line 98 [][][] Underfull \hbox (badness 10000) detected at line 101 [][][] [608] [609]) (./mgparm_8c_source.tex [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621]) (./mgparm_8h.tex <./mgparm_8h__incl.pdf> [622] <./mgparm_8h__dep__incl.pdf> [623] [624] Underfull \hbox (badness 10000) detected at line 104 [][][] Underfull \hbox (badness 10000) detected at line 107 [][][] Underfull \hbox (badness 10000) detected at line 110 [][][] [625]) (./mgparm_8h_source.tex [626]) (./nosh_8c.tex <./nosh_8c__incl.pdf> [627] [628] [629] Underfull \hbox (badness 10000) detected at line 151 [][][] Underfull \hbox (badness 10000) detected at line 154 [][][] Underfull \hbox (badness 10000) detected at line 157 [][][] [630] [631] [632] [633] [634]) (./nosh_8c_source.tex [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] [666] [667] [668] [669] [670] [671] [672] [673] [674]) (./nosh_8h.tex <./nosh_8h__incl.pdf> [675] <./nosh_8h__dep__incl.pdf> [676] [677] [678] Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] ) (./nosh_8h_source.tex [679] [680] [681]) (./pbamparm_8c.tex <./pbamparm_8c__i ncl.pdf> [682] [683] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [684]) (./pbamparm_8c_source.tex [685] [686] [687] [688] [689] [690] [691] [692] [693]) (./pbamparm_8h.tex <./pbamparm_8h__incl.pdf> <./pbamparm_8h__dep__ incl.pdf> [694] [695] Underfull \hbox (badness 10000) detected at line 102 [][][] [696] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 108 [][][] [697]) (./pbamparm_8h_source.tex [698]) (./pbeparm_8c.tex [699] <./pbeparm_8c__ incl.pdf> [700] Underfull \hbox (badness 10000) detected at line 101 [][][] Underfull \hbox (badness 10000) detected at line 104 [][][] Underfull \hbox (badness 10000) detected at line 107 [][][] [701] [702] [703] [704] [705]) (./pbeparm_8c_source.tex [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720]) (./pbeparm_8h.tex <./pbeparm_8h__incl.pdf> [721] <./pbeparm_8h__dep__incl.pdf> [722] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [723]) (./pbeparm_8h_source.tex [724] [725]) (./pbsamparm_8c.tex <./pbsamparm_8 c__incl.pdf> [726] [727] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [728]) (./pbsamparm_8c_source.tex [729] [730]) (./pbsamparm_8h.tex [731] <./pbs amparm_8h__incl.pdf> <./pbsamparm_8h__dep__incl.pdf> [732] [733] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [734]) (./pbsamparm_8h_source.tex [735]) (./vacc_8c.tex <./vacc_8c__incl.pdf> [736] [737] [738] Underfull \hbox (badness 10000) detected at line 107 [][][] Underfull \hbox (badness 10000) detected at line 110 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] [739] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] Underfull \hbox (badness 10000) detected at line 211 [][][] [740] [741]) (./vacc_8c_source.tex [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764]) (./vacc_8h.tex <./vacc_8h__incl.pdf> <./vacc_8h__dep__ incl.pdf> [765] [766] [767] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] [768]) (./vacc_8h_source.tex [769] [770] [771]) (./valist_8c.tex <./valist_8c__ incl.pdf> [772] [773] Underfull \hbox (badness 2293) in paragraph at lines 54--56 []\T1/phv/m/n/10 VPRIVATE Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/ m/n/10 thee, Vio $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 sock, int $\OMS/cmsy/m/n/ 10 ^^C$\T1/phv/m/n/10 serial, char atom[] Underfull \hbox (badness 10000) detected at line 82 [][][] Underfull \hbox (badness 10000) detected at line 85 [][][] Underfull \hbox (badness 10000) detected at line 88 [][][] [774] [775] [776]) (./valist_8c_source.tex [777] [778] [779] [780] [781] [782] [783] [784] [785] [786]) (./valist_8h.tex [787] <./valist_8h__incl.pdf> < ./valist_8h__dep__incl.pdf> [788] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] [789]) (./valist_8h_source.tex [790] [791]) (./vatom_8c.tex <./vatom_8c__incl.p df> [792] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [793]) (./vatom_8c_source.tex [794] [795] [796]) (./vatom_8h.tex <./vatom_8h__i ncl.pdf> [797] <./vatom_8h__dep__incl.pdf> [798] [799] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] ) (./vatom_8h_source.tex [800] [801]) (./vcap_8c.tex <./vcap_8c__incl.pdf> [802] Underfull \hbox (badness 10000) detected at line 31 [][][] Underfull \hbox (badness 10000) detected at line 34 [][][] Underfull \hbox (badness 10000) detected at line 37 [][][] [803]) (./vcap_8c_source.tex [804]) (./vcap_8h.tex <./vcap_8h__incl.pdf> <./vca p_8h__dep__incl.pdf> [805] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] [806] Underfull \hbox (badness 10000) detected at line 53 [][][] ) (./vcap_8h_source.tex [807]) (./vclist_8c.tex <./vclist_8c__incl.pdf> Underfull \hbox (badness 4060) in paragraph at lines 32--34 []\T1/phv/m/n/10 VPRIVATE void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 thee , dou-ble lower[]_[]corner[][][], dou-ble upper[]_[] [808] Underfull \hbox (badness 1297) in paragraph at lines 44--45 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m /n/10 thee, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 alist, dou-ble max[]_[]radi us, int npts[][][], Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] [809] [810]) (./vclist_8c_source.tex [811] [812] [813] [814] [815]) (./vclist_8h.tex [816] <./vclist_8h__incl.pdf> <./vclist_8h__dep__incl.pdf> [817] [818] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [819]) (./vclist_8h_source.tex [820]) (./vgreen_8c.tex <./vgreen_8c__incl.pdf> [821] [822] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] [823]) (./vgreen_8c_source.tex [824] [825] [826] [827] [828] [829]) (./vgreen_8h.tex <./vgreen_8h__incl.pdf> [830] <./vgreen_8h__dep__incl.pdf> [831] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] ) (./vgreen_8h_source.tex [832]) (./vhal_8h.tex [833] <./vhal_8h__incl.pdf> <./ vhal_8h__dep__incl.pdf> [834] [835] [836] [837] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 306 [][][] Underfull \hbox (badness 10000) detected at line 309 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 318--318 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [838] [839] [840] [841] [842] [843] [844]) (./vhal_8h_source.tex [845] [846] [847] [848] [849] [850] [851] [852]) (./vmatrix_8h.tex <./vmatrix_8h__dep__incl .pdf> [853] Underfull \hbox (badness 10000) detected at line 36 [][][] Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] [854] [855]) (./vmatrix_8h_source.tex [856]) (./vparam_8c.tex <./vparam_8c__inc l.pdf> [857] Underfull \hbox (badness 10000) detected at line 78 [][][] [858] Underfull \hbox (badness 10000) detected at line 81 [][][] Underfull \hbox (badness 10000) detected at line 84 [][][] ) (./vparam_8c_source.tex [859] [860] [861] [862] [863] [864] [865] [866]) (./vparam_8h.tex [867] <./vparam_8h__incl.pdf> <./vparam_8h__dep__incl.pdf> [868] [869] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] [870]) (./vparam_8h_source.tex [871]) (./vpbe_8c.tex <./vpbe_8c__incl.pdf> [872] [873] Underfull \hbox (badness 10000) detected at line 90 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] [874]) (./vpbe_8c_source.tex [875] [876] [877] [878] [879] [880]) (./vpbe_8h.tex <./vpbe_8h__incl.pdf> [881] <./vpbe_8h__dep__incl.pdf> [882] [883] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] Underfull \hbox (badness 10000) detected at line 117 [][][] [884]) (./vpbe_8h_source.tex [885] [886]) (./vstring_8c.tex <./vstring_8c__incl .pdf> [887] Underfull \hbox (badness 10000) detected at line 31 [][][] Underfull \hbox (badness 10000) detected at line 34 [][][] Underfull \hbox (badness 10000) detected at line 37 [][][] [888]) (./vstring_8c_source.tex [889] [890]) (./vstring_8h.tex <./vstring_8h__i ncl.pdf> [891] <./vstring_8h__dep__incl.pdf> Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [892] Underfull \hbox (badness 10000) detected at line 47 [][][] ) (./vstring_8h_source.tex [893]) (./vunit_8h.tex <./vunit_8h__dep__incl.pdf> [894] LaTeX Warning: Command \r invalid in math mode on input line 42. Missing character: There is no Å in font cmr9! Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [895]) (./vunit_8h_source.tex) (./main_8c.tex <./main_8c__incl.pdf> [896] Underfull \hbox (badness 10000) detected at line 28 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [897]) (./main_8c_source.tex [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908]) (./vgrid_8c.tex <./vgrid_8c__incl.pdf> [909] [910] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [911] Underfull \hbox (badness 10000) detected at line 174 [][][] [912]) (./vgrid_8c_source.tex [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935]) (./vgrid_8h.tex <./vgrid_8h__incl.pdf> [936] <./vgrid_ 8h__dep__incl.pdf> [937] [938] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] [939] Underfull \hbox (badness 10000) detected at line 165 [][][] ) (./vgrid_8h_source.tex [940] [941]) (./vmgrid_8c.tex <./vmgrid_8c__incl.pdf> [942] [943] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Overfull \hbox (1024.08331pt too wide) in paragraph at lines 59--59 []\T1/pcr/m/n/8 * Copyright (c) 2010, Pacific Northwest National Laboratory. Portions Copyright (c) 2002-2020, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2020, T he Regents of the University of California. Portions Copyright (c) 1995, Michae l Holst.[] ) (./vmgrid_8c_source.tex [944] [945] [946]) (./vmgrid_8h.tex <./vmgrid_8h__inc l.pdf> <./vmgrid_8h__dep__incl.pdf> [947] [948] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [949]) (./vmgrid_8h_source.tex) (./vopot_8c.tex [950] <./vopot_8c__incl.pdf> Underfull \hbox (badness 10000) detected at line 44 [][][] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] [951]) (./vopot_8c_source.tex [952] [953] [954] [955] [956]) (./vopot_8h.tex <. /vopot_8h__incl.pdf> <./vopot_8h__dep__incl.pdf> [957] [958] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] ) (./vopot_8h_source.tex [959]) (./vpmg_8c.tex <./vpmg_8c__incl.pdf> [960] [961] [962] [963] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 176 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [964] Underfull \hbox (badness 10000) detected at line 261 [][][] [965] Underfull \hbox (badness 10000) detected at line 288 [][][] [966] Underfull \hbox (badness 10000) detected at line 384 [][][] Underfull \hbox (badness 10000) detected at line 387 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.7 on input line 394. Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.8 on input line 419. [967] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.9 on input line 444. Underfull \hbox (badness 10000) detected at line 459 [][][] Underfull \hbox (badness 10000) detected at line 462 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.10 on input line 469. Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] [968] Package longtable Warning: Column widths have changed (longtable) in table 9.11 on input line 494. Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.12 on input line 519. Underfull \hbox (badness 10000) detected at line 534 [][][] Underfull \hbox (badness 10000) detected at line 537 [][][] Underfull \hbox (badness 10000) detected at line 554 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] [969] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 591 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 642 [][][] [970] Underfull \hbox (badness 10000) detected at line 659 [][][] Underfull \hbox (badness 10000) detected at line 676 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 717 [][][] [971] Underfull \hbox (badness 10000) detected at line 734 [][][] Underfull \hbox (badness 10000) detected at line 751 [][][] Underfull \hbox (badness 10000) detected at line 768 [][][] Underfull \hbox (badness 10000) detected at line 795 [][][] [972] Underfull \hbox (badness 10000) detected at line 832 [][][] [973] Underfull \hbox (badness 10000) detected at line 876 [][][] [974] Underfull \hbox (badness 10000) detected at line 926 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] [975] Underfull \hbox (badness 10000) detected at line 970 [][][] Underfull \hbox (badness 10000) detected at line 992 [][][] Underfull \hbox (badness 10000) detected at line 995 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1015 [][][] Underfull \hbox (badness 10000) detected at line 1037 [][][] Underfull \hbox (badness 10000) detected at line 1040 [][][] [976] Underfull \hbox (badness 10000) detected at line 1062 [][][] Underfull \hbox (badness 10000) detected at line 1065 [][][] Underfull \hbox (badness 10000) detected at line 1097 [][][] [977] Underfull \hbox (badness 10000) detected at line 1114 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] ) (./vpmg_8c_source.tex [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113]) (./vpmg_8h.tex <./vpmg_8h__incl.pdf> [1114] <./vpmg_8h__dep__incl.pdf> [1115] [1116] [1117] [1118] [1119] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 238 [][][] Underfull \hbox (badness 10000) detected at line 241 [][][] [1120] [1121] Underfull \hbox (badness 10000) detected at line 441 [][][] [1122] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 504 [][][] [1123] Underfull \hbox (badness 10000) detected at line 507 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.24 on input line 514. Underfull \hbox (badness 10000) detected at line 529 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.25 on input line 539. Underfull \hbox (badness 10000) detected at line 554 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.26 on input line 564. Underfull \hbox (badness 10000) detected at line 579 [][][] [1124] Underfull \hbox (badness 10000) detected at line 582 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.27 on input line 589. Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.28 on input line 614. Underfull \hbox (badness 10000) detected at line 629 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] [1125] Package longtable Warning: Column widths have changed (longtable) in table 9.29 on input line 639. Underfull \hbox (badness 10000) detected at line 654 [][][] Underfull \hbox (badness 10000) detected at line 657 [][][] Underfull \hbox (badness 10000) detected at line 674 [][][] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 711 [][][] [1126] Underfull \hbox (badness 10000) detected at line 728 [][][] Underfull \hbox (badness 10000) detected at line 745 [][][] Underfull \hbox (badness 10000) detected at line 762 [][][] Underfull \hbox (badness 10000) detected at line 779 [][][] Underfull \hbox (badness 10000) detected at line 796 [][][] [1127] Underfull \hbox (badness 10000) detected at line 817 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] Underfull \hbox (badness 10000) detected at line 837 [][][] Underfull \hbox (badness 10000) detected at line 854 [][][] Underfull \hbox (badness 10000) detected at line 871 [][][] [1128] Underfull \hbox (badness 10000) detected at line 888 [][][] Underfull \hbox (badness 10000) detected at line 905 [][][] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 931 [][][] [1129] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 992 [][][] [1130] Underfull \hbox (badness 10000) detected at line 1022 [][][] Underfull \hbox (badness 10000) detected at line 1044 [][][] Underfull \hbox (badness 10000) detected at line 1066 [][][] [1131] Underfull \hbox (badness 10000) detected at line 1088 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1108 [][][] Underfull \hbox (badness 10000) detected at line 1111 [][][] Underfull \hbox (badness 10000) detected at line 1133 [][][] Underfull \hbox (badness 10000) detected at line 1136 [][][] [1132] Underfull \hbox (badness 10000) detected at line 1158 [][][] Underfull \hbox (badness 10000) detected at line 1161 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] [1133] Underfull \hbox (badness 10000) detected at line 1242 [][][] Underfull \hbox (badness 10000) detected at line 1245 [][][] ) (./vpmg_8h_source.tex [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142]) (./vpmgp_8c.tex <./vpmgp_8c__incl.pdf> [1143] Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 45 [][][] [1144]) (./vpmgp_8c_source.tex [1145] [1146] [1147]) (./vpmgp_8h.tex [1148] <./ vpmgp_8h__incl.pdf> <./vpmgp_8h__dep__incl.pdf> [1149] [1150] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] [1151]) (./vpmgp_8h_source.tex [1152]) (./build_ad_8c_source.tex [1153] [1154] [1155]) (./build_ad_8h_source.tex [1156]) (./build_bd_8c_source.tex [1157] [1158] [1159] [1160]) (./build_bd_8h_source.tex [1161]) (./build_gd_8c_source.tex [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199]) (./build_gd_8h_source.tex [1200] [1201]) (./build_pd_8c_source.tex [1202] [1203] [1204] [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220]) (./build_pd_8h_source.tex [1221] [1222] [1223]) (./cgd_8c_source.tex) (./cgd_8h_source.tex [1224]) (./gsd_8c_source.tex [1225] [1226] [1227] [1228]) (./gsd_8h_source.tex [1229]) (./matvecd_8c_source.tex [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242]) (./matvecd_8h_source.tex [1243] [1244] [1245] [1246] [1247] [1248]) (./mgcsd_8c_source.tex [1249] [1250] [1251] [1252] [1253] [1254]) (./mgcsd_8h_source.tex [1255]) (./mgdrvd_8c_source.tex [1256] [1257] [1258] [1259] [1260] [1261] [1262]) (./mgdrvd_8h_source.tex [1263] [1264]) (./mgfasd_8c_source.tex [1265] [1266] [1267] [1268] [1269] [1270]) (./mgfasd_8h_source.tex [1271] [1272]) (./mgsubd_8c_source.tex [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283]) (./mgsubd_8h_source.tex [1284] [1285] [1286] [1287]) (./mikpckd_8c_source.tex [1288] [1289] [1290] [1291]) (./mikpckd_8h_source.tex [1292] [1293] [1294]) (./mlinpckd_8c_source.tex [1295] [1296]) (./mlinpckd_8h_source.tex) (./mypdec_8c_source.tex [1297] [1298] [1299] [1300] [1301] [1302] [1303]) (./mypdec_8h_source.tex [1304]) (./newdrvd_8c_source.tex [1305] [1306] [1307] [1308]) (./newdrvd_8h_source.tex [1309]) (./newtond_8c_source.tex [1310] [1311] [1312] [1313] [1314] [1315] [1316]) (./newtond_8h_source.tex [1317]) (./powerd_8c_source.tex [1318] [1319] [1320] [1321] [1322]) (./powerd_8h_source.tex [1323]) (./smoothd_8c_source.tex [1324]) (./smoothd_8h_source.tex [1325]) (./routines_8c.tex <./routines_8c__incl.pdf> [1326] Underfull \hbox (badness 776) in paragraph at lines 48--49 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv /m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[] Underfull \hbox (badness 2856) in paragraph at lines 48--49 \T1/phv/m/n/10 YMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]ZMap[] [][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 kappa[]Map[][][], [] Underfull \hbox (badness 1237) in paragraph at lines 48--49 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 905) in paragraph at lines 62--63 []\T1/phv/m/n/10 VPUBLIC void [] (Vmem $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 mem , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy /m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 5817) in paragraph at lines 68--69 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 70--71 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1327] Underfull \hbox (badness 1442) in paragraph at lines 82--83 []\T1/phv/m/n/10 VPUBLIC int [] (Vcom $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 com, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy/ m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 931) in paragraph at lines 88--89 []\T1/phv/m/n/10 VPUBLIC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T 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(./routines_8h.tex <./routine s_8h__incl.pdf> <./routines_8h__dep__incl.pdf> [1398] Overfull \hbox (16.65858pt too wide) in paragraph at lines 52--53 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 54--55 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Underfull \hbox (badness 1910) in paragraph at lines 72--73 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 72--73 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 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Rerun LaTeX. (./refman.aux) LaTeX Warning: There were multiply-defined labels. Package rerunfilecheck Warning: File `refman.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information)< /usr/share/texlive/texmf-dist/fonts/type1/urw/courier/ucrro8a.pfb> Output written on refman.pdf (1515 pages, 6340406 bytes). Transcript written on refman.log. Package longtable Warning: Table widths have changed. Rerun LaTeX. Rerunning latex.... 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LaTeX Warning: Label `group___vhal_ga068e237d419d537df01fc0fad01e24e8' multiply defined. ) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (./refman.out) (./refman.out) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texlive/texmf-dist/tex/latex/wasysym/uwasy.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}{/usr/share/texlive/texmf-dist/fonts/enc/dvips /base/8r.enc}] [2] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] (./index.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1phv.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [1] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [2]) (./bug.tex [3] [4] Chapter 2. Underfull \hbox (badness 10000) in paragraph at lines 5--9 Underfull \hbox (badness 10000) in paragraph at lines 9--13 Underfull \hbox (badness 10000) in paragraph at lines 13--17 Underfull \hbox (badness 10000) in paragraph at lines 25--29 Underfull \hbox (badness 10000) in paragraph at lines 29--33 Underfull \hbox (badness 10000) in paragraph at lines 33--37 Underfull \hbox (badness 10000) in paragraph at lines 37--41 Underfull \hbox (badness 10000) in paragraph at lines 41--45 Underfull \hbox (badness 10000) in paragraph at lines 45--49 Underfull \hbox (badness 10000) in paragraph at lines 49--53 Underfull \hbox (badness 10000) in paragraph at lines 53--57 [5] Underfull \hbox (badness 10000) in paragraph at lines 57--61 Underfull \hbox (badness 10000) in paragraph at lines 61--65 Underfull \hbox (badness 10000) in paragraph at lines 65--69 Underfull \hbox (badness 10000) in paragraph at lines 73--77 Underfull \hbox (badness 10000) in paragraph at lines 77--81 Underfull \hbox (badness 10000) in paragraph at lines 81--85 Underfull \hbox (badness 10000) in paragraph at lines 85--89 Underfull \hbox (badness 10000) in paragraph at lines 93--97 Underfull \hbox (badness 10000) in paragraph at lines 97--101 Underfull \hbox (badness 10000) in paragraph at lines 101--105 Underfull \hbox (badness 10000) in paragraph at lines 109--113 Underfull \hbox (badness 10000) in paragraph at lines 113--117 Underfull \hbox (badness 10000) in paragraph at lines 117--121 Underfull \hbox (badness 10000) in paragraph at lines 121--125 [6] Underfull \hbox (badness 10000) in paragraph at lines 125--129 Underfull \hbox (badness 10000) in paragraph at lines 129--133 Underfull \hbox (badness 10000) in paragraph at lines 133--137 Underfull \hbox (badness 10000) in paragraph at lines 137--141 Underfull \hbox (badness 10000) in paragraph at lines 141--145 Underfull \hbox (badness 10000) in paragraph at lines 145--149 ) (./deprecated.tex [7] [8] Chapter 3. Underfull \hbox (badness 10000) in paragraph at lines 5--9 ) [9] [10] Chapter 4. (./topics.tex) [11] [12] Chapter 5. (./annotated.tex [13]) [14] Chapter 6. (./files.tex [15] [16] [17]) [18] Chapter 7. 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1813 [][][] Underfull \hbox (badness 10000) detected at line 1816 [][][] Underfull \hbox (badness 10000) detected at line 1819 [][][] Underfull \hbox (badness 10000) detected at line 1841 [][][] [54] Underfull \hbox (badness 10000) detected at line 1867 [][][] Underfull \hbox (badness 10000) detected at line 1887 [][][] Underfull \hbox (badness 10000) detected at line 1892 [][][] ) (./group___vpee.tex [55] Underfull \hbox (badness 849) in paragraph at lines 45--46 \T1/phv/m/n/10 Holst par-al-lel re-fine-ment rou-tine es-sen-tially re-duces th e er-ror out-side the \T1/pcr/m/n/10 local" partition to zero. Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 However, this leads to the need for a few final overlapping Schw arz solves to Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 smooth out the errors near partition boundaries. Supposedly, if the region in Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 which we allow error-based refinement includes the$\OML/cmm/m/it /10 <$\T1/pcr/m/n/10 /tt$\OML/cmm/m/it/10 >$\T1/pcr/m/n/10 local" partition and an Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 external buffer zone approximately equal in size to the local re gion, then the Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 solution will asymptotically approach the solution obtained via more typical Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 methods. This is essentially a more flexible parallel implementa tion of MC\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s [56] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [57] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 171 [][][] [58] Underfull \hbox (badness 10000) detected at line 195 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] [59] Underfull \hbox (badness 10000) detected at line 241 [][][] Underfull \hbox (badness 10000) detected at line 244 [][][] ) (./group___a_p_o_lparm.tex [60] [61] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] [62] Underfull \hbox (badness 10000) detected at line 253 [][][] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 280 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] [63] Underfull \hbox (badness 10000) detected at line 322 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] ) (./group___b_e_mparm.tex [64] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] [65] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 133 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] [66] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] Underfull \hbox (badness 10000) detected at line 224 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] [67] Underfull \hbox (badness 10000) detected at line 258 [][][] ) (./group___f_e_mparm.tex [68] Underfull \hbox (badness 10000) detected at line 127 [][][] [69] Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [70] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 255 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [71] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 331 [][][] Underfull \hbox (badness 10000) detected at line 348 [][][] Underfull \hbox (badness 10000) detected at line 370 [][][] ) (./group___g_e_o_f_l_o_wparm.tex [72] [73] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] [74] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] [75] Underfull \hbox (badness 10000) detected at line 225 [][][] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] ) (./group___m_gparm.tex [76] [77] [78] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 233 [][][] [79] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 262 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [80] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 336 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [81] Underfull \hbox (badness 10000) detected at line 402 [][][] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Underfull \hbox (badness 10000) detected at line 457 [][][] [82] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 482 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 524 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] [83] Underfull \hbox (badness 10000) detected at line 549 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 599 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] [84] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] Underfull \hbox (badness 10000) detected at line 661 [][][] Underfull \hbox (badness 10000) detected at line 678 [][][] [85] Underfull \hbox (badness 10000) detected at line 702 [][][] Underfull \hbox (badness 10000) detected at line 726 [][][] ) (./group___n_osh.tex [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) detected at line 447 [][][] [91] Underfull \hbox (badness 10000) detected at line 457 [][][] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 498 [][][] Underfull \hbox (badness 10000) detected at line 506 [][][] Underfull \hbox (badness 10000) detected at line 523 [][][] [92] Underfull \hbox (badness 10000) detected at line 545 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 584 [][][] [93] Underfull \hbox (badness 10000) detected at line 601 [][][] Underfull \hbox (badness 10000) detected at line 623 [][][] Underfull \hbox (badness 10000) detected at line 645 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] [94] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 685 [][][] Underfull \hbox (badness 10000) detected at line 688 [][][] Underfull \hbox (badness 10000) detected at line 705 [][][] Underfull \hbox (badness 10000) detected at line 715 [][][] [95] Underfull \hbox (badness 10000) detected at line 732 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 759 [][][] Underfull \hbox (badness 10000) detected at line 769 [][][] Underfull \hbox (badness 10000) detected at line 786 [][][] [96] Underfull \hbox (badness 10000) detected at line 796 [][][] Underfull \hbox (badness 10000) detected at line 813 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 840 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] [97] Underfull \hbox (badness 10000) detected at line 867 [][][] Underfull \hbox (badness 10000) detected at line 877 [][][] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 904 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] [98] Underfull \hbox (badness 10000) detected at line 931 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 985 [][][] [99] Underfull \hbox (badness 10000) detected at line 1002 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1029 [][][] Underfull \hbox (badness 10000) detected at line 1032 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] [100] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1074 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1094 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] [101] Underfull \hbox (badness 10000) detected at line 1126 [][][] Underfull \hbox (badness 10000) detected at line 1129 [][][] Underfull \hbox (badness 10000) detected at line 1139 [][][] Underfull \hbox (badness 10000) detected at line 1142 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1162 [][][] Underfull \hbox (badness 10000) detected at line 1174 [][][] Underfull \hbox (badness 10000) detected at line 1177 [][][] [102] Underfull \hbox (badness 10000) detected at line 1194 [][][] Underfull \hbox (badness 10000) detected at line 1197 [][][] Underfull \hbox (badness 10000) detected at line 1207 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1227 [][][] Underfull \hbox (badness 10000) detected at line 1230 [][][] Underfull \hbox (badness 10000) detected at line 1240 [][][] [103] Underfull \hbox (badness 10000) detected at line 1264 [][][] Underfull \hbox (badness 10000) detected at line 1267 [][][] Underfull \hbox (badness 10000) detected at line 1277 [][][] ) (./group___p_b_a_mparm.tex [104] [105] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] [106] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 197 [][][] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 229 [][][] [107] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 256 [][][] Underfull \hbox (badness 10000) detected at line 273 [][][] Underfull \hbox (badness 10000) detected at line 295 [][][] [108] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [109] Underfull \hbox (badness 10000) detected at line 389 [][][] Underfull \hbox (badness 10000) detected at line 413 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] [110] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 485 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] [111] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 581 [][][] Underfull \hbox (badness 10000) detected at line 593 [][][] [112] Underfull \hbox (badness 10000) detected at line 610 [][][] Underfull \hbox (badness 10000) detected at line 634 [][][] ) (./group___p_b_eparm.tex [113] [114] [115] Underfull \hbox (badness 10000) detected at line 209 [][][] Underfull \hbox (badness 10000) detected at line 212 [][][] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] Underfull \hbox (badness 10000) detected at line 261 [][][] [116] Underfull \hbox (badness 10000) detected at line 278 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 325 [][][] [117] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] [118] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 431 [][][] ) (./group___p_b_s_a_mparm.tex [119] [120] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] [121] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 205 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 240 [][][] [122] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 301 [][][] [123] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] [124] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 426 [][][] ) (./group___vacc.tex [125] [126] [127] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [128] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 242 [][][] [129] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 283 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] Underfull \hbox (badness 10000) detected at line 308 [][][] [130] Underfull \hbox (badness 10000) detected at line 334 [][][] Underfull \hbox (badness 10000) detected at line 337 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [131] Underfull \hbox (badness 10000) detected at line 387 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] Underfull \hbox (badness 10000) detected at line 414 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] [132] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 472 [][][] Underfull \hbox (badness 10000) detected at line 475 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] [133] Underfull \hbox (badness 10000) detected at line 502 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 562 [][][] [134] Underfull \hbox (badness 10000) detected at line 565 [][][] Underfull \hbox (badness 10000) detected at line 595 [][][] Underfull \hbox (badness 10000) detected at line 598 [][][] [135] Underfull \hbox (badness 10000) detected at line 628 [][][] Underfull \hbox (badness 10000) detected at line 660 [][][] [136] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 724 [][][] [137] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 790 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] [138] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 855 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] Underfull \hbox (badness 10000) detected at line 882 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] Underfull \hbox (badness 10000) detected at line 888 [][][] [139] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] Underfull \hbox (badness 10000) detected at line 941 [][][] Underfull \hbox (badness 10000) detected at line 944 [][][] [140] Underfull \hbox (badness 10000) detected at line 972 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1007 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] [141] Underfull \hbox (badness 10000) detected at line 1040 [][][] Underfull \hbox (badness 10000) detected at line 1043 [][][] Underfull \hbox (badness 10000) detected at line 1069 [][][] Underfull \hbox (badness 10000) detected at line 1072 [][][] [142] Underfull \hbox (badness 10000) detected at line 1100 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Underfull \hbox (badness 10000) detected at line 1152 [][][] [143]) (./group___valist.tex [144] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [145] Underfull \hbox (badness 10000) detected at line 136 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 183 [][][] [146] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 260 [][][] [147] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 310 [][][] Underfull \hbox (badness 10000) detected at line 332 [][][] Underfull \hbox (badness 10000) detected at line 335 [][][] [148] Underfull \hbox (badness 10000) detected at line 352 [][][] Underfull \hbox (badness 10000) detected at line 355 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] [149] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 415 [][][] Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] ) (./group___vatom.tex [150] [151] Underfull \hbox (badness 10000) detected at line 97 [][][] [152] Underfull \hbox (badness 10000) detected at line 134 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] [153] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 227 [][][] Underfull \hbox (badness 10000) detected at line 249 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] [154] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 320 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 345 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] [155] Underfull \hbox (badness 10000) detected at line 370 [][][] Underfull \hbox (badness 10000) detected at line 378 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] Underfull \hbox (badness 10000) detected at line 428 [][][] [156] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 469 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 494 [][][] [157] Underfull \hbox (badness 10000) detected at line 518 [][][] Underfull \hbox (badness 10000) detected at line 542 [][][] Underfull \hbox (badness 10000) detected at line 566 [][][] [158] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 614 [][][] Underfull \hbox (badness 10000) detected at line 638 [][][] [159] Underfull \hbox (badness 10000) detected at line 662 [][][] ) (./group___vcap.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [160] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [161] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] ) (./group___vclist.tex [162] [163] Underfull \hbox (badness 10000) detected at line 126 [][][] [164] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] Underfull \hbox (badness 10000) detected at line 191 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] [165] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 275 [][][] [166] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [167] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 423 [][][] [168]) (./group___vgreen.tex [169] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [170] Underfull \hbox (badness 10000) detected at line 141 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] [171] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] [172] Underfull \hbox (badness 10000) detected at line 215 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] [173] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 334 [][][] [174] Underfull \hbox (badness 10000) detected at line 351 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] [175] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 429 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] [176] Underfull \hbox (badness 10000) detected at line 471 [][][] Underfull \hbox (badness 10000) detected at line 476 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] Underfull \hbox (badness 10000) detected at line 517 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] ) (./group___vhal.tex [177] [178] [179] [180] [181] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 421 [][][] Underfull \hbox (badness 10000) detected at line 438 [][][] Underfull \hbox (badness 10000) detected at line 455 [][][] [182] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Underfull \hbox (badness 10000) detected at line 526 [][][] Underfull \hbox (badness 10000) detected at line 567 [][][] [183] [184] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 819 [][][] [185] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] [186] Underfull \hbox (badness 10000) detected at line 932 [][][] Missing character: There is no Å in font cmr10! Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 58. Missing character: There is no Å in font cmr10! [187] [188] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1112 [][][] Underfull \hbox (badness 10000) detected at line 1140 [][][] Underfull \hbox (badness 10000) detected at line 1143 [][][] [189] Underfull \hbox (badness 10000) detected at line 1160 [][][] ) (./group___vmatrix.tex) (./group___vparam.tex [190] [191] [192] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] Underfull \hbox (badness 10000) detected at line 206 [][][] [193] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 274 [][][] Underfull \hbox (badness 10000) detected at line 282 [][][] [194] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 343 [][][] Underfull \hbox (badness 10000) detected at line 346 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] [195] Underfull \hbox (badness 10000) detected at line 371 [][][] Underfull \hbox (badness 10000) detected at line 388 [][][] Underfull \hbox (badness 10000) detected at line 410 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] [196] Underfull \hbox (badness 10000) detected at line 444 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 467 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 480 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] [197] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [198] Underfull \hbox (badness 10000) detected at line 571 [][][] Underfull \hbox (badness 10000) detected at line 587 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 628 [][][] [199] Underfull \hbox (badness 10000) detected at line 636 [][][] Underfull \hbox (badness 10000) detected at line 653 [][][] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 680 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] [200]) (./group___vpbe.tex [201] [202] [203] Underfull \hbox (badness 10000) detected at line 128 [][][] Underfull \hbox (badness 10000) detected at line 131 [][][] LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 136 [][][] [204] Underfull \hbox (badness 10000) detected at line 186 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 195 [][][] [205] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 291 [][][] [206] Underfull \hbox (badness 10000) detected at line 299 [][][] Overfull \hbox (151.96916pt too wide) in paragraph at lines 318--318 [] \T1/p cr/m/n/8 permittivity equal to the protein interior) and zero ionic[] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 333 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 358 [][][] Underfull \hbox (badness 10000) detected at line 375 [][][] [207] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 396 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] [208] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 478 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] [209] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 550 [][][] Underfull \hbox (badness 10000) detected at line 558 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] [210] Underfull \hbox (badness 10000) detected at line 600 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 633 [][][] Underfull \hbox (badness 10000) detected at line 650 [][][] Underfull \hbox (badness 10000) detected at line 658 [][][] [211] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 683 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 708 [][][] Underfull \hbox (badness 10000) detected at line 725 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] [212] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 775 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Underfull \hbox (badness 10000) detected at line 800 [][][] Underfull \hbox (badness 10000) detected at line 808 [][][] [213] Underfull \hbox (badness 10000) detected at line 825 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] LaTeX Warning: Command \r invalid in math mode on input line 859. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 883 [][][] [214] Underfull \hbox (badness 10000) detected at line 900 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] ) (./group___vstring.tex [215] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [216] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] ) (./group___vunit.tex [217] LaTeX Warning: Command \r invalid in math mode on input line 39. Missing character: There is no Å in font cmr9! [218] LaTeX Warning: Command \r invalid in math mode on input line 142. Missing character: There is no Å in font cmr10! [219]) (./group___vgrid.tex [220] [221] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 151 [][][] [222] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [223] Underfull \hbox (badness 10000) detected at line 229 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 290 [][][] [224] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 319 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [225] Underfull \hbox (badness 10000) detected at line 369 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] [226] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 470 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [227] Underfull \hbox (badness 10000) detected at line 489 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 528 [][][] Underfull \hbox (badness 10000) detected at line 531 [][][] [228] Underfull \hbox (badness 10000) detected at line 548 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] Underfull \hbox (badness 10000) detected at line 600 [][][] [229] Underfull \hbox (badness 10000) detected at line 612 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [230] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] ) (./group___vmgrid.tex [231] [232] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 135 [][][] [233] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 160 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] [234] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 264 [][][] [235] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 300 [][][] Underfull \hbox (badness 10000) detected at line 312 [][][] Underfull \hbox (badness 10000) detected at line 329 [][][] [236] Underfull \hbox (badness 10000) detected at line 341 [][][] ) (./group___vopot.tex [237] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [238] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 137 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 170 [][][] [239] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 214 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] Underfull \hbox (badness 10000) detected at line 243 [][][] [240] Underfull \hbox (badness 10000) detected at line 255 [][][] ) (./group___vpmg.tex [241] [242] [243] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] [244] Underfull \hbox (badness 10000) detected at line 186 [][][] [245] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] [246] Underfull \hbox (badness 10000) detected at line 324 [][][] [247] Underfull \hbox (badness 10000) detected at line 362 [][][] Underfull \hbox (badness 10000) detected at line 381 [][][] Underfull \hbox (badness 10000) detected at line 384 [][][] [248] Underfull \hbox (badness 10000) detected at line 416 [][][] Underfull \hbox (badness 10000) detected at line 419 [][][] Underfull \hbox (badness 10000) detected at line 422 [][][] [249] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] [250] Underfull \hbox (badness 10000) detected at line 520 [][][] Underfull \hbox (badness 10000) detected at line 546 [][][] [251] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 610 [][][] [252] Underfull \hbox (badness 10000) detected at line 643 [][][] Underfull \hbox (badness 10000) detected at line 646 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] Underfull \hbox (badness 10000) detected at line 690 [][][] Underfull \hbox (badness 10000) detected at line 712 [][][] [253] Underfull \hbox (badness 10000) detected at line 715 [][][] Underfull \hbox (badness 10000) detected at line 718 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 764 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] [254] Underfull \hbox (badness 10000) detected at line 799 [][][] Underfull \hbox (badness 10000) detected at line 802 [][][] [255] Underfull \hbox (badness 10000) detected at line 856 [][][] Underfull \hbox (badness 10000) detected at line 859 [][][] Underfull \hbox (badness 10000) detected at line 864 [][][] [256] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 920 [][][] Underfull \hbox (badness 10000) detected at line 923 [][][] Underfull \hbox (badness 10000) detected at line 928 [][][] [257] Underfull \hbox (badness 10000) detected at line 956 [][][] Underfull \hbox (badness 10000) detected at line 982 [][][] [258] Underfull \hbox (badness 10000) detected at line 1008 [][][] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1055 [][][] [259] Underfull \hbox (badness 10000) detected at line 1093 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] Underfull \hbox (badness 10000) detected at line 1099 [][][] [260] Underfull \hbox (badness 10000) detected at line 1123 [][][] Underfull \hbox (badness 10000) detected at line 1160 [][][] Underfull \hbox (badness 10000) detected at line 1163 [][][] Underfull \hbox (badness 10000) detected at line 1166 [][][] [261] Underfull \hbox (badness 10000) detected at line 1190 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1198 [][][] Underfull \hbox (badness 10000) detected at line 1226 [][][] [262] Underfull \hbox (badness 10000) detected at line 1252 [][][] Underfull \hbox (badness 10000) detected at line 1280 [][][] Underfull \hbox (badness 10000) detected at line 1283 [][][] [263] Underfull \hbox (badness 10000) detected at line 1303 [][][] Underfull \hbox (badness 10000) detected at line 1343 [][][] Underfull \hbox (badness 10000) detected at line 1346 [][][] Underfull \hbox (badness 10000) detected at line 1349 [][][] [264] Underfull \hbox (badness 10000) detected at line 1373 [][][] Underfull \hbox (badness 10000) detected at line 1401 [][][] Underfull \hbox (badness 10000) detected at line 1404 [][][] [265] Underfull \hbox (badness 10000) detected at line 1426 [][][] Underfull \hbox (badness 10000) detected at line 1429 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] ) (./group___vpmgp.tex [266] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] [267] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 130 [][][] Underfull \hbox (badness 10000) detected at line 152 [][][] [268] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] ) (./group___p_m_g_c.tex [269] [270] [271] [272] [273] Underfull \hbox (badness 10000) detected at line 155 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 170--170 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [274] Underfull \hbox (badness 10000) detected at line 217 [][][] Underfull \hbox (badness 10000) detected at line 220 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 232--232 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [275] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 313 [][][] Underfull \hbox (badness 10000) detected at line 316 [][][] [276] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [277] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 400 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 409--409 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 444 [][][] [278] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] [279] Overfull \hbox (304.08286pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 561 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 573--573 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [280] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 611 [][][] [281] Underfull \hbox (badness 10000) detected at line 651 [][][] Underfull \hbox (badness 10000) detected at line 654 [][][] [282] Underfull \hbox (badness 10000) detected at line 724 [][][] Underfull \hbox (badness 10000) detected at line 727 [][][] [283] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 780 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 793--793 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [284] Underfull \hbox (badness 10000) detected at line 830 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 842--842 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [285] [286] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 915 [][][] [287] [288] [289] Underfull \hbox (badness 10000) detected at line 1055 [][][] Underfull \hbox (badness 10000) detected at line 1058 [][][] [290] [291] [292] Underfull \hbox (badness 10000) detected at line 1234 [][][] Underfull \hbox (badness 10000) detected at line 1237 [][][] [293] [294] Underfull \hbox (badness 10000) detected at line 1387 [][][] Underfull \hbox (badness 10000) detected at line 1390 [][][] Underfull \hbox (badness 10000) detected at line 1393 [][][] [295] Underfull \hbox (badness 10000) detected at line 1451 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1467--1467 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [296] Underfull \hbox (badness 10000) detected at line 1504 [][][] Underfull \hbox (badness 10000) detected at line 1507 [][][] [297] Underfull \hbox (badness 10000) detected at line 1587 [][][] Underfull \hbox (badness 10000) detected at line 1590 [][][] Underfull \hbox (badness 10000) detected at line 1593 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1603--1603 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [298] Underfull \hbox (badness 10000) detected at line 1640 [][][] Underfull \hbox (badness 10000) detected at line 1643 [][][] Underfull \hbox (badness 10000) detected at line 1646 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1655--1655 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [299] Underfull \hbox (badness 10000) detected at line 1733 [][][] Underfull \hbox (badness 10000) detected at line 1738 [][][] Underfull \hbox (badness 10000) detected at line 1741 [][][] [300] Underfull \hbox (badness 10000) detected at line 1771 [][][] Underfull \hbox (badness 10000) detected at line 1774 [][][] [301] Underfull \hbox (badness 10000) detected at line 1808 [][][] Underfull \hbox (badness 10000) detected at line 1811 [][][] Underfull \hbox (badness 10000) detected at line 1845 [][][] Underfull \hbox (badness 10000) detected at line 1848 [][][] [302] Underfull \hbox (badness 10000) detected at line 1882 [][][] Underfull \hbox (badness 10000) detected at line 1885 [][][] Underfull \hbox (badness 10000) detected at line 1888 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1898--1898 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [303] Underfull \hbox (badness 10000) detected at line 1935 [][][] Underfull \hbox (badness 10000) detected at line 1938 [][][] Underfull \hbox (badness 10000) detected at line 1941 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1950--1950 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [304] Underfull \hbox (badness 10000) detected at line 2036 [][][] Underfull \hbox (badness 10000) detected at line 2039 [][][] [305] Underfull \hbox (badness 10000) detected at line 2073 [][][] Underfull \hbox (badness 10000) detected at line 2076 [][][] Underfull \hbox (badness 10000) detected at line 2079 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2089--2089 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [306] Underfull \hbox (badness 10000) detected at line 2126 [][][] Underfull \hbox (badness 10000) detected at line 2129 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2138--2138 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 2173 [][][] Underfull \hbox (badness 10000) detected at line 2176 [][][] [307] Underfull \hbox (badness 10000) detected at line 2208 [][][] Underfull \hbox (badness 10000) detected at line 2211 [][][] [308] Underfull \hbox (badness 10000) detected at line 2247 [][][] Underfull \hbox (badness 10000) detected at line 2250 [][][] Underfull \hbox (badness 10000) detected at line 2286 [][][] Underfull \hbox (badness 10000) detected at line 2289 [][][] [309] Underfull \hbox (badness 10000) detected at line 2317 [][][] Underfull \hbox (badness 10000) detected at line 2320 [][][] Underfull \hbox (badness 10000) detected at line 2323 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2333--2333 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [310] Underfull \hbox (badness 10000) detected at line 2370 [][][] Underfull \hbox (badness 10000) detected at line 2373 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2382--2382 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [311] Underfull \hbox (badness 10000) detected at line 2417 [][][] Underfull \hbox (badness 10000) detected at line 2420 [][][] [312] Underfull \hbox (badness 10000) detected at line 2506 [][][] Underfull \hbox (badness 10000) detected at line 2509 [][][] Underfull \hbox (badness 10000) detected at line 2512 [][][] [313] Underfull \hbox (badness 10000) detected at line 2560 [][][] Underfull \hbox (badness 10000) detected at line 2563 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2572--2572 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [314] Underfull \hbox (badness 10000) detected at line 2607 [][][] Underfull \hbox (badness 10000) detected at line 2610 [][][] [315] Underfull \hbox (badness 10000) detected at line 2700 [][][] Underfull \hbox (badness 10000) detected at line 2703 [][][] [316] Underfull \hbox (badness 10000) detected at line 2749 [][][] Underfull \hbox (badness 10000) detected at line 2752 [][][] Underfull \hbox (badness 10000) detected at line 2755 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2765--2765 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [317] Underfull \hbox (badness 10000) detected at line 2802 [][][] Underfull \hbox (badness 10000) detected at line 2805 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2814--2814 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [318] Underfull \hbox (badness 10000) detected at line 2849 [][][] Underfull \hbox (badness 10000) detected at line 2852 [][][] [319] Underfull \hbox (badness 10000) detected at line 2908 [][][] Underfull \hbox (badness 10000) detected at line 2911 [][][] [320] Underfull \hbox (badness 10000) detected at line 2949 [][][] Underfull \hbox (badness 10000) detected at line 2960 [][][] Underfull \hbox (badness 10000) detected at line 2963 [][][] [321] Underfull \hbox (badness 10000) detected at line 3049 [][][] Underfull \hbox (badness 10000) detected at line 3052 [][][] Underfull \hbox (badness 10000) detected at line 3055 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [322] Underfull \hbox (badness 10000) detected at line 3102 [][][] Underfull \hbox (badness 10000) detected at line 3105 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3114--3114 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [323] Underfull \hbox (badness 10000) detected at line 3149 [][][] Underfull \hbox (badness 10000) detected at line 3152 [][][] Underfull \hbox (badness 10000) detected at line 3190 [][][] [324] Underfull \hbox (badness 10000) detected at line 3193 [][][] Underfull \hbox (badness 10000) detected at line 3196 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3206--3206 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3243 [][][] Underfull \hbox (badness 10000) detected at line 3246 [][][] Underfull \hbox (badness 10000) detected at line 3249 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3258--3258 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [325] Underfull \hbox (badness 10000) detected at line 3291 [][][] [326] Underfull \hbox (badness 10000) detected at line 3345 [][][] [327] [328] [329] Underfull \hbox (badness 10000) detected at line 3501 [][][] [330] Underfull \hbox (badness 10000) detected at line 3559 [][][] Underfull \hbox (badness 10000) detected at line 3562 [][][] [331] Underfull \hbox (badness 10000) detected at line 3602 [][][] Underfull \hbox (badness 10000) detected at line 3605 [][][] Underfull \hbox (badness 10000) detected at line 3608 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3618--3618 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [332] Underfull \hbox (badness 10000) detected at line 3655 [][][] Underfull \hbox (badness 10000) detected at line 3658 [][][] Underfull \hbox (badness 10000) detected at line 3661 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3670--3670 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [333] Underfull \hbox (badness 10000) detected at line 3719 [][][] Underfull \hbox (badness 10000) detected at line 3722 [][][] [334] Underfull \hbox (badness 10000) detected at line 3806 [][][] Underfull \hbox (badness 10000) detected at line 3809 [][][] [335] Underfull \hbox (badness 10000) detected at line 3907 [][][] [336] Underfull \hbox (badness 10000) detected at line 3910 [][][] Underfull \hbox (badness 10000) detected at line 3913 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3923--3923 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3960 [][][] Underfull \hbox (badness 10000) detected at line 3963 [][][] [337] Underfull \hbox (badness 10000) detected at line 3989 [][][] Underfull \hbox (badness 10000) detected at line 3992 [][][] Underfull \hbox (badness 10000) detected at line 4018 [][][] Underfull \hbox (badness 10000) detected at line 4021 [][][] [338] Underfull \hbox (badness 10000) detected at line 4051 [][][] Underfull \hbox (badness 10000) detected at line 4054 [][][] Underfull \hbox (badness 10000) detected at line 4057 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4067--4067 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [339] Underfull \hbox (badness 10000) detected at line 4104 [][][] Underfull \hbox (badness 10000) detected at line 4107 [][][] Underfull \hbox (badness 10000) detected at line 4110 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4119--4119 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [340] Underfull \hbox (badness 10000) detected at line 4154 [][][] Underfull \hbox (badness 10000) detected at line 4157 [][][] [341] Underfull \hbox (badness 10000) detected at line 4211 [][][] Underfull \hbox (badness 10000) detected at line 4239 [][][] [342] [343] Underfull \hbox (badness 10000) detected at line 4313 [][][] Underfull \hbox (badness 10000) detected at line 4316 [][][] [344] Underfull \hbox (badness 10000) detected at line 4406 [][][] Underfull \hbox (badness 10000) detected at line 4409 [][][] [345] Underfull \hbox (badness 10000) detected at line 4449 [][][] Underfull \hbox (badness 10000) detected at line 4452 [][][] [346] Underfull \hbox (badness 10000) detected at line 4494 [][][] Underfull \hbox (badness 10000) detected at line 4497 [][][] [347] Underfull \hbox (badness 10000) detected at line 4555 [][][] Underfull \hbox (badness 10000) detected at line 4558 [][][] Underfull \hbox (badness 10000) detected at line 4561 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4571--4571 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [348] Underfull \hbox (badness 10000) detected at line 4608 [][][] Underfull \hbox (badness 10000) detected at line 4611 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4620--4620 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4653 [][][] Underfull \hbox (badness 10000) detected at line 4656 [][][] Underfull \hbox (badness 10000) detected at line 4659 [][][] [349] Underfull \hbox (badness 10000) detected at line 4715 [][][] Underfull \hbox (badness 10000) detected at line 4718 [][][] [350] Underfull \hbox (badness 10000) detected at line 4750 [][][] Underfull \hbox (badness 10000) detected at line 4753 [][][] [351] Underfull \hbox (badness 10000) detected at line 4791 [][][] Underfull \hbox (badness 10000) detected at line 4794 [][][] Underfull \hbox (badness 10000) detected at line 4797 [][][] Overfull \hbox (20.88268pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute,[] Underfull \hbox (badness 10000) detected at line 4845 [][][] [352] Underfull \hbox (badness 10000) detected at line 4848 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4892 [][][] Underfull \hbox (badness 10000) detected at line 4895 [][][] [353] Underfull \hbox (badness 10000) detected at line 4953 [][][] Underfull \hbox (badness 10000) detected at line 4956 [][][] [354] Underfull \hbox (badness 10000) detected at line 4988 [][][] Underfull \hbox (badness 10000) detected at line 4991 [][][] Underfull \hbox (badness 10000) detected at line 4994 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 5004--5004 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 5041 [][][] Underfull \hbox (badness 10000) detected at line 5044 [][][] Underfull \hbox (badness 10000) detected at line 5047 [][][] [355] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 5056--5056 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 5091 [][][] Underfull \hbox (badness 10000) detected at line 5094 [][][] [356] Underfull \hbox (badness 10000) detected at line 5124 [][][] Underfull \hbox (badness 10000) detected at line 5127 [][][] Underfull \hbox (badness 10000) detected at line 5130 [][][] Underfull \hbox (badness 10000) detected at line 5160 [][][] Underfull \hbox (badness 10000) detected at line 5163 [][][] [357] Underfull \hbox (badness 10000) detected at line 5193 [][][] Underfull \hbox (badness 10000) detected at line 5196 [][][] Underfull \hbox (badness 10000) detected at line 5226 [][][] Underfull \hbox (badness 10000) detected at line 5229 [][][] [358] Underfull \hbox (badness 10000) detected at line 5257 [][][] Underfull \hbox (badness 10000) detected at line 5260 [][][] Underfull \hbox (badness 10000) detected at line 5288 [][][] Underfull \hbox (badness 10000) detected at line 5291 [][][] [359]) (./group___frontend.tex Underfull \hbox (badness 2495) in paragraph at lines 32--33 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Overfull \hbox (16.65858pt too wide) in paragraph at lines 40--41 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 42--43 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], [360] Underfull \hbox (badness 1910) in paragraph at lines 60--61 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 60--61 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 5817) in paragraph at lines 78--79 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 80--81 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [361] [362] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] [363] Underfull \hbox (badness 10000) detected at line 211 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] [364] Underfull \hbox (badness 10000) detected at line 275 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] [365] Underfull \hbox (badness 10000) detected at line 314 [][][] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 351 [][][] [366] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 393 [][][] [367] Underfull \hbox (badness 10000) detected at line 495 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [368] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] [369] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] [370] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 720 [][][] [371] Underfull \hbox (badness 10000) detected at line 748 [][][] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 792 [][][] [372] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 842 [][][] Underfull \hbox (badness 10000) detected at line 866 [][][] Underfull \hbox (badness 10000) detected at line 876 [][][] [373] Underfull \hbox (badness 10000) detected at line 895 [][][] Underfull \hbox (badness 10000) detected at line 909 [][][] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] Underfull \hbox (badness 10000) detected at line 939 [][][] [374] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 961 [][][] Underfull \hbox (badness 10000) detected at line 981 [][][] Underfull \hbox (badness 10000) detected at line 984 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] Underfull \hbox (badness 10000) detected at line 1013 [][][] [375] Underfull \hbox (badness 10000) detected at line 1035 [][][] Underfull \hbox (badness 10000) detected at line 1045 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1067 [][][] [376] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1105 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] Underfull \hbox (badness 10000) in paragraph at lines 1135--1136 Underfull \hbox (badness 10000) detected at line 1138 [][][] [377] Underfull \hbox (badness 10000) detected at line 1166 [][][] Underfull \hbox (badness 10000) detected at line 1180 [][][] Underfull \hbox (badness 10000) detected at line 1201 [][][] Underfull \hbox (badness 10000) detected at line 1204 [][][] [378] Underfull \hbox (badness 10000) detected at line 1228 [][][] Underfull \hbox (badness 10000) detected at line 1231 [][][] Underfull \hbox (badness 10000) detected at line 1259 [][][] Underfull \hbox (badness 10000) detected at line 1262 [][][] [379] Underfull \hbox (badness 10000) detected at line 1288 [][][] Underfull \hbox (badness 10000) detected at line 1291 [][][] Underfull \hbox (badness 10000) detected at line 1319 [][][] Underfull \hbox (badness 10000) detected at line 1322 [][][] [380] Underfull \hbox (badness 10000) detected at line 1348 [][][] Underfull \hbox (badness 10000) detected at line 1377 [][][] Underfull \hbox (badness 10000) detected at line 1380 [][][] [381] Underfull \hbox (badness 10000) detected at line 1408 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1468 [][][] [382] Underfull \hbox (badness 10000) detected at line 1485 [][][] Underfull \hbox (badness 10000) detected at line 1497 [][][] Underfull \hbox (badness 10000) detected at line 1514 [][][] Underfull \hbox (badness 10000) detected at line 1528 [][][] [383] Underfull \hbox (badness 10000) detected at line 1562 [][][] Underfull \hbox (badness 10000) detected at line 1574 [][][] Underfull \hbox (badness 10000) detected at line 1591 [][][] Underfull \hbox (badness 10000) detected at line 1608 [][][] [384] Underfull \hbox (badness 10000) detected at line 1636 [][][] Underfull \hbox (badness 10000) detected at line 1650 [][][] [385] Underfull \hbox (badness 10000) detected at line 1688 [][][] Underfull \hbox (badness 10000) detected at line 1716 [][][] Underfull \hbox (badness 10000) detected at line 1733 [][][] [386] Underfull \hbox (badness 10000) detected at line 1747 [][][] Underfull \hbox (badness 10000) detected at line 1764 [][][] Underfull \hbox (badness 10000) detected at line 1792 [][][] [387] Underfull \hbox (badness 10000) detected at line 1809 [][][] Underfull \hbox (badness 10000) detected at line 1823 [][][] ) [388] Chapter 8. (./struct_atom_force.tex Underfull \hbox (badness 10000) detected at line 32 [][][] [389]) (./structs_a_p_o_lparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/apolparm.[] [390] Underfull \hbox (badness 10000) detected at line 88 [][][] [391] Underfull \hbox (badness 10000) detected at line 224 [][][] [392] Underfull \hbox (badness 10000) detected at line 237 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 263 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] Underfull \hbox (badness 10000) detected at line 289 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] [393] Underfull \hbox (badness 10000) detected at line 315 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 354 [][][] Underfull \hbox (badness 10000) detected at line 367 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [394]) (./structs_b_e_mparm.tex [395] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/bemparm.[] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [396] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 155 [][][] [397] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] ) (./structs_f_e_mparm.tex Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/femparm.[] [398] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) in paragraph at lines 84--85 [399] [400] [401]) (./structs_g_e_o_f_l_o_wparm.tex Overfull \hbox (42.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/geoflowparm.[] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [402]) (./structs_m_gparm.tex [403] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] [404] Underfull \hbox (badness 10000) in paragraph at lines 149--150 Underfull \hbox (badness 10000) in paragraph at lines 180--181 [405] Underfull \hbox (badness 10000) in paragraph at lines 261--262 [406] [407] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 460 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [408] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] [409] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [410] Underfull \hbox (badness 10000) detected at line 642 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] ) (./structs_n_osh.tex [411] Underfull \hbox (badness 10000) detected at line 108 [][][] [412] [413] [414] [415] [416] [417]) (./structs_n_osh__calc.tex Underfull \hbox (badness 10000) detected at line 38 [][][] [418]) (./structs_p_b_a_mparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbamparm.[] [419] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] [420] [421] [422] [423]) (./structs_p_b_eparm.tex [424] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbeparm.[] [425] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] [426] [427] [428] Underfull \hbox (badness 10000) detected at line 391 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Underfull \hbox (badness 10000) detected at line 430 [][][] [429] Underfull \hbox (badness 10000) detected at line 473 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] [430] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] [431] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [432] [433]) (./structs_p_b_s_a_mparm.tex Overfull \hbox (30.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbsamparm.[] [434] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [435]) (./structs_vacc.tex [436] Underfull \hbox (badness 10000) detected at line 36 [][][] [437]) (./structs_vacc_surf.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [438]) (./structs_valist.tex [439] Underfull \hbox (badness 10000) detected at line 36 [][][] [440]) (./structs_vatom.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [441] Underfull \hbox (badness 10000) in paragraph at lines 62--63 Underfull \hbox (badness 10000) in paragraph at lines 93--94 Underfull \hbox (badness 10000) in paragraph at lines 114--115 ) (./structs_vclist.tex [442] Underfull \hbox (badness 10000) detected at line 40 [][][] [443]) (./structs_vclist_cell.tex [444] Underfull \hbox (badness 10000) detected at line 24 [][][] ) (./structs_vcsm.tex Underfull \hbox (badness 10000) detected at line 42 [][][] [445] [446]) (./structs_vfetk.tex Underfull \hbox (badness 10000) detected at line 60 [][][] [447] Underfull \hbox (badness 10000) in paragraph at lines 116--117 [448] [449]) (./structs_vfetk___local_var.tex [450] Underfull \hbox (badness 10000) detected at line 86 [][][] [451] [452] [453]) (./structs_vgreen.tex [454] Underfull \hbox (badness 10000) detected at line 34 [][][] [455]) (./structs_vgrid.tex Underfull \hbox (badness 10000) detected at line 52 [][][] [456] [457]) (./structs_vmgrid.tex Underfull \hbox (badness 10000) detected at line 24 [][][] [458]) (./structs_vopot.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [459]) (./structs_vparam___atom_data.tex Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [460]) (./structs_vpbe.tex [461] Underfull \hbox (badness 10000) detected at line 86 [][][] [462] [463] [464]) (./structs_vpee.tex [465] Underfull \hbox (badness 10000) detected at line 34 [][][] [466]) (./structs_vpmg.tex [467] Underfull \hbox (badness 10000) detected at line 116 [][][] [468] [469] [470] [471] [472]) (./structs_vpmgp.tex [473] [474] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) in paragraph at lines 164--165 Underfull \hbox (badness 10000) in paragraph at lines 175--176 Underfull \hbox (badness 10000) in paragraph at lines 186--187 [475] Underfull \hbox (badness 10000) in paragraph at lines 234--235 [476] [477] [478] [479] Underfull \hbox (badness 10000) in paragraph at lines 506--507 [480] Underfull \hbox (badness 10000) in paragraph at lines 527--528 Underfull \hbox (badness 10000) in paragraph at lines 548--549 Underfull \hbox (badness 10000) in paragraph at lines 589--590 [481] Underfull \hbox (badness 10000) in paragraph at lines 630--631 Underfull \hbox (badness 10000) in paragraph at lines 671--672 [482]) (./struct_vparam.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [483]) (./struct_vparam___res_data.tex Underfull \hbox (badness 10000) detected at line 28 [][][] [484]) [485] [486] Chapter 9. (./mainpage_8h_source.tex) (./apbs_8h.tex <./apbs_8h__incl.pdf> <./apbs_8h__dep __incl.pdf> [487] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [488]) (./apbs_8h_source.tex) (./vcsm_8c.tex [489] <./vcsm_8c__incl.pdf> [490] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] Underfull \hbox (badness 10000) detected at line 59 [][][] [491]) (./vcsm_8c_source.tex [492] [493] [494] [495] [496] [497]) (./vcsm_8h.tex <./vcsm_8h__incl.pdf> <./vcsm_8h__dep__incl.pdf> [498] [499] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] [500]) (./vcsm_8h_source.tex [501]) (./vfetk_8c.tex [502] <./vfetk_8c__incl.pdf > [503] [504] Underfull \hbox (badness 10000) detected at line 163 [][][] Underfull \hbox (badness 10000) detected at line 166 [][][] [505] Underfull \hbox (badness 10000) detected at line 169 [][][] [506] [507] [508] [509]) (./vfetk_8c_source.tex [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539]) (./vfetk_8h.tex [540] <./vfetk_8h__incl.pdf> <./vfetk_8h__dep__inc l.pdf> [541] [542] [543] Underfull \hbox (badness 10000) detected at line 189 [][][] [544] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 195 [][][] ) (./vfetk_8h_source.tex [545] [546] [547] [548] [549] [550]) (./vpee_8c.tex <. /vpee_8c__incl.pdf> [551] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] [552]) (./vpee_8c_source.tex [553] [554] [555] [556] [557] [558]) (./vpee_8h.tex <./vpee_8h__incl.pdf> [559] <./vpee_8h__dep__incl.pdf> [560] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] Underfull \hbox (badness 10000) detected at line 63 [][][] [561]) (./vpee_8h_source.tex [562]) (./apolparm_8c.tex <./apolparm_8c__incl.pdf > [563] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] [564] [565]) (./apolparm_8c_source.tex [566] [567] [568] [569] [570] [571] [572] [573]) (./apolparm_8h_source.tex [574]) (./bemparm_8c.tex <./bemparm_8c__ incl.pdf> [575] [576] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [577] Underfull \hbox (badness 10000) detected at line 121 [][][] ) (./bemparm_8c_source.tex [578] [579] [580] [581]) (./bemparm_8h_source.tex [582]) (./femparm_8c.tex <./femparm_8c__incl.pdf> [583] [584] Underfull \hbox (badness 10000) detected at line 59 [][][] Underfull \hbox (badness 10000) detected at line 62 [][][] Underfull \hbox (badness 10000) detected at line 65 [][][] [585] [586]) (./femparm_8c_source.tex [587] [588] [589] [590] [591]) (./femparm_8h.tex <./femparm_8h__incl.pdf> [592] <./femparm_8h__dep__incl.pdf> [593] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [594] Underfull \hbox (badness 10000) detected at line 95 [][][] ) (./femparm_8h_source.tex [595]) (./geoflowparm_8c.tex <./geoflowparm_8c__incl .pdf> [596] [597] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [598]) (./geoflowparm_8c_source.tex [599] [600]) (./geoflowparm_8h.tex <./geofl owparm_8h__incl.pdf> [601] <./geoflowparm_8h__dep__incl.pdf> [602] [603] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [604]) (./geoflowparm_8h_source.tex [605]) (./mgparm_8c.tex <./mgparm_8c__incl. pdf> [606] [607] Underfull \hbox (badness 10000) detected at line 95 [][][] Underfull \hbox (badness 10000) detected at line 98 [][][] Underfull \hbox (badness 10000) detected at line 101 [][][] [608] [609]) (./mgparm_8c_source.tex [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621]) (./mgparm_8h.tex <./mgparm_8h__incl.pdf> [622] <./mgparm_8h__dep__incl.pdf> [623] [624] Underfull \hbox (badness 10000) detected at line 104 [][][] Underfull \hbox (badness 10000) detected at line 107 [][][] Underfull \hbox (badness 10000) detected at line 110 [][][] [625]) (./mgparm_8h_source.tex [626]) (./nosh_8c.tex <./nosh_8c__incl.pdf> [627] [628] [629] Underfull \hbox (badness 10000) detected at line 151 [][][] Underfull \hbox (badness 10000) detected at line 154 [][][] Underfull \hbox (badness 10000) detected at line 157 [][][] [630] [631] [632] [633] [634]) (./nosh_8c_source.tex [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] [666] [667] [668] [669] [670] [671] [672] [673] [674]) (./nosh_8h.tex <./nosh_8h__incl.pdf> [675] <./nosh_8h__dep__incl.pdf> [676] [677] [678] Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] ) (./nosh_8h_source.tex [679] [680] [681]) (./pbamparm_8c.tex <./pbamparm_8c__i ncl.pdf> [682] [683] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [684]) (./pbamparm_8c_source.tex [685] [686] [687] [688] [689] [690] [691] [692] [693]) (./pbamparm_8h.tex <./pbamparm_8h__incl.pdf> <./pbamparm_8h__dep__ incl.pdf> [694] [695] Underfull \hbox (badness 10000) detected at line 102 [][][] [696] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 108 [][][] [697]) (./pbamparm_8h_source.tex [698]) (./pbeparm_8c.tex [699] <./pbeparm_8c__ incl.pdf> [700] Underfull \hbox (badness 10000) detected at line 101 [][][] Underfull \hbox (badness 10000) detected at line 104 [][][] Underfull \hbox (badness 10000) detected at line 107 [][][] [701] [702] [703] [704] [705]) (./pbeparm_8c_source.tex [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720]) (./pbeparm_8h.tex <./pbeparm_8h__incl.pdf> [721] <./pbeparm_8h__dep__incl.pdf> [722] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [723]) (./pbeparm_8h_source.tex [724] [725]) (./pbsamparm_8c.tex <./pbsamparm_8 c__incl.pdf> [726] [727] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [728]) (./pbsamparm_8c_source.tex [729] [730]) (./pbsamparm_8h.tex [731] <./pbs amparm_8h__incl.pdf> <./pbsamparm_8h__dep__incl.pdf> [732] [733] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [734]) (./pbsamparm_8h_source.tex [735]) (./vacc_8c.tex <./vacc_8c__incl.pdf> [736] [737] [738] Underfull \hbox (badness 10000) detected at line 107 [][][] Underfull \hbox (badness 10000) detected at line 110 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] [739] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] Underfull \hbox (badness 10000) detected at line 211 [][][] [740] [741]) (./vacc_8c_source.tex [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764]) (./vacc_8h.tex <./vacc_8h__incl.pdf> <./vacc_8h__dep__ incl.pdf> [765] [766] [767] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] [768]) (./vacc_8h_source.tex [769] [770] [771]) (./valist_8c.tex <./valist_8c__ incl.pdf> [772] [773] Underfull \hbox (badness 2293) in paragraph at lines 54--56 []\T1/phv/m/n/10 VPRIVATE Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/ m/n/10 thee, Vio $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 sock, int $\OMS/cmsy/m/n/ 10 ^^C$\T1/phv/m/n/10 serial, char atom[] Underfull \hbox (badness 10000) detected at line 82 [][][] Underfull \hbox (badness 10000) detected at line 85 [][][] Underfull \hbox (badness 10000) detected at line 88 [][][] [774] [775] [776]) (./valist_8c_source.tex [777] [778] [779] [780] [781] [782] [783] [784] [785] [786]) (./valist_8h.tex [787] <./valist_8h__incl.pdf> < ./valist_8h__dep__incl.pdf> [788] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] [789]) (./valist_8h_source.tex [790] [791]) (./vatom_8c.tex <./vatom_8c__incl.p df> [792] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [793]) (./vatom_8c_source.tex [794] [795] [796]) (./vatom_8h.tex <./vatom_8h__i ncl.pdf> [797] <./vatom_8h__dep__incl.pdf> [798] [799] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] ) (./vatom_8h_source.tex [800] [801]) (./vcap_8c.tex <./vcap_8c__incl.pdf> [802] Underfull \hbox (badness 10000) detected at line 31 [][][] Underfull \hbox (badness 10000) detected at line 34 [][][] Underfull \hbox (badness 10000) detected at line 37 [][][] [803]) (./vcap_8c_source.tex [804]) (./vcap_8h.tex <./vcap_8h__incl.pdf> <./vca p_8h__dep__incl.pdf> [805] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] [806] Underfull \hbox (badness 10000) detected at line 53 [][][] ) (./vcap_8h_source.tex [807]) (./vclist_8c.tex <./vclist_8c__incl.pdf> Underfull \hbox (badness 4060) in paragraph at lines 32--34 []\T1/phv/m/n/10 VPRIVATE void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 thee , dou-ble lower[]_[]corner[][][], dou-ble upper[]_[] [808] Underfull \hbox (badness 1297) in paragraph at lines 44--45 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m /n/10 thee, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 alist, dou-ble max[]_[]radi us, int npts[][][], Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] [809] [810]) (./vclist_8c_source.tex [811] [812] [813] [814] [815]) (./vclist_8h.tex [816] <./vclist_8h__incl.pdf> <./vclist_8h__dep__incl.pdf> [817] [818] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [819]) (./vclist_8h_source.tex [820]) (./vgreen_8c.tex <./vgreen_8c__incl.pdf> [821] [822] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] [823]) (./vgreen_8c_source.tex [824] [825] [826] [827] [828] [829]) (./vgreen_8h.tex <./vgreen_8h__incl.pdf> [830] <./vgreen_8h__dep__incl.pdf> [831] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] ) (./vgreen_8h_source.tex [832]) (./vhal_8h.tex [833] <./vhal_8h__incl.pdf> <./ vhal_8h__dep__incl.pdf> [834] [835] [836] [837] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 306 [][][] Underfull \hbox (badness 10000) detected at line 309 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 318--318 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [838] [839] [840] [841] [842] [843] [844]) (./vhal_8h_source.tex [845] [846] [847] [848] [849] [850] [851] [852]) (./vmatrix_8h.tex <./vmatrix_8h__dep__incl .pdf> [853] Underfull \hbox (badness 10000) detected at line 36 [][][] Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] [854] [855]) (./vmatrix_8h_source.tex [856]) (./vparam_8c.tex <./vparam_8c__inc l.pdf> [857] Underfull \hbox (badness 10000) detected at line 78 [][][] [858] Underfull \hbox (badness 10000) detected at line 81 [][][] Underfull \hbox (badness 10000) detected at line 84 [][][] ) (./vparam_8c_source.tex [859] [860] [861] [862] [863] [864] [865] [866]) (./vparam_8h.tex [867] <./vparam_8h__incl.pdf> <./vparam_8h__dep__incl.pdf> [868] [869] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] [870]) (./vparam_8h_source.tex [871]) (./vpbe_8c.tex <./vpbe_8c__incl.pdf> [872] [873] Underfull \hbox (badness 10000) detected at line 90 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] [874]) (./vpbe_8c_source.tex [875] [876] [877] [878] [879] [880]) (./vpbe_8h.tex <./vpbe_8h__incl.pdf> [881] <./vpbe_8h__dep__incl.pdf> [882] [883] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] Underfull \hbox (badness 10000) detected at line 117 [][][] [884]) (./vpbe_8h_source.tex [885] [886]) (./vstring_8c.tex <./vstring_8c__incl .pdf> [887] Underfull \hbox (badness 10000) detected at line 31 [][][] Underfull \hbox (badness 10000) detected at line 34 [][][] Underfull \hbox (badness 10000) detected at line 37 [][][] [888]) (./vstring_8c_source.tex [889] [890]) (./vstring_8h.tex <./vstring_8h__i ncl.pdf> [891] <./vstring_8h__dep__incl.pdf> Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [892] Underfull \hbox (badness 10000) detected at line 47 [][][] ) (./vstring_8h_source.tex [893]) (./vunit_8h.tex <./vunit_8h__dep__incl.pdf> [894] LaTeX Warning: Command \r invalid in math mode on input line 42. Missing character: There is no Å in font cmr9! Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [895]) (./vunit_8h_source.tex) (./main_8c.tex <./main_8c__incl.pdf> [896] Underfull \hbox (badness 10000) detected at line 28 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [897]) (./main_8c_source.tex [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908]) (./vgrid_8c.tex <./vgrid_8c__incl.pdf> [909] [910] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [911] Underfull \hbox (badness 10000) detected at line 174 [][][] [912]) (./vgrid_8c_source.tex [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935]) (./vgrid_8h.tex <./vgrid_8h__incl.pdf> [936] <./vgrid_ 8h__dep__incl.pdf> [937] [938] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] [939] Underfull \hbox (badness 10000) detected at line 165 [][][] ) (./vgrid_8h_source.tex [940] [941]) (./vmgrid_8c.tex <./vmgrid_8c__incl.pdf> [942] [943] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Overfull \hbox (1024.08331pt too wide) in paragraph at lines 59--59 []\T1/pcr/m/n/8 * Copyright (c) 2010, Pacific Northwest National Laboratory. Portions Copyright (c) 2002-2020, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2020, T he Regents of the University of California. Portions Copyright (c) 1995, Michae l Holst.[] ) (./vmgrid_8c_source.tex [944] [945] [946]) (./vmgrid_8h.tex <./vmgrid_8h__inc l.pdf> <./vmgrid_8h__dep__incl.pdf> [947] [948] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [949]) (./vmgrid_8h_source.tex) (./vopot_8c.tex [950] <./vopot_8c__incl.pdf> Underfull \hbox (badness 10000) detected at line 44 [][][] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] [951]) (./vopot_8c_source.tex [952] [953] [954] [955] [956]) (./vopot_8h.tex <. /vopot_8h__incl.pdf> <./vopot_8h__dep__incl.pdf> [957] [958] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] ) (./vopot_8h_source.tex [959]) (./vpmg_8c.tex <./vpmg_8c__incl.pdf> [960] [961] [962] [963] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 176 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [964] Underfull \hbox (badness 10000) detected at line 261 [][][] [965] Underfull \hbox (badness 10000) detected at line 288 [][][] [966] Underfull \hbox (badness 10000) detected at line 384 [][][] Underfull \hbox (badness 10000) detected at line 387 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] [967] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] Underfull \hbox (badness 10000) detected at line 459 [][][] Underfull \hbox (badness 10000) detected at line 462 [][][] Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] [968] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 534 [][][] Underfull \hbox (badness 10000) detected at line 537 [][][] Underfull \hbox (badness 10000) detected at line 554 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] [969] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 591 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 642 [][][] [970] Underfull \hbox (badness 10000) detected at line 659 [][][] Underfull \hbox (badness 10000) detected at line 676 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 717 [][][] [971] Underfull \hbox (badness 10000) detected at line 734 [][][] Underfull \hbox (badness 10000) detected at line 751 [][][] Underfull \hbox (badness 10000) detected at line 768 [][][] Underfull \hbox (badness 10000) detected at line 795 [][][] [972] Underfull \hbox (badness 10000) detected at line 832 [][][] [973] Underfull \hbox (badness 10000) detected at line 876 [][][] [974] Underfull \hbox (badness 10000) detected at line 926 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] [975] Underfull \hbox (badness 10000) detected at line 970 [][][] Underfull \hbox (badness 10000) detected at line 992 [][][] Underfull \hbox (badness 10000) detected at line 995 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1015 [][][] Underfull \hbox (badness 10000) detected at line 1037 [][][] Underfull \hbox (badness 10000) detected at line 1040 [][][] [976] Underfull \hbox (badness 10000) detected at line 1062 [][][] Underfull \hbox (badness 10000) detected at line 1065 [][][] Underfull \hbox (badness 10000) detected at line 1097 [][][] [977] Underfull \hbox (badness 10000) detected at line 1114 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] ) (./vpmg_8c_source.tex [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113]) (./vpmg_8h.tex <./vpmg_8h__incl.pdf> [1114] <./vpmg_8h__dep__incl.pdf> [1115] [1116] [1117] [1118] [1119] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 238 [][][] Underfull \hbox (badness 10000) detected at line 241 [][][] [1120] [1121] Underfull \hbox (badness 10000) detected at line 441 [][][] [1122] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 504 [][][] [1123] Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 529 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] Underfull \hbox (badness 10000) detected at line 554 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 579 [][][] [1124] Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] [1125] Underfull \hbox (badness 10000) detected at line 654 [][][] Underfull \hbox (badness 10000) detected at line 657 [][][] Underfull \hbox (badness 10000) detected at line 674 [][][] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 711 [][][] [1126] Underfull \hbox (badness 10000) detected at line 728 [][][] Underfull \hbox (badness 10000) detected at line 745 [][][] Underfull \hbox (badness 10000) detected at line 762 [][][] Underfull \hbox (badness 10000) detected at line 779 [][][] Underfull \hbox (badness 10000) detected at line 796 [][][] [1127] Underfull \hbox (badness 10000) detected at line 817 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] Underfull \hbox (badness 10000) detected at line 837 [][][] Underfull \hbox (badness 10000) detected at line 854 [][][] Underfull \hbox (badness 10000) detected at line 871 [][][] [1128] Underfull \hbox (badness 10000) detected at line 888 [][][] Underfull \hbox (badness 10000) detected at line 905 [][][] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 931 [][][] [1129] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 992 [][][] [1130] Underfull \hbox (badness 10000) detected at line 1022 [][][] Underfull \hbox (badness 10000) detected at line 1044 [][][] Underfull \hbox (badness 10000) detected at line 1066 [][][] [1131] Underfull \hbox (badness 10000) detected at line 1088 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1108 [][][] Underfull \hbox (badness 10000) detected at line 1111 [][][] Underfull \hbox (badness 10000) detected at line 1133 [][][] Underfull \hbox (badness 10000) detected at line 1136 [][][] [1132] Underfull \hbox (badness 10000) detected at line 1158 [][][] Underfull \hbox (badness 10000) detected at line 1161 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] [1133] Underfull \hbox (badness 10000) detected at line 1242 [][][] Underfull \hbox (badness 10000) detected at line 1245 [][][] ) (./vpmg_8h_source.tex [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142]) (./vpmgp_8c.tex <./vpmgp_8c__incl.pdf> [1143] Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 45 [][][] [1144]) (./vpmgp_8c_source.tex [1145] [1146] [1147]) (./vpmgp_8h.tex [1148] <./ vpmgp_8h__incl.pdf> <./vpmgp_8h__dep__incl.pdf> [1149] [1150] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] [1151]) (./vpmgp_8h_source.tex [1152]) (./build_ad_8c_source.tex [1153] [1154] [1155]) (./build_ad_8h_source.tex [1156]) (./build_bd_8c_source.tex [1157] [1158] [1159] [1160]) (./build_bd_8h_source.tex [1161]) (./build_gd_8c_source.tex [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199]) (./build_gd_8h_source.tex [1200] [1201]) (./build_pd_8c_source.tex [1202] [1203] [1204] [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220]) (./build_pd_8h_source.tex [1221] [1222] [1223]) (./cgd_8c_source.tex) (./cgd_8h_source.tex [1224]) (./gsd_8c_source.tex [1225] [1226] [1227] [1228]) (./gsd_8h_source.tex [1229]) (./matvecd_8c_source.tex [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242]) (./matvecd_8h_source.tex [1243] [1244] [1245] [1246] [1247] [1248]) (./mgcsd_8c_source.tex [1249] [1250] [1251] [1252] [1253] [1254]) (./mgcsd_8h_source.tex [1255]) (./mgdrvd_8c_source.tex [1256] [1257] [1258] [1259] [1260] [1261] [1262]) (./mgdrvd_8h_source.tex [1263] [1264]) (./mgfasd_8c_source.tex [1265] [1266] [1267] [1268] [1269] [1270]) (./mgfasd_8h_source.tex [1271] [1272]) (./mgsubd_8c_source.tex [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283]) (./mgsubd_8h_source.tex [1284] [1285] [1286] [1287]) (./mikpckd_8c_source.tex [1288] [1289] [1290] [1291]) (./mikpckd_8h_source.tex [1292] [1293] [1294]) (./mlinpckd_8c_source.tex [1295] [1296]) (./mlinpckd_8h_source.tex) (./mypdec_8c_source.tex [1297] [1298] [1299] [1300] [1301] [1302] [1303]) (./mypdec_8h_source.tex [1304]) (./newdrvd_8c_source.tex [1305] [1306] [1307] [1308]) (./newdrvd_8h_source.tex [1309]) (./newtond_8c_source.tex [1310] [1311] [1312] [1313] [1314] [1315] [1316]) (./newtond_8h_source.tex [1317]) (./powerd_8c_source.tex [1318] [1319] [1320] [1321] [1322]) (./powerd_8h_source.tex [1323]) (./smoothd_8c_source.tex [1324]) (./smoothd_8h_source.tex [1325]) (./routines_8c.tex <./routines_8c__incl.pdf> [1326] Underfull \hbox (badness 776) in paragraph at lines 48--49 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv /m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[] Underfull \hbox (badness 2856) in paragraph at lines 48--49 \T1/phv/m/n/10 YMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]ZMap[] [][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 kappa[]Map[][][], [] Underfull \hbox (badness 1237) in paragraph at lines 48--49 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 905) in paragraph at lines 62--63 []\T1/phv/m/n/10 VPUBLIC void [] (Vmem $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 mem , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy /m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 5817) in paragraph at lines 68--69 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 70--71 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1327] Underfull \hbox (badness 1442) in paragraph at lines 82--83 []\T1/phv/m/n/10 VPUBLIC int [] (Vcom $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 com, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy/ m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 931) in paragraph at lines 88--89 []\T1/phv/m/n/10 VPUBLIC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T 1/phv/m/n/10 fetk[][][], Gem Underfull \hbox (badness 2495) in paragraph at lines 90--91 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] [1328] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] ) (./routines_8c_source.tex [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] 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LaTeX Warning: Label `group___vhal_ga068e237d419d537df01fc0fad01e24e8' multiply defined. ) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (./refman.out) (./refman.out) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texlive/texmf-dist/tex/latex/wasysym/uwasy.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}{/usr/share/texlive/texmf-dist/fonts/enc/dvips /base/8r.enc}] [2] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] (./index.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1phv.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [1] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [2]) (./bug.tex [3] [4] Chapter 2. Underfull \hbox (badness 10000) in paragraph at lines 5--9 Underfull \hbox (badness 10000) in paragraph at lines 9--13 Underfull \hbox (badness 10000) in paragraph at lines 13--17 Underfull \hbox (badness 10000) in paragraph at lines 25--29 Underfull \hbox (badness 10000) in paragraph at lines 29--33 Underfull \hbox (badness 10000) in paragraph at lines 33--37 Underfull \hbox (badness 10000) in paragraph at lines 37--41 Underfull \hbox (badness 10000) in paragraph at lines 41--45 Underfull \hbox (badness 10000) in paragraph at lines 45--49 Underfull \hbox (badness 10000) in paragraph at lines 49--53 Underfull \hbox (badness 10000) in paragraph at lines 53--57 [5] Underfull \hbox (badness 10000) in paragraph at lines 57--61 Underfull \hbox (badness 10000) in paragraph at lines 61--65 Underfull \hbox (badness 10000) in paragraph at lines 65--69 Underfull \hbox (badness 10000) in paragraph at lines 73--77 Underfull \hbox (badness 10000) in paragraph at lines 77--81 Underfull \hbox (badness 10000) in paragraph at lines 81--85 Underfull \hbox (badness 10000) in paragraph at lines 85--89 Underfull \hbox (badness 10000) in paragraph at lines 93--97 Underfull \hbox (badness 10000) in paragraph at lines 97--101 Underfull \hbox (badness 10000) in paragraph at lines 101--105 Underfull \hbox (badness 10000) in paragraph at lines 109--113 Underfull \hbox (badness 10000) in paragraph at lines 113--117 Underfull \hbox (badness 10000) in paragraph at lines 117--121 Underfull \hbox (badness 10000) in paragraph at lines 121--125 [6] Underfull \hbox (badness 10000) in paragraph at lines 125--129 Underfull \hbox (badness 10000) in paragraph at lines 129--133 Underfull \hbox (badness 10000) in paragraph at lines 133--137 Underfull \hbox (badness 10000) in paragraph at lines 137--141 Underfull \hbox (badness 10000) in paragraph at lines 141--145 Underfull \hbox (badness 10000) in paragraph at lines 145--149 ) (./deprecated.tex [7] [8] Chapter 3. Underfull \hbox (badness 10000) in paragraph at lines 5--9 ) [9] [10] Chapter 4. (./topics.tex) [11] [12] Chapter 5. (./annotated.tex [13]) [14] Chapter 6. (./files.tex [15] [16] [17]) [18] Chapter 7. (./group___header.tex) (./group___vcsm.tex [19] Underfull \hbox (badness 10000) detected at line 93 [][][] [20] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 121 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] Underfull \hbox (badness 10000) detected at line 148 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] [21] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] [22] Underfull \hbox (badness 10000) detected at line 252 [][][] Underfull \hbox (badness 10000) detected at line 255 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 284 [][][] Underfull \hbox (badness 10000) 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10000) detected at line 677 [][][] [35] Underfull \hbox (badness 10000) detected at line 707 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] Underfull \hbox (badness 10000) detected at line 736 [][][] Underfull \hbox (badness 10000) detected at line 741 [][][] [36] Underfull \hbox (badness 10000) detected at line 767 [][][] Underfull \hbox (badness 10000) detected at line 795 [][][] Underfull \hbox (badness 10000) detected at line 798 [][][] [37] Underfull \hbox (badness 10000) detected at line 820 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 826 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 853 [][][] Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 878 [][][] [38] Underfull \hbox (badness 10000) detected at line 881 [][][] Underfull \hbox (badness 10000) detected at line 905 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 930 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] [39] Underfull \hbox (badness 10000) detected at line 955 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1005 [][][] Underfull \hbox (badness 10000) detected at line 1008 [][][] [40] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] Underfull \hbox (badness 10000) detected at line 1062 [][][] [41] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Underfull \hbox (badness 10000) detected at line 1115 [][][] [42] Underfull \hbox (badness 10000) detected at line 1152 [][][] Underfull \hbox (badness 10000) detected at line 1155 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1813 [][][] Underfull \hbox (badness 10000) detected at line 1816 [][][] Underfull \hbox (badness 10000) detected at line 1819 [][][] Underfull \hbox (badness 10000) detected at line 1841 [][][] [54] Underfull \hbox (badness 10000) detected at line 1867 [][][] Underfull \hbox (badness 10000) detected at line 1887 [][][] Underfull \hbox (badness 10000) detected at line 1892 [][][] ) (./group___vpee.tex [55] Underfull \hbox (badness 849) in paragraph at lines 45--46 \T1/phv/m/n/10 Holst par-al-lel re-fine-ment rou-tine es-sen-tially re-duces th e er-ror out-side the \T1/pcr/m/n/10 local" partition to zero. Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 However, this leads to the need for a few final overlapping Schw arz solves to Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 smooth out the errors near partition boundaries. Supposedly, if the region in Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 which we allow error-based refinement includes the$\OML/cmm/m/it /10 <$\T1/pcr/m/n/10 /tt$\OML/cmm/m/it/10 >$\T1/pcr/m/n/10 local" partition and an Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 external buffer zone approximately equal in size to the local re gion, then the Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 solution will asymptotically approach the solution obtained via more typical Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 methods. This is essentially a more flexible parallel implementa tion of MC\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s [56] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [57] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 171 [][][] [58] Underfull \hbox (badness 10000) detected at line 195 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] [59] Underfull \hbox (badness 10000) detected at line 241 [][][] Underfull \hbox (badness 10000) detected at line 244 [][][] ) (./group___a_p_o_lparm.tex [60] [61] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] [62] Underfull \hbox (badness 10000) detected at line 253 [][][] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 280 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] [63] Underfull \hbox (badness 10000) detected at line 322 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] ) (./group___b_e_mparm.tex [64] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] [65] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 133 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] [66] Underfull \hbox (badness 10000) detected at line 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detected at line 348 [][][] Underfull \hbox (badness 10000) detected at line 370 [][][] ) (./group___g_e_o_f_l_o_wparm.tex [72] [73] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] [74] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] [75] Underfull \hbox (badness 10000) detected at line 225 [][][] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] ) (./group___m_gparm.tex [76] [77] [78] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 233 [][][] [79] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 262 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [80] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 336 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [81] Underfull \hbox (badness 10000) detected at line 402 [][][] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Underfull \hbox (badness 10000) detected at line 457 [][][] [82] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 482 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 524 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] [83] Underfull \hbox (badness 10000) detected at line 549 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 599 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] [84] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] Underfull \hbox (badness 10000) detected at line 661 [][][] Underfull \hbox (badness 10000) detected at line 678 [][][] [85] Underfull \hbox (badness 10000) detected at line 702 [][][] Underfull \hbox (badness 10000) detected at line 726 [][][] ) (./group___n_osh.tex [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) detected at line 447 [][][] [91] Underfull \hbox (badness 10000) detected at line 457 [][][] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 498 [][][] Underfull \hbox (badness 10000) detected at line 506 [][][] Underfull \hbox (badness 10000) detected at line 523 [][][] [92] Underfull \hbox (badness 10000) detected at line 545 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 584 [][][] [93] Underfull \hbox (badness 10000) detected at line 601 [][][] Underfull \hbox (badness 10000) detected at line 623 [][][] Underfull \hbox (badness 10000) detected at line 645 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] [94] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 685 [][][] Underfull \hbox (badness 10000) detected at line 688 [][][] Underfull \hbox (badness 10000) detected at line 705 [][][] Underfull \hbox (badness 10000) detected at line 715 [][][] [95] Underfull \hbox (badness 10000) detected at line 732 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 759 [][][] Underfull \hbox (badness 10000) detected at line 769 [][][] Underfull \hbox (badness 10000) detected at line 786 [][][] [96] Underfull \hbox (badness 10000) detected at line 796 [][][] Underfull \hbox (badness 10000) detected at line 813 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 840 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] [97] Underfull \hbox (badness 10000) detected at line 867 [][][] Underfull \hbox (badness 10000) detected at line 877 [][][] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 904 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] [98] Underfull \hbox (badness 10000) detected at line 931 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 985 [][][] [99] Underfull \hbox (badness 10000) detected at line 1002 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1029 [][][] Underfull \hbox (badness 10000) detected at line 1032 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] [100] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1074 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1094 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] [101] Underfull \hbox (badness 10000) detected at line 1126 [][][] Underfull \hbox (badness 10000) detected at line 1129 [][][] Underfull \hbox (badness 10000) detected at line 1139 [][][] Underfull \hbox (badness 10000) detected at line 1142 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1162 [][][] Underfull \hbox (badness 10000) detected at line 1174 [][][] Underfull \hbox (badness 10000) detected at line 1177 [][][] [102] Underfull \hbox (badness 10000) detected at line 1194 [][][] Underfull \hbox (badness 10000) detected at line 1197 [][][] Underfull \hbox (badness 10000) detected at line 1207 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1227 [][][] Underfull \hbox (badness 10000) detected at line 1230 [][][] Underfull \hbox (badness 10000) detected at line 1240 [][][] [103] Underfull \hbox (badness 10000) detected at line 1264 [][][] Underfull \hbox (badness 10000) detected at line 1267 [][][] Underfull \hbox (badness 10000) detected at line 1277 [][][] ) (./group___p_b_a_mparm.tex [104] [105] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] [106] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 197 [][][] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 229 [][][] [107] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 256 [][][] Underfull \hbox (badness 10000) detected at line 273 [][][] Underfull \hbox (badness 10000) detected at line 295 [][][] [108] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [109] Underfull \hbox (badness 10000) detected at line 389 [][][] Underfull \hbox (badness 10000) detected at line 413 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] [110] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 485 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] [111] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 581 [][][] Underfull \hbox (badness 10000) detected at line 593 [][][] [112] Underfull \hbox (badness 10000) detected at line 610 [][][] Underfull \hbox (badness 10000) detected at line 634 [][][] ) (./group___p_b_eparm.tex [113] [114] [115] Underfull \hbox (badness 10000) detected at line 209 [][][] Underfull \hbox (badness 10000) detected at line 212 [][][] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] Underfull \hbox (badness 10000) detected at line 261 [][][] [116] Underfull \hbox (badness 10000) detected at line 278 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 325 [][][] [117] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] [118] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 431 [][][] ) (./group___p_b_s_a_mparm.tex [119] [120] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] [121] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 205 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 240 [][][] [122] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 301 [][][] [123] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] [124] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 426 [][][] ) (./group___vacc.tex [125] [126] [127] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [128] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 242 [][][] [129] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 283 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] Underfull \hbox (badness 10000) detected at line 308 [][][] [130] Underfull \hbox (badness 10000) detected at line 334 [][][] Underfull \hbox (badness 10000) detected at line 337 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [131] Underfull \hbox (badness 10000) detected at line 387 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] Underfull \hbox (badness 10000) detected at line 414 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] [132] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 472 [][][] Underfull \hbox (badness 10000) detected at line 475 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] [133] Underfull \hbox (badness 10000) detected at line 502 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 562 [][][] [134] Underfull \hbox (badness 10000) detected at line 565 [][][] Underfull \hbox (badness 10000) detected at line 595 [][][] Underfull \hbox (badness 10000) detected at line 598 [][][] [135] Underfull \hbox (badness 10000) detected at line 628 [][][] Underfull \hbox (badness 10000) detected at line 660 [][][] [136] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 724 [][][] [137] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 790 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] [138] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 855 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] Underfull \hbox (badness 10000) detected at line 882 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] Underfull \hbox (badness 10000) detected at line 888 [][][] [139] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] Underfull \hbox (badness 10000) detected at line 941 [][][] Underfull \hbox (badness 10000) detected at line 944 [][][] [140] Underfull \hbox (badness 10000) detected at line 972 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1007 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] [141] Underfull \hbox (badness 10000) detected at line 1040 [][][] Underfull \hbox (badness 10000) detected at line 1043 [][][] Underfull \hbox (badness 10000) detected at line 1069 [][][] Underfull \hbox (badness 10000) detected at line 1072 [][][] [142] Underfull \hbox (badness 10000) detected at line 1100 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Underfull \hbox (badness 10000) detected at line 1152 [][][] [143]) (./group___valist.tex [144] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [145] Underfull \hbox (badness 10000) detected at line 136 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 183 [][][] [146] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 260 [][][] [147] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 310 [][][] Underfull \hbox (badness 10000) detected at line 332 [][][] Underfull \hbox (badness 10000) detected at line 335 [][][] [148] Underfull \hbox (badness 10000) detected at line 352 [][][] Underfull \hbox (badness 10000) detected at line 355 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] [149] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 415 [][][] Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] ) (./group___vatom.tex [150] [151] Underfull \hbox (badness 10000) detected at line 97 [][][] [152] Underfull \hbox (badness 10000) detected at line 134 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] [153] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 227 [][][] Underfull \hbox (badness 10000) detected at line 249 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] [154] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 320 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 345 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] [155] Underfull \hbox (badness 10000) detected at line 370 [][][] Underfull \hbox (badness 10000) detected at line 378 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] Underfull \hbox (badness 10000) detected at line 428 [][][] [156] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 469 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 494 [][][] [157] Underfull \hbox (badness 10000) detected at line 518 [][][] Underfull \hbox (badness 10000) detected at line 542 [][][] Underfull \hbox (badness 10000) detected at line 566 [][][] [158] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 614 [][][] Underfull \hbox (badness 10000) detected at line 638 [][][] [159] Underfull \hbox (badness 10000) detected at line 662 [][][] ) (./group___vcap.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [160] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [161] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] ) (./group___vclist.tex [162] [163] Underfull \hbox (badness 10000) detected at line 126 [][][] [164] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] Underfull \hbox (badness 10000) detected at line 191 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] [165] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 275 [][][] [166] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [167] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 423 [][][] [168]) (./group___vgreen.tex [169] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [170] Underfull \hbox (badness 10000) detected at line 141 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] [171] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] [172] Underfull \hbox (badness 10000) detected at line 215 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] [173] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 334 [][][] [174] Underfull \hbox (badness 10000) detected at line 351 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] [175] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 429 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] [176] Underfull \hbox (badness 10000) detected at line 471 [][][] Underfull \hbox (badness 10000) detected at line 476 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] Underfull \hbox (badness 10000) detected at line 517 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] ) (./group___vhal.tex [177] [178] [179] [180] [181] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 421 [][][] Underfull \hbox (badness 10000) detected at line 438 [][][] Underfull \hbox (badness 10000) detected at line 455 [][][] [182] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Underfull \hbox (badness 10000) detected at line 526 [][][] Underfull \hbox (badness 10000) detected at line 567 [][][] [183] [184] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 819 [][][] [185] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] [186] Underfull \hbox (badness 10000) detected at line 932 [][][] Missing character: There is no Å in font cmr10! Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 58. Missing character: There is no Å in font cmr10! [187] [188] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1112 [][][] Underfull \hbox (badness 10000) detected at line 1140 [][][] Underfull \hbox (badness 10000) detected at line 1143 [][][] [189] Underfull \hbox (badness 10000) detected at line 1160 [][][] ) (./group___vmatrix.tex) (./group___vparam.tex [190] [191] [192] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] Underfull \hbox (badness 10000) detected at line 206 [][][] [193] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 274 [][][] Underfull \hbox (badness 10000) detected at line 282 [][][] [194] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 343 [][][] Underfull \hbox (badness 10000) detected at line 346 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] [195] Underfull \hbox (badness 10000) detected at line 371 [][][] Underfull \hbox (badness 10000) detected at line 388 [][][] Underfull \hbox (badness 10000) detected at line 410 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] [196] Underfull \hbox (badness 10000) detected at line 444 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 467 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 480 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] [197] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [198] Underfull \hbox (badness 10000) detected at line 571 [][][] Underfull \hbox (badness 10000) detected at line 587 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 628 [][][] [199] Underfull \hbox (badness 10000) detected at line 636 [][][] Underfull \hbox (badness 10000) detected at line 653 [][][] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 680 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] [200]) (./group___vpbe.tex [201] [202] [203] Underfull \hbox (badness 10000) detected at line 128 [][][] Underfull \hbox (badness 10000) detected at line 131 [][][] LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 136 [][][] [204] Underfull \hbox (badness 10000) detected at line 186 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 195 [][][] [205] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 291 [][][] [206] Underfull \hbox (badness 10000) detected at line 299 [][][] Overfull \hbox (151.96916pt too wide) in paragraph at lines 318--318 [] \T1/p cr/m/n/8 permittivity equal to the protein interior) and zero ionic[] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 333 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 358 [][][] Underfull \hbox (badness 10000) detected at line 375 [][][] [207] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 396 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] [208] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 478 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] [209] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 550 [][][] Underfull \hbox (badness 10000) detected at line 558 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] [210] Underfull \hbox (badness 10000) detected at line 600 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 633 [][][] Underfull \hbox (badness 10000) detected at line 650 [][][] Underfull \hbox (badness 10000) detected at line 658 [][][] [211] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 683 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 708 [][][] Underfull \hbox (badness 10000) detected at line 725 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] [212] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 775 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Underfull \hbox (badness 10000) detected at line 800 [][][] Underfull \hbox (badness 10000) detected at line 808 [][][] [213] Underfull \hbox (badness 10000) detected at line 825 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] LaTeX Warning: Command \r invalid in math mode on input line 859. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 883 [][][] [214] Underfull \hbox (badness 10000) detected at line 900 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] ) (./group___vstring.tex [215] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [216] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] ) (./group___vunit.tex [217] LaTeX Warning: Command \r invalid in math mode on input line 39. Missing character: There is no Å in font cmr9! [218] LaTeX Warning: Command \r invalid in math mode on input line 142. Missing character: There is no Å in font cmr10! [219]) (./group___vgrid.tex [220] [221] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 151 [][][] [222] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [223] Underfull \hbox (badness 10000) detected at line 229 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 290 [][][] [224] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 319 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [225] Underfull \hbox (badness 10000) detected at line 369 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] [226] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 470 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [227] Underfull \hbox (badness 10000) detected at line 489 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 528 [][][] Underfull \hbox (badness 10000) detected at line 531 [][][] [228] Underfull \hbox (badness 10000) detected at line 548 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] Underfull \hbox (badness 10000) detected at line 600 [][][] [229] Underfull \hbox (badness 10000) detected at line 612 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [230] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] ) (./group___vmgrid.tex [231] [232] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 135 [][][] [233] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 160 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] [234] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 264 [][][] [235] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 300 [][][] Underfull \hbox (badness 10000) detected at line 312 [][][] Underfull \hbox (badness 10000) detected at line 329 [][][] [236] Underfull \hbox (badness 10000) detected at line 341 [][][] ) (./group___vopot.tex [237] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [238] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 137 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 170 [][][] [239] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 214 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] Underfull \hbox (badness 10000) detected at line 243 [][][] [240] Underfull \hbox (badness 10000) detected at line 255 [][][] ) (./group___vpmg.tex [241] [242] [243] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] [244] Underfull \hbox (badness 10000) detected at line 186 [][][] [245] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] [246] Underfull \hbox (badness 10000) detected at line 324 [][][] [247] Underfull \hbox (badness 10000) detected at line 362 [][][] Underfull \hbox (badness 10000) detected at line 381 [][][] Underfull \hbox (badness 10000) detected at line 384 [][][] [248] Underfull \hbox (badness 10000) detected at line 416 [][][] Underfull \hbox (badness 10000) detected at line 419 [][][] Underfull \hbox (badness 10000) detected at line 422 [][][] [249] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] [250] Underfull \hbox (badness 10000) detected at line 520 [][][] Underfull \hbox (badness 10000) detected at line 546 [][][] [251] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 610 [][][] [252] Underfull \hbox (badness 10000) detected at line 643 [][][] Underfull \hbox (badness 10000) detected at line 646 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] Underfull \hbox (badness 10000) detected at line 690 [][][] Underfull \hbox (badness 10000) detected at line 712 [][][] [253] Underfull \hbox (badness 10000) detected at line 715 [][][] Underfull \hbox (badness 10000) detected at line 718 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 764 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] [254] Underfull \hbox (badness 10000) detected at line 799 [][][] Underfull \hbox (badness 10000) detected at line 802 [][][] [255] Underfull \hbox (badness 10000) detected at line 856 [][][] Underfull \hbox (badness 10000) detected at line 859 [][][] Underfull \hbox (badness 10000) detected at line 864 [][][] [256] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 920 [][][] Underfull \hbox (badness 10000) detected at line 923 [][][] Underfull \hbox (badness 10000) detected at line 928 [][][] [257] Underfull \hbox (badness 10000) detected at line 956 [][][] Underfull \hbox (badness 10000) detected at line 982 [][][] [258] Underfull \hbox (badness 10000) detected at line 1008 [][][] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1055 [][][] [259] Underfull \hbox (badness 10000) detected at line 1093 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] Underfull \hbox (badness 10000) detected at line 1099 [][][] [260] Underfull \hbox (badness 10000) detected at line 1123 [][][] Underfull \hbox (badness 10000) detected at line 1160 [][][] Underfull \hbox (badness 10000) detected at line 1163 [][][] Underfull \hbox (badness 10000) detected at line 1166 [][][] [261] Underfull \hbox (badness 10000) detected at line 1190 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1198 [][][] Underfull \hbox (badness 10000) detected at line 1226 [][][] [262] Underfull \hbox (badness 10000) detected at line 1252 [][][] Underfull \hbox (badness 10000) detected at line 1280 [][][] Underfull \hbox (badness 10000) detected at line 1283 [][][] [263] Underfull \hbox (badness 10000) detected at line 1303 [][][] Underfull \hbox (badness 10000) detected at line 1343 [][][] Underfull \hbox (badness 10000) detected at line 1346 [][][] Underfull \hbox (badness 10000) detected at line 1349 [][][] [264] Underfull \hbox (badness 10000) detected at line 1373 [][][] Underfull \hbox (badness 10000) detected at line 1401 [][][] Underfull \hbox (badness 10000) detected at line 1404 [][][] [265] Underfull \hbox (badness 10000) detected at line 1426 [][][] Underfull \hbox (badness 10000) detected at line 1429 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] ) (./group___vpmgp.tex [266] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] [267] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 130 [][][] Underfull \hbox (badness 10000) detected at line 152 [][][] [268] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] ) (./group___p_m_g_c.tex [269] [270] [271] [272] [273] Underfull \hbox (badness 10000) detected at line 155 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 170--170 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [274] Underfull \hbox (badness 10000) detected at line 217 [][][] Underfull \hbox (badness 10000) detected at line 220 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 232--232 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [275] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 313 [][][] Underfull \hbox (badness 10000) detected at line 316 [][][] [276] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [277] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 400 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 409--409 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 444 [][][] [278] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] [279] Overfull \hbox (304.08286pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 561 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 573--573 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [280] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 611 [][][] [281] Underfull \hbox (badness 10000) detected at line 651 [][][] Underfull \hbox (badness 10000) detected at line 654 [][][] [282] Underfull \hbox (badness 10000) detected at line 724 [][][] Underfull \hbox (badness 10000) detected at line 727 [][][] [283] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 780 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 793--793 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [284] Underfull \hbox (badness 10000) detected at line 830 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 842--842 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [285] [286] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 915 [][][] [287] [288] [289] Underfull \hbox (badness 10000) detected at line 1055 [][][] Underfull \hbox (badness 10000) detected at line 1058 [][][] [290] [291] [292] Underfull \hbox (badness 10000) detected at line 1234 [][][] Underfull \hbox (badness 10000) detected at line 1237 [][][] [293] [294] Underfull \hbox (badness 10000) detected at line 1387 [][][] Underfull \hbox (badness 10000) detected at line 1390 [][][] Underfull \hbox (badness 10000) detected at line 1393 [][][] [295] Underfull \hbox (badness 10000) detected at line 1451 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1467--1467 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [296] Underfull \hbox (badness 10000) detected at line 1504 [][][] Underfull \hbox (badness 10000) detected at line 1507 [][][] [297] Underfull \hbox (badness 10000) detected at line 1587 [][][] Underfull \hbox (badness 10000) detected at line 1590 [][][] Underfull \hbox (badness 10000) detected at line 1593 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1603--1603 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [298] Underfull \hbox (badness 10000) detected at line 1640 [][][] Underfull \hbox (badness 10000) detected at line 1643 [][][] Underfull \hbox (badness 10000) detected at line 1646 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1655--1655 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [299] Underfull \hbox (badness 10000) detected at line 1733 [][][] Underfull \hbox (badness 10000) detected at line 1738 [][][] Underfull \hbox (badness 10000) detected at line 1741 [][][] [300] Underfull \hbox (badness 10000) detected at line 1771 [][][] Underfull \hbox (badness 10000) detected at line 1774 [][][] [301] Underfull \hbox (badness 10000) detected at line 1808 [][][] Underfull \hbox (badness 10000) detected at line 1811 [][][] Underfull \hbox (badness 10000) detected at line 1845 [][][] Underfull \hbox (badness 10000) detected at line 1848 [][][] [302] Underfull \hbox (badness 10000) detected at line 1882 [][][] Underfull \hbox (badness 10000) detected at line 1885 [][][] Underfull \hbox (badness 10000) detected at line 1888 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1898--1898 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [303] Underfull \hbox (badness 10000) detected at line 1935 [][][] Underfull \hbox (badness 10000) detected at line 1938 [][][] Underfull \hbox (badness 10000) detected at line 1941 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1950--1950 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [304] Underfull \hbox (badness 10000) detected at line 2036 [][][] Underfull \hbox (badness 10000) detected at line 2039 [][][] [305] Underfull \hbox (badness 10000) detected at line 2073 [][][] Underfull \hbox (badness 10000) detected at line 2076 [][][] Underfull \hbox (badness 10000) detected at line 2079 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2089--2089 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [306] Underfull \hbox (badness 10000) detected at line 2126 [][][] Underfull \hbox (badness 10000) detected at line 2129 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2138--2138 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 2173 [][][] Underfull \hbox (badness 10000) detected at line 2176 [][][] [307] Underfull \hbox (badness 10000) detected at line 2208 [][][] Underfull \hbox (badness 10000) detected at line 2211 [][][] [308] Underfull \hbox (badness 10000) detected at line 2247 [][][] Underfull \hbox (badness 10000) detected at line 2250 [][][] Underfull \hbox (badness 10000) detected at line 2286 [][][] Underfull \hbox (badness 10000) detected at line 2289 [][][] [309] Underfull \hbox (badness 10000) detected at line 2317 [][][] Underfull \hbox (badness 10000) detected at line 2320 [][][] Underfull \hbox (badness 10000) detected at line 2323 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2333--2333 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [310] Underfull \hbox (badness 10000) detected at line 2370 [][][] Underfull \hbox (badness 10000) detected at line 2373 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2382--2382 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [311] Underfull \hbox (badness 10000) detected at line 2417 [][][] Underfull \hbox (badness 10000) detected at line 2420 [][][] [312] Underfull \hbox (badness 10000) detected at line 2506 [][][] Underfull \hbox (badness 10000) detected at line 2509 [][][] Underfull \hbox (badness 10000) detected at line 2512 [][][] [313] Underfull \hbox (badness 10000) detected at line 2560 [][][] Underfull \hbox (badness 10000) detected at line 2563 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2572--2572 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [314] Underfull \hbox (badness 10000) detected at line 2607 [][][] Underfull \hbox (badness 10000) detected at line 2610 [][][] [315] Underfull \hbox (badness 10000) detected at line 2700 [][][] Underfull \hbox (badness 10000) detected at line 2703 [][][] [316] Underfull \hbox (badness 10000) detected at line 2749 [][][] Underfull \hbox (badness 10000) detected at line 2752 [][][] Underfull \hbox (badness 10000) detected at line 2755 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2765--2765 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [317] Underfull \hbox (badness 10000) detected at line 2802 [][][] Underfull \hbox (badness 10000) detected at line 2805 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2814--2814 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [318] Underfull \hbox (badness 10000) detected at line 2849 [][][] Underfull \hbox (badness 10000) detected at line 2852 [][][] [319] Underfull \hbox (badness 10000) detected at line 2908 [][][] Underfull \hbox (badness 10000) detected at line 2911 [][][] [320] Underfull \hbox (badness 10000) detected at line 2949 [][][] Underfull \hbox (badness 10000) detected at line 2960 [][][] Underfull \hbox (badness 10000) detected at line 2963 [][][] [321] Underfull \hbox (badness 10000) detected at line 3049 [][][] Underfull \hbox (badness 10000) detected at line 3052 [][][] Underfull \hbox (badness 10000) detected at line 3055 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [322] Underfull \hbox (badness 10000) detected at line 3102 [][][] Underfull \hbox (badness 10000) detected at line 3105 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3114--3114 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [323] Underfull \hbox (badness 10000) detected at line 3149 [][][] Underfull \hbox (badness 10000) detected at line 3152 [][][] Underfull \hbox (badness 10000) detected at line 3190 [][][] [324] Underfull \hbox (badness 10000) detected at line 3193 [][][] Underfull \hbox (badness 10000) detected at line 3196 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3206--3206 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3243 [][][] Underfull \hbox (badness 10000) detected at line 3246 [][][] Underfull \hbox (badness 10000) detected at line 3249 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3258--3258 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [325] Underfull \hbox (badness 10000) detected at line 3291 [][][] [326] Underfull \hbox (badness 10000) detected at line 3345 [][][] [327] [328] [329] Underfull \hbox (badness 10000) detected at line 3501 [][][] [330] Underfull \hbox (badness 10000) detected at line 3559 [][][] Underfull \hbox (badness 10000) detected at line 3562 [][][] [331] Underfull \hbox (badness 10000) detected at line 3602 [][][] Underfull \hbox (badness 10000) detected at line 3605 [][][] Underfull \hbox (badness 10000) detected at line 3608 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3618--3618 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [332] Underfull \hbox (badness 10000) detected at line 3655 [][][] Underfull \hbox (badness 10000) detected at line 3658 [][][] Underfull \hbox (badness 10000) detected at line 3661 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3670--3670 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [333] Underfull \hbox (badness 10000) detected at line 3719 [][][] Underfull \hbox (badness 10000) detected at line 3722 [][][] [334] Underfull \hbox (badness 10000) detected at line 3806 [][][] Underfull \hbox (badness 10000) detected at line 3809 [][][] [335] Underfull \hbox (badness 10000) detected at line 3907 [][][] [336] Underfull \hbox (badness 10000) detected at line 3910 [][][] Underfull \hbox (badness 10000) detected at line 3913 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3923--3923 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3960 [][][] Underfull \hbox (badness 10000) detected at line 3963 [][][] [337] Underfull \hbox (badness 10000) detected at line 3989 [][][] Underfull \hbox (badness 10000) detected at line 3992 [][][] Underfull \hbox (badness 10000) detected at line 4018 [][][] Underfull \hbox (badness 10000) detected at line 4021 [][][] [338] Underfull \hbox (badness 10000) detected at line 4051 [][][] Underfull \hbox (badness 10000) detected at line 4054 [][][] Underfull \hbox (badness 10000) detected at line 4057 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4067--4067 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [339] Underfull \hbox (badness 10000) detected at line 4104 [][][] Underfull \hbox (badness 10000) detected at line 4107 [][][] Underfull \hbox (badness 10000) detected at line 4110 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4119--4119 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [340] Underfull \hbox (badness 10000) detected at line 4154 [][][] Underfull \hbox (badness 10000) detected at line 4157 [][][] [341] Underfull \hbox (badness 10000) detected at line 4211 [][][] Underfull \hbox (badness 10000) detected at line 4239 [][][] [342] [343] Underfull \hbox (badness 10000) detected at line 4313 [][][] Underfull \hbox (badness 10000) detected at line 4316 [][][] [344] Underfull \hbox (badness 10000) detected at line 4406 [][][] Underfull \hbox (badness 10000) detected at line 4409 [][][] [345] Underfull \hbox (badness 10000) detected at line 4449 [][][] Underfull \hbox (badness 10000) detected at line 4452 [][][] [346] Underfull \hbox (badness 10000) detected at line 4494 [][][] Underfull \hbox (badness 10000) detected at line 4497 [][][] [347] Underfull \hbox (badness 10000) detected at line 4555 [][][] Underfull \hbox (badness 10000) detected at line 4558 [][][] Underfull \hbox (badness 10000) detected at line 4561 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4571--4571 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [348] Underfull \hbox (badness 10000) detected at line 4608 [][][] Underfull \hbox (badness 10000) detected at line 4611 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4620--4620 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4653 [][][] Underfull \hbox (badness 10000) detected at line 4656 [][][] Underfull \hbox (badness 10000) detected at line 4659 [][][] [349] Underfull \hbox (badness 10000) detected at line 4715 [][][] Underfull \hbox (badness 10000) detected at line 4718 [][][] [350] Underfull \hbox (badness 10000) detected at line 4750 [][][] Underfull \hbox (badness 10000) detected at line 4753 [][][] [351] Underfull \hbox (badness 10000) detected at line 4791 [][][] Underfull \hbox (badness 10000) detected at line 4794 [][][] Underfull \hbox (badness 10000) detected at line 4797 [][][] Overfull \hbox (20.88268pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute,[] Underfull \hbox (badness 10000) detected at line 4845 [][][] [352] Underfull \hbox (badness 10000) detected at line 4848 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4892 [][][] Underfull \hbox (badness 10000) detected at line 4895 [][][] [353] Underfull \hbox (badness 10000) detected at line 4953 [][][] Underfull \hbox (badness 10000) detected at line 4956 [][][] [354] Underfull \hbox (badness 10000) detected at line 4988 [][][] Underfull \hbox (badness 10000) detected at line 4991 [][][] Underfull \hbox (badness 10000) detected at line 4994 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 5004--5004 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 5041 [][][] Underfull \hbox (badness 10000) detected at line 5044 [][][] Underfull \hbox (badness 10000) detected at line 5047 [][][] [355] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 5056--5056 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 5091 [][][] Underfull \hbox (badness 10000) detected at line 5094 [][][] [356] Underfull \hbox (badness 10000) detected at line 5124 [][][] Underfull \hbox (badness 10000) detected at line 5127 [][][] Underfull \hbox (badness 10000) detected at line 5130 [][][] Underfull \hbox (badness 10000) detected at line 5160 [][][] Underfull \hbox (badness 10000) detected at line 5163 [][][] [357] Underfull \hbox (badness 10000) detected at line 5193 [][][] Underfull \hbox (badness 10000) detected at line 5196 [][][] Underfull \hbox (badness 10000) detected at line 5226 [][][] Underfull \hbox (badness 10000) detected at line 5229 [][][] [358] Underfull \hbox (badness 10000) detected at line 5257 [][][] Underfull \hbox (badness 10000) detected at line 5260 [][][] Underfull \hbox (badness 10000) detected at line 5288 [][][] Underfull \hbox (badness 10000) detected at line 5291 [][][] [359]) (./group___frontend.tex Underfull \hbox (badness 2495) in paragraph at lines 32--33 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Overfull \hbox (16.65858pt too wide) in paragraph at lines 40--41 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 42--43 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], [360] Underfull \hbox (badness 1910) in paragraph at lines 60--61 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 60--61 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 5817) in paragraph at lines 78--79 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 80--81 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [361] [362] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] [363] Underfull \hbox (badness 10000) detected at line 211 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] [364] Underfull \hbox (badness 10000) detected at line 275 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] [365] Underfull \hbox (badness 10000) detected at line 314 [][][] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 351 [][][] [366] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 393 [][][] [367] Underfull \hbox (badness 10000) detected at line 495 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [368] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] [369] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] [370] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 720 [][][] [371] Underfull \hbox (badness 10000) detected at line 748 [][][] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 792 [][][] [372] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 842 [][][] Underfull \hbox (badness 10000) detected at line 866 [][][] Underfull \hbox (badness 10000) detected at line 876 [][][] [373] Underfull \hbox (badness 10000) detected at line 895 [][][] Underfull \hbox (badness 10000) detected at line 909 [][][] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] Underfull \hbox (badness 10000) detected at line 939 [][][] [374] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 961 [][][] Underfull \hbox (badness 10000) detected at line 981 [][][] Underfull \hbox (badness 10000) detected at line 984 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] Underfull \hbox (badness 10000) detected at line 1013 [][][] [375] Underfull \hbox (badness 10000) detected at line 1035 [][][] Underfull \hbox (badness 10000) detected at line 1045 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1067 [][][] [376] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1105 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] Underfull \hbox (badness 10000) in paragraph at lines 1135--1136 Underfull \hbox (badness 10000) detected at line 1138 [][][] [377] Underfull \hbox (badness 10000) detected at line 1166 [][][] Underfull \hbox (badness 10000) detected at line 1180 [][][] Underfull \hbox (badness 10000) detected at line 1201 [][][] Underfull \hbox (badness 10000) detected at line 1204 [][][] [378] Underfull \hbox (badness 10000) detected at line 1228 [][][] Underfull \hbox (badness 10000) detected at line 1231 [][][] Underfull \hbox (badness 10000) detected at line 1259 [][][] Underfull \hbox (badness 10000) detected at line 1262 [][][] [379] Underfull \hbox (badness 10000) detected at line 1288 [][][] Underfull \hbox (badness 10000) detected at line 1291 [][][] Underfull \hbox (badness 10000) detected at line 1319 [][][] Underfull \hbox (badness 10000) detected at line 1322 [][][] [380] Underfull \hbox (badness 10000) detected at line 1348 [][][] Underfull \hbox (badness 10000) detected at line 1377 [][][] Underfull \hbox (badness 10000) detected at line 1380 [][][] [381] Underfull \hbox (badness 10000) detected at line 1408 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1468 [][][] [382] Underfull \hbox (badness 10000) detected at line 1485 [][][] Underfull \hbox (badness 10000) detected at line 1497 [][][] Underfull \hbox (badness 10000) detected at line 1514 [][][] Underfull \hbox (badness 10000) detected at line 1528 [][][] [383] Underfull \hbox (badness 10000) detected at line 1562 [][][] Underfull \hbox (badness 10000) detected at line 1574 [][][] Underfull \hbox (badness 10000) detected at line 1591 [][][] Underfull \hbox (badness 10000) detected at line 1608 [][][] [384] Underfull \hbox (badness 10000) detected at line 1636 [][][] Underfull \hbox (badness 10000) detected at line 1650 [][][] [385] Underfull \hbox (badness 10000) detected at line 1688 [][][] Underfull \hbox (badness 10000) detected at line 1716 [][][] Underfull \hbox (badness 10000) detected at line 1733 [][][] [386] Underfull \hbox (badness 10000) detected at line 1747 [][][] Underfull \hbox (badness 10000) detected at line 1764 [][][] Underfull \hbox (badness 10000) detected at line 1792 [][][] [387] Underfull \hbox (badness 10000) detected at line 1809 [][][] Underfull \hbox (badness 10000) detected at line 1823 [][][] ) [388] Chapter 8. (./struct_atom_force.tex Underfull \hbox (badness 10000) detected at line 32 [][][] [389]) (./structs_a_p_o_lparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/apolparm.[] [390] Underfull \hbox (badness 10000) detected at line 88 [][][] [391] Underfull \hbox (badness 10000) detected at line 224 [][][] [392] Underfull \hbox (badness 10000) detected at line 237 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 263 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] Underfull \hbox (badness 10000) detected at line 289 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] [393] Underfull \hbox (badness 10000) detected at line 315 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 354 [][][] Underfull \hbox (badness 10000) detected at line 367 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [394]) (./structs_b_e_mparm.tex [395] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/bemparm.[] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [396] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 155 [][][] [397] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] ) (./structs_f_e_mparm.tex Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/femparm.[] [398] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) in paragraph at lines 84--85 [399] [400] [401]) (./structs_g_e_o_f_l_o_wparm.tex Overfull \hbox (42.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/geoflowparm.[] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [402]) (./structs_m_gparm.tex [403] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] [404] Underfull \hbox (badness 10000) in paragraph at lines 149--150 Underfull \hbox (badness 10000) in paragraph at lines 180--181 [405] Underfull \hbox (badness 10000) in paragraph at lines 261--262 [406] [407] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 460 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [408] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] [409] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [410] Underfull \hbox (badness 10000) detected at line 642 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] ) (./structs_n_osh.tex [411] Underfull \hbox (badness 10000) detected at line 108 [][][] [412] [413] [414] [415] [416] [417]) (./structs_n_osh__calc.tex Underfull \hbox (badness 10000) detected at line 38 [][][] [418]) (./structs_p_b_a_mparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbamparm.[] [419] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] [420] [421] [422] [423]) (./structs_p_b_eparm.tex [424] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbeparm.[] [425] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] [426] [427] [428] Underfull \hbox (badness 10000) detected at line 391 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Underfull \hbox (badness 10000) detected at line 430 [][][] [429] Underfull \hbox (badness 10000) detected at line 473 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] [430] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] [431] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [432] [433]) (./structs_p_b_s_a_mparm.tex Overfull \hbox (30.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbsamparm.[] [434] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [435]) (./structs_vacc.tex [436] Underfull \hbox (badness 10000) detected at line 36 [][][] [437]) (./structs_vacc_surf.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [438]) (./structs_valist.tex [439] Underfull \hbox (badness 10000) detected at line 36 [][][] [440]) (./structs_vatom.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [441] Underfull \hbox (badness 10000) in paragraph at lines 62--63 Underfull \hbox (badness 10000) in paragraph at lines 93--94 Underfull \hbox (badness 10000) in paragraph at lines 114--115 ) (./structs_vclist.tex [442] Underfull \hbox (badness 10000) detected at line 40 [][][] [443]) (./structs_vclist_cell.tex [444] Underfull \hbox (badness 10000) detected at line 24 [][][] ) (./structs_vcsm.tex Underfull \hbox (badness 10000) detected at line 42 [][][] [445] [446]) (./structs_vfetk.tex Underfull \hbox (badness 10000) detected at line 60 [][][] [447] Underfull \hbox (badness 10000) in paragraph at lines 116--117 [448] [449]) (./structs_vfetk___local_var.tex [450] Underfull \hbox (badness 10000) detected at line 86 [][][] [451] [452] [453]) (./structs_vgreen.tex [454] Underfull \hbox (badness 10000) detected at line 34 [][][] [455]) (./structs_vgrid.tex Underfull \hbox (badness 10000) detected at line 52 [][][] [456] [457]) (./structs_vmgrid.tex Underfull \hbox (badness 10000) detected at line 24 [][][] [458]) (./structs_vopot.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [459]) (./structs_vparam___atom_data.tex Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [460]) (./structs_vpbe.tex [461] Underfull \hbox (badness 10000) detected at line 86 [][][] [462] [463] [464]) (./structs_vpee.tex [465] Underfull \hbox (badness 10000) detected at line 34 [][][] [466]) (./structs_vpmg.tex [467] Underfull \hbox (badness 10000) detected at line 116 [][][] [468] [469] [470] [471] [472]) (./structs_vpmgp.tex [473] [474] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) in paragraph at lines 164--165 Underfull \hbox (badness 10000) in paragraph at lines 175--176 Underfull \hbox (badness 10000) in paragraph at lines 186--187 [475] Underfull \hbox (badness 10000) in paragraph at lines 234--235 [476] [477] [478] [479] Underfull \hbox (badness 10000) in paragraph at lines 506--507 [480] Underfull \hbox (badness 10000) in paragraph at lines 527--528 Underfull \hbox (badness 10000) in paragraph at lines 548--549 Underfull \hbox (badness 10000) in paragraph at lines 589--590 [481] Underfull \hbox (badness 10000) in paragraph at lines 630--631 Underfull \hbox (badness 10000) in paragraph at lines 671--672 [482]) (./struct_vparam.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [483]) (./struct_vparam___res_data.tex Underfull \hbox (badness 10000) detected at line 28 [][][] [484]) [485] [486] Chapter 9. (./mainpage_8h_source.tex) (./apbs_8h.tex <./apbs_8h__incl.pdf> <./apbs_8h__dep __incl.pdf> [487] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [488]) (./apbs_8h_source.tex) (./vcsm_8c.tex [489] <./vcsm_8c__incl.pdf> [490] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] Underfull \hbox (badness 10000) detected at line 59 [][][] [491]) (./vcsm_8c_source.tex [492] [493] [494] [495] [496] [497]) (./vcsm_8h.tex <./vcsm_8h__incl.pdf> <./vcsm_8h__dep__incl.pdf> [498] [499] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] [500]) (./vcsm_8h_source.tex [501]) (./vfetk_8c.tex [502] <./vfetk_8c__incl.pdf > [503] [504] Underfull \hbox (badness 10000) detected at line 163 [][][] Underfull \hbox (badness 10000) detected at line 166 [][][] [505] Underfull \hbox (badness 10000) detected at line 169 [][][] [506] [507] [508] [509]) (./vfetk_8c_source.tex [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539]) (./vfetk_8h.tex [540] <./vfetk_8h__incl.pdf> <./vfetk_8h__dep__inc l.pdf> [541] [542] [543] Underfull \hbox (badness 10000) detected at line 189 [][][] [544] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 195 [][][] ) (./vfetk_8h_source.tex [545] [546] [547] [548] [549] [550]) (./vpee_8c.tex <. /vpee_8c__incl.pdf> [551] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] [552]) (./vpee_8c_source.tex [553] [554] [555] [556] [557] [558]) (./vpee_8h.tex <./vpee_8h__incl.pdf> [559] <./vpee_8h__dep__incl.pdf> [560] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] Underfull \hbox (badness 10000) detected at line 63 [][][] [561]) (./vpee_8h_source.tex [562]) (./apolparm_8c.tex <./apolparm_8c__incl.pdf > [563] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] [564] [565]) (./apolparm_8c_source.tex [566] [567] [568] [569] [570] [571] [572] [573]) (./apolparm_8h_source.tex [574]) (./bemparm_8c.tex <./bemparm_8c__ incl.pdf> [575] [576] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [577] Underfull \hbox (badness 10000) detected at line 121 [][][] ) (./bemparm_8c_source.tex [578] [579] [580] [581]) (./bemparm_8h_source.tex [582]) (./femparm_8c.tex <./femparm_8c__incl.pdf> [583] [584] Underfull \hbox (badness 10000) detected at line 59 [][][] Underfull \hbox (badness 10000) detected at line 62 [][][] Underfull \hbox (badness 10000) detected at line 65 [][][] [585] [586]) (./femparm_8c_source.tex [587] [588] [589] [590] [591]) (./femparm_8h.tex <./femparm_8h__incl.pdf> [592] <./femparm_8h__dep__incl.pdf> [593] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [594] Underfull \hbox (badness 10000) detected at line 95 [][][] ) (./femparm_8h_source.tex [595]) (./geoflowparm_8c.tex <./geoflowparm_8c__incl .pdf> [596] [597] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [598]) (./geoflowparm_8c_source.tex [599] [600]) (./geoflowparm_8h.tex <./geofl owparm_8h__incl.pdf> [601] <./geoflowparm_8h__dep__incl.pdf> [602] [603] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [604]) (./geoflowparm_8h_source.tex [605]) (./mgparm_8c.tex <./mgparm_8c__incl. pdf> [606] [607] Underfull \hbox (badness 10000) detected at line 95 [][][] Underfull \hbox (badness 10000) detected at line 98 [][][] Underfull \hbox (badness 10000) detected at line 101 [][][] [608] [609]) (./mgparm_8c_source.tex [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621]) (./mgparm_8h.tex <./mgparm_8h__incl.pdf> [622] <./mgparm_8h__dep__incl.pdf> [623] [624] Underfull \hbox (badness 10000) detected at line 104 [][][] Underfull \hbox (badness 10000) detected at line 107 [][][] Underfull \hbox (badness 10000) detected at line 110 [][][] [625]) (./mgparm_8h_source.tex [626]) (./nosh_8c.tex <./nosh_8c__incl.pdf> [627] [628] [629] Underfull \hbox (badness 10000) detected at line 151 [][][] Underfull \hbox (badness 10000) detected at line 154 [][][] Underfull \hbox (badness 10000) detected at line 157 [][][] [630] [631] [632] [633] [634]) (./nosh_8c_source.tex [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] [666] [667] [668] [669] [670] [671] [672] [673] [674]) (./nosh_8h.tex <./nosh_8h__incl.pdf> [675] <./nosh_8h__dep__incl.pdf> [676] [677] [678] Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] ) (./nosh_8h_source.tex [679] [680] [681]) (./pbamparm_8c.tex <./pbamparm_8c__i ncl.pdf> [682] [683] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [684]) (./pbamparm_8c_source.tex [685] [686] [687] [688] [689] [690] [691] [692] [693]) (./pbamparm_8h.tex <./pbamparm_8h__incl.pdf> <./pbamparm_8h__dep__ incl.pdf> [694] [695] Underfull \hbox (badness 10000) detected at line 102 [][][] [696] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 108 [][][] [697]) (./pbamparm_8h_source.tex [698]) (./pbeparm_8c.tex [699] <./pbeparm_8c__ incl.pdf> [700] Underfull \hbox (badness 10000) detected at line 101 [][][] Underfull \hbox (badness 10000) detected at line 104 [][][] Underfull \hbox (badness 10000) detected at line 107 [][][] [701] [702] [703] [704] [705]) (./pbeparm_8c_source.tex [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720]) (./pbeparm_8h.tex <./pbeparm_8h__incl.pdf> [721] <./pbeparm_8h__dep__incl.pdf> [722] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [723]) (./pbeparm_8h_source.tex [724] [725]) (./pbsamparm_8c.tex <./pbsamparm_8 c__incl.pdf> [726] [727] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [728]) (./pbsamparm_8c_source.tex [729] [730]) (./pbsamparm_8h.tex [731] <./pbs amparm_8h__incl.pdf> <./pbsamparm_8h__dep__incl.pdf> [732] [733] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [734]) (./pbsamparm_8h_source.tex [735]) (./vacc_8c.tex <./vacc_8c__incl.pdf> [736] [737] [738] Underfull \hbox (badness 10000) detected at line 107 [][][] Underfull \hbox (badness 10000) detected at line 110 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] [739] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] Underfull \hbox (badness 10000) detected at line 211 [][][] [740] [741]) (./vacc_8c_source.tex [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764]) (./vacc_8h.tex <./vacc_8h__incl.pdf> <./vacc_8h__dep__ incl.pdf> [765] [766] [767] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] [768]) (./vacc_8h_source.tex [769] [770] [771]) (./valist_8c.tex <./valist_8c__ incl.pdf> [772] [773] Underfull \hbox (badness 2293) in paragraph at lines 54--56 []\T1/phv/m/n/10 VPRIVATE Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/ m/n/10 thee, Vio $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 sock, int $\OMS/cmsy/m/n/ 10 ^^C$\T1/phv/m/n/10 serial, char atom[] Underfull \hbox (badness 10000) detected at line 82 [][][] Underfull \hbox (badness 10000) detected at line 85 [][][] Underfull \hbox (badness 10000) detected at line 88 [][][] [774] [775] [776]) (./valist_8c_source.tex [777] [778] [779] [780] [781] [782] [783] [784] [785] [786]) (./valist_8h.tex [787] <./valist_8h__incl.pdf> < ./valist_8h__dep__incl.pdf> [788] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] [789]) (./valist_8h_source.tex [790] [791]) (./vatom_8c.tex <./vatom_8c__incl.p df> [792] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [793]) (./vatom_8c_source.tex [794] [795] [796]) (./vatom_8h.tex <./vatom_8h__i ncl.pdf> [797] <./vatom_8h__dep__incl.pdf> [798] [799] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] ) (./vatom_8h_source.tex [800] [801]) (./vcap_8c.tex <./vcap_8c__incl.pdf> [802] Underfull \hbox (badness 10000) detected at line 31 [][][] Underfull \hbox (badness 10000) detected at line 34 [][][] Underfull \hbox (badness 10000) detected at line 37 [][][] [803]) (./vcap_8c_source.tex [804]) (./vcap_8h.tex <./vcap_8h__incl.pdf> <./vca p_8h__dep__incl.pdf> [805] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] [806] Underfull \hbox (badness 10000) detected at line 53 [][][] ) (./vcap_8h_source.tex [807]) (./vclist_8c.tex <./vclist_8c__incl.pdf> Underfull \hbox (badness 4060) in paragraph at lines 32--34 []\T1/phv/m/n/10 VPRIVATE void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 thee , dou-ble lower[]_[]corner[][][], dou-ble upper[]_[] [808] Underfull \hbox (badness 1297) in paragraph at lines 44--45 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m /n/10 thee, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 alist, dou-ble max[]_[]radi us, int npts[][][], Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] [809] [810]) (./vclist_8c_source.tex [811] [812] [813] [814] [815]) (./vclist_8h.tex [816] <./vclist_8h__incl.pdf> <./vclist_8h__dep__incl.pdf> [817] [818] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [819]) (./vclist_8h_source.tex [820]) (./vgreen_8c.tex <./vgreen_8c__incl.pdf> [821] [822] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] [823]) (./vgreen_8c_source.tex [824] [825] [826] [827] [828] [829]) (./vgreen_8h.tex <./vgreen_8h__incl.pdf> [830] <./vgreen_8h__dep__incl.pdf> [831] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] ) (./vgreen_8h_source.tex [832]) (./vhal_8h.tex [833] <./vhal_8h__incl.pdf> <./ vhal_8h__dep__incl.pdf> [834] [835] [836] [837] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 306 [][][] Underfull \hbox (badness 10000) detected at line 309 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 318--318 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [838] [839] [840] [841] [842] [843] [844]) (./vhal_8h_source.tex [845] [846] [847] [848] [849] [850] [851] [852]) (./vmatrix_8h.tex <./vmatrix_8h__dep__incl .pdf> [853] Underfull \hbox (badness 10000) detected at line 36 [][][] Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] [854] [855]) (./vmatrix_8h_source.tex [856]) (./vparam_8c.tex <./vparam_8c__inc l.pdf> [857] Underfull \hbox (badness 10000) detected at line 78 [][][] [858] Underfull \hbox (badness 10000) detected at line 81 [][][] Underfull \hbox (badness 10000) detected at line 84 [][][] ) (./vparam_8c_source.tex [859] [860] [861] [862] [863] [864] [865] [866]) (./vparam_8h.tex [867] <./vparam_8h__incl.pdf> <./vparam_8h__dep__incl.pdf> [868] [869] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] [870]) (./vparam_8h_source.tex [871]) (./vpbe_8c.tex <./vpbe_8c__incl.pdf> [872] [873] Underfull \hbox (badness 10000) detected at line 90 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] [874]) (./vpbe_8c_source.tex [875] [876] [877] [878] [879] [880]) (./vpbe_8h.tex <./vpbe_8h__incl.pdf> [881] <./vpbe_8h__dep__incl.pdf> [882] [883] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] Underfull \hbox (badness 10000) detected at line 117 [][][] [884]) (./vpbe_8h_source.tex [885] [886]) (./vstring_8c.tex <./vstring_8c__incl .pdf> [887] Underfull \hbox (badness 10000) detected at line 31 [][][] Underfull \hbox (badness 10000) detected at line 34 [][][] Underfull \hbox (badness 10000) detected at line 37 [][][] [888]) (./vstring_8c_source.tex [889] [890]) (./vstring_8h.tex <./vstring_8h__i ncl.pdf> [891] <./vstring_8h__dep__incl.pdf> Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [892] Underfull \hbox (badness 10000) detected at line 47 [][][] ) (./vstring_8h_source.tex [893]) (./vunit_8h.tex <./vunit_8h__dep__incl.pdf> [894] LaTeX Warning: Command \r invalid in math mode on input line 42. Missing character: There is no Å in font cmr9! Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [895]) (./vunit_8h_source.tex) (./main_8c.tex <./main_8c__incl.pdf> [896] Underfull \hbox (badness 10000) detected at line 28 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [897]) (./main_8c_source.tex [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908]) (./vgrid_8c.tex <./vgrid_8c__incl.pdf> [909] [910] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [911] Underfull \hbox (badness 10000) detected at line 174 [][][] [912]) (./vgrid_8c_source.tex [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935]) (./vgrid_8h.tex <./vgrid_8h__incl.pdf> [936] <./vgrid_ 8h__dep__incl.pdf> [937] [938] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] [939] Underfull \hbox (badness 10000) detected at line 165 [][][] ) (./vgrid_8h_source.tex [940] [941]) (./vmgrid_8c.tex <./vmgrid_8c__incl.pdf> [942] [943] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Overfull \hbox (1024.08331pt too wide) in paragraph at lines 59--59 []\T1/pcr/m/n/8 * Copyright (c) 2010, Pacific Northwest National Laboratory. Portions Copyright (c) 2002-2020, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2020, T he Regents of the University of California. Portions Copyright (c) 1995, Michae l Holst.[] ) (./vmgrid_8c_source.tex [944] [945] [946]) (./vmgrid_8h.tex <./vmgrid_8h__inc l.pdf> <./vmgrid_8h__dep__incl.pdf> [947] [948] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] Underfull \hbox (badness 10000) detected at line 77 [][][] [949]) (./vmgrid_8h_source.tex) (./vopot_8c.tex [950] <./vopot_8c__incl.pdf> Underfull \hbox (badness 10000) detected at line 44 [][][] Underfull \hbox (badness 10000) detected at line 47 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] [951]) (./vopot_8c_source.tex [952] [953] [954] [955] [956]) (./vopot_8h.tex <. /vopot_8h__incl.pdf> <./vopot_8h__dep__incl.pdf> [957] [958] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] ) (./vopot_8h_source.tex [959]) (./vpmg_8c.tex <./vpmg_8c__incl.pdf> [960] [961] [962] [963] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 176 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [964] Underfull \hbox (badness 10000) detected at line 261 [][][] [965] Underfull \hbox (badness 10000) detected at line 288 [][][] [966] Underfull \hbox (badness 10000) detected at line 384 [][][] Underfull \hbox (badness 10000) detected at line 387 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] [967] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] Underfull \hbox (badness 10000) detected at line 459 [][][] Underfull \hbox (badness 10000) detected at line 462 [][][] Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] [968] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 534 [][][] Underfull \hbox (badness 10000) detected at line 537 [][][] Underfull \hbox (badness 10000) detected at line 554 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] [969] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 591 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 642 [][][] [970] Underfull \hbox (badness 10000) detected at line 659 [][][] Underfull \hbox (badness 10000) detected at line 676 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 717 [][][] [971] Underfull \hbox (badness 10000) detected at line 734 [][][] Underfull \hbox (badness 10000) detected at line 751 [][][] Underfull \hbox (badness 10000) detected at line 768 [][][] Underfull \hbox (badness 10000) detected at line 795 [][][] [972] Underfull \hbox (badness 10000) detected at line 832 [][][] [973] Underfull \hbox (badness 10000) detected at line 876 [][][] [974] Underfull \hbox (badness 10000) detected at line 926 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] [975] Underfull \hbox (badness 10000) detected at line 970 [][][] Underfull \hbox (badness 10000) detected at line 992 [][][] Underfull \hbox (badness 10000) detected at line 995 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1015 [][][] Underfull \hbox (badness 10000) detected at line 1037 [][][] Underfull \hbox (badness 10000) detected at line 1040 [][][] [976] Underfull \hbox (badness 10000) detected at line 1062 [][][] Underfull \hbox (badness 10000) detected at line 1065 [][][] Underfull \hbox (badness 10000) detected at line 1097 [][][] [977] Underfull \hbox (badness 10000) detected at line 1114 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] ) (./vpmg_8c_source.tex [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113]) (./vpmg_8h.tex <./vpmg_8h__incl.pdf> [1114] <./vpmg_8h__dep__incl.pdf> [1115] [1116] [1117] [1118] [1119] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 238 [][][] Underfull \hbox (badness 10000) detected at line 241 [][][] [1120] [1121] Underfull \hbox (badness 10000) detected at line 441 [][][] [1122] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 504 [][][] [1123] Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 529 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] Underfull \hbox (badness 10000) detected at line 554 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 579 [][][] [1124] Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] [1125] Underfull \hbox (badness 10000) detected at line 654 [][][] Underfull \hbox (badness 10000) detected at line 657 [][][] Underfull \hbox (badness 10000) detected at line 674 [][][] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 711 [][][] [1126] Underfull \hbox (badness 10000) detected at line 728 [][][] Underfull \hbox (badness 10000) detected at line 745 [][][] Underfull \hbox (badness 10000) detected at line 762 [][][] Underfull \hbox (badness 10000) detected at line 779 [][][] Underfull \hbox (badness 10000) detected at line 796 [][][] [1127] Underfull \hbox (badness 10000) detected at line 817 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] Underfull \hbox (badness 10000) detected at line 837 [][][] Underfull \hbox (badness 10000) detected at line 854 [][][] Underfull \hbox (badness 10000) detected at line 871 [][][] [1128] Underfull \hbox (badness 10000) detected at line 888 [][][] Underfull \hbox (badness 10000) detected at line 905 [][][] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 931 [][][] [1129] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 992 [][][] [1130] Underfull \hbox (badness 10000) detected at line 1022 [][][] Underfull \hbox (badness 10000) detected at line 1044 [][][] Underfull \hbox (badness 10000) detected at line 1066 [][][] [1131] Underfull \hbox (badness 10000) detected at line 1088 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1108 [][][] Underfull \hbox (badness 10000) detected at line 1111 [][][] Underfull \hbox (badness 10000) detected at line 1133 [][][] Underfull \hbox (badness 10000) detected at line 1136 [][][] [1132] Underfull \hbox (badness 10000) detected at line 1158 [][][] Underfull \hbox (badness 10000) detected at line 1161 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] [1133] Underfull \hbox (badness 10000) detected at line 1242 [][][] Underfull \hbox (badness 10000) detected at line 1245 [][][] ) (./vpmg_8h_source.tex [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142]) (./vpmgp_8c.tex <./vpmgp_8c__incl.pdf> [1143] Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 45 [][][] [1144]) (./vpmgp_8c_source.tex [1145] [1146] [1147]) (./vpmgp_8h.tex [1148] <./ vpmgp_8h__incl.pdf> <./vpmgp_8h__dep__incl.pdf> [1149] [1150] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] [1151]) (./vpmgp_8h_source.tex [1152]) (./build_ad_8c_source.tex [1153] [1154] [1155]) (./build_ad_8h_source.tex [1156]) (./build_bd_8c_source.tex [1157] [1158] [1159] [1160]) (./build_bd_8h_source.tex [1161]) (./build_gd_8c_source.tex [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199]) (./build_gd_8h_source.tex [1200] [1201]) (./build_pd_8c_source.tex [1202] [1203] [1204] [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220]) (./build_pd_8h_source.tex [1221] [1222] [1223]) (./cgd_8c_source.tex) (./cgd_8h_source.tex [1224]) (./gsd_8c_source.tex [1225] [1226] [1227] [1228]) (./gsd_8h_source.tex [1229]) (./matvecd_8c_source.tex [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242]) (./matvecd_8h_source.tex [1243] [1244] [1245] [1246] [1247] [1248]) (./mgcsd_8c_source.tex [1249] [1250] [1251] [1252] [1253] [1254]) (./mgcsd_8h_source.tex [1255]) (./mgdrvd_8c_source.tex [1256] [1257] [1258] [1259] [1260] [1261] [1262]) (./mgdrvd_8h_source.tex [1263] [1264]) (./mgfasd_8c_source.tex [1265] [1266] [1267] [1268] [1269] [1270]) (./mgfasd_8h_source.tex [1271] [1272]) (./mgsubd_8c_source.tex [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283]) (./mgsubd_8h_source.tex [1284] [1285] [1286] [1287]) (./mikpckd_8c_source.tex [1288] [1289] [1290] [1291]) (./mikpckd_8h_source.tex [1292] [1293] [1294]) (./mlinpckd_8c_source.tex [1295] [1296]) (./mlinpckd_8h_source.tex) (./mypdec_8c_source.tex [1297] [1298] [1299] [1300] [1301] [1302] [1303]) (./mypdec_8h_source.tex [1304]) (./newdrvd_8c_source.tex [1305] [1306] [1307] [1308]) (./newdrvd_8h_source.tex [1309]) (./newtond_8c_source.tex [1310] [1311] [1312] [1313] [1314] [1315] [1316]) (./newtond_8h_source.tex [1317]) (./powerd_8c_source.tex [1318] [1319] [1320] [1321] [1322]) (./powerd_8h_source.tex [1323]) (./smoothd_8c_source.tex [1324]) (./smoothd_8h_source.tex [1325]) (./routines_8c.tex <./routines_8c__incl.pdf> [1326] Underfull \hbox (badness 776) in paragraph at lines 48--49 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv /m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[] Underfull \hbox (badness 2856) in paragraph at lines 48--49 \T1/phv/m/n/10 YMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]ZMap[] [][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 kappa[]Map[][][], [] Underfull \hbox (badness 1237) in paragraph at lines 48--49 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 905) in paragraph at lines 62--63 []\T1/phv/m/n/10 VPUBLIC void [] (Vmem $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 mem , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy /m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 5817) in paragraph at lines 68--69 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 70--71 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1327] Underfull \hbox (badness 1442) in paragraph at lines 82--83 []\T1/phv/m/n/10 VPUBLIC int [] (Vcom $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 com, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy/ m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 931) in paragraph at lines 88--89 []\T1/phv/m/n/10 VPUBLIC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T 1/phv/m/n/10 fetk[][][], Gem Underfull \hbox (badness 2495) in paragraph at lines 90--91 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] [1328] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] ) (./routines_8c_source.tex [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397]) (./routines_8h.tex <./routine s_8h__incl.pdf> <./routines_8h__dep__incl.pdf> [1398] Overfull \hbox (16.65858pt too wide) in paragraph at lines 52--53 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 54--55 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Underfull \hbox (badness 1910) in paragraph at lines 72--73 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 72--73 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] [1399] Underfull \hbox (badness 5817) in paragraph at lines 90--91 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 92--93 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1400] Underfull \hbox (badness 2495) in paragraph at lines 124--125 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Underfull \hbox (badness 10000) detected at line 147 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] [1401]) (./routines_8h_source.tex [1402] [1403] [1404] [1405] [1406]) [1407] [1408] (./refman.ind [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457]) (./refman.aux) LaTeX Warning: There were multiply-defined labels. ) (see the transcript file for additional information)< /usr/share/texlive/texmf-dist/fonts/type1/urw/courier/ucrro8a.pfb> Output written on refman.pdf (1515 pages, 6341876 bytes). Transcript written on refman.log. [ 55%] Built target doc-pdf [ 56%] Building C object tools/mesh/CMakeFiles/mgmesh.dir/mgmesh.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mgmesh.c:10: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 57%] Linking C executable ../bin/mgmesh [ 57%] Built target mgmesh [ 58%] Building C object tools/mesh/CMakeFiles/smooth.dir/smooth.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/smooth.c:13: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 59%] Linking C executable ../bin/smooth [ 59%] Built target smooth [ 60%] Building C object tools/mesh/CMakeFiles/dxmath.dir/dxmath.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dxmath.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dxmath.c:41:10: warning: unused variable ‘format’ [-Wunused-variable] 41 | char format[VMAX_BUFSIZE]; | ^~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dxmath.c:13: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 62%] Linking C executable ../bin/dxmath [ 62%] Built target dxmath [ 63%] Building C object tools/mesh/CMakeFiles/mergedx.dir/mergedx.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx.c:8: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx.c:81:13: warning: ‘nx’ may be used uninitialized [-Wmaybe-uninitialized] 81 | mgrid = Vgrid_ctor(nx, ny, nz, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, VNULL); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx.c:29:9: note: ‘nx’ was declared here 29 | int nx, ny, nz, count, numfnams; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx.c:81:13: warning: ‘ny’ may be used uninitialized [-Wmaybe-uninitialized] 81 | mgrid = Vgrid_ctor(nx, ny, nz, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, VNULL); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx.c:29:13: note: ‘ny’ was declared here 29 | int nx, ny, nz, count, numfnams; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx.c:81:13: warning: ‘nz’ may be used uninitialized [-Wmaybe-uninitialized] 81 | mgrid = Vgrid_ctor(nx, ny, nz, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, VNULL); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx.c:29:17: note: ‘nz’ was declared here 29 | int nx, ny, nz, count, numfnams; | ^~ [ 64%] Linking C executable ../bin/mergedx [ 64%] Built target mergedx [ 65%] Building C object tools/mesh/CMakeFiles/mergedx2.dir/mergedx2.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/mergedx2.c:8: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 66%] Linking C executable ../bin/mergedx2 [ 66%] Built target mergedx2 [ 67%] Building C object tools/mesh/CMakeFiles/value.dir/value.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/value.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/value.c:37:9: warning: unused variable ‘inorm’ [-Wunused-variable] 37 | int inorm; | ^~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/value.c:8: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 68%] Linking C executable ../bin/value [ 68%] Built target value [ 70%] Building C object tools/mesh/CMakeFiles/multivalue.dir/multivalue.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/multivalue.c:46: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 71%] Linking C executable ../bin/multivalue [ 71%] Built target multivalue [ 72%] Building C object tools/mesh/CMakeFiles/benchmark.dir/benchmark.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:28:12: warning: unused variable ‘grid’ [-Wunused-variable] 28 | Vgrid *grid; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:58: warning: unused variable ‘sum’ [-Wunused-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:51: warning: unused variable ‘value’ [-Wunused-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:44: warning: unused variable ‘pt’ [-Wunused-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:38: warning: variable ‘zmin’ set but not used [-Wunused-but-set-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:32: warning: variable ‘ymin’ set but not used [-Wunused-but-set-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:26: warning: variable ‘xmin’ set but not used [-Wunused-but-set-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:20: warning: variable ‘hzed’ set but not used [-Wunused-but-set-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:16: warning: variable ‘hx’ set but not used [-Wunused-but-set-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:18:12: warning: variable ‘hy’ set but not used [-Wunused-but-set-variable] 18 | double hy, hx, hzed, xmin, ymin, zmin, pt[3], value, sum, dtmp; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:17:27: warning: unused variable ‘k’ [-Wunused-variable] 17 | int nx, ny, nz, i, j, k, itmp; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:17:24: warning: unused variable ‘j’ [-Wunused-variable] 17 | int nx, ny, nz, i, j, k, itmp; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:17:21: warning: unused variable ‘i’ [-Wunused-variable] 17 | int nx, ny, nz, i, j, k, itmp; | ^ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/benchmark.c:8: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 73%] Linking C executable ../bin/benchmark [ 73%] Built target benchmark [ 74%] Building C object tools/mesh/CMakeFiles/similarity.dir/similarity.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/similarity.c:13: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/similarity.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/similarity.c:298:13: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 298 | strncpy(scalar1Path, tstr, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/similarity.c:305:13: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 305 | strncpy(scalar2Path, tstr, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/similarity.c:312:13: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 312 | strncpy(transformPath, tstr, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/similarity.c:322:13: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 322 | strncpy(mask1Path, tstr, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/similarity.c:329:13: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 329 | strncpy(mask2Path, tstr, VMAX_ARGLEN); | ^ [ 75%] Linking C executable ../bin/similarity [ 75%] Built target similarity [ 77%] Building C object tools/mesh/CMakeFiles/analysis.dir/analysis.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:14: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:123:13: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 123 | strncpy(scalarPath, tstr, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:133:13: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 133 | strncpy(maskPath, tstr, VMAX_ARGLEN); | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:85:12: warning: ‘maxS’ may be used uninitialized [-Wmaybe-uninitialized] 85 | double maxS, maxSpt[3], maxG2, maxG2pt[3]; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:86:12: warning: ‘minS’ may be used uninitialized [-Wmaybe-uninitialized] 86 | double minS, minSpt[3], minG2, minG2pt[3]; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:292:5: warning: ‘minG2pt[0]’ may be used uninitialized [-Wmaybe-uninitialized] 292 | Vnm_print(1, "Min gradient-squared value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 293 | minG2pt[0], minG2pt[1], minG2pt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:86:36: note: ‘minG2pt[0]’ was declared here 86 | double minS, minSpt[3], minG2, minG2pt[3]; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:286:5: warning: ‘maxG2’ may be used uninitialized [-Wmaybe-uninitialized] 286 | Vnm_print(1, "Max gradient-squared value = %1.12E\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 | maxG2); | ~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:85:29: note: ‘maxG2’ was declared here 85 | double maxS, maxSpt[3], maxG2, maxG2pt[3]; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:290:5: warning: ‘minG2’ may be used uninitialized [-Wmaybe-uninitialized] 290 | Vnm_print(1, "Min gradient-squared value = %1.12E\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 291 | minG2); | ~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:86:29: note: ‘minG2’ was declared here 86 | double minS, minSpt[3], minG2, minG2pt[3]; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:284:5: warning: ‘minSpt[2]’ may be used uninitialized [-Wmaybe-uninitialized] 284 | Vnm_print(1, "Min scalar value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 | minSpt[0], minSpt[1], minSpt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:86:18: note: ‘minSpt[2]’ was declared here 86 | double minS, minSpt[3], minG2, minG2pt[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:284:5: warning: ‘minSpt[1]’ may be used uninitialized [-Wmaybe-uninitialized] 284 | Vnm_print(1, "Min scalar value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 | minSpt[0], minSpt[1], minSpt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:86:18: note: ‘minSpt[1]’ was declared here 86 | double minS, minSpt[3], minG2, minG2pt[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:284:5: warning: ‘minSpt[0]’ may be used uninitialized [-Wmaybe-uninitialized] 284 | Vnm_print(1, "Min scalar value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 | minSpt[0], minSpt[1], minSpt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:86:18: note: ‘minSpt[0]’ was declared here 86 | double minS, minSpt[3], minG2, minG2pt[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:280:5: warning: ‘maxSpt[0]’ may be used uninitialized [-Wmaybe-uninitialized] 280 | Vnm_print(1, "Max scalar value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 281 | maxSpt[0], maxSpt[1], maxSpt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:85:18: note: ‘maxSpt[0]’ was declared here 85 | double maxS, maxSpt[3], maxG2, maxG2pt[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:288:5: warning: ‘maxG2pt[2]’ may be used uninitialized [-Wmaybe-uninitialized] 288 | Vnm_print(1, "Max gradient-squared value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 | maxG2pt[0], maxG2pt[1], maxG2pt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:85:36: note: ‘maxG2pt[2]’ was declared here 85 | double maxS, maxSpt[3], maxG2, maxG2pt[3]; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:288:5: warning: ‘maxG2pt[1]’ may be used uninitialized [-Wmaybe-uninitialized] 288 | Vnm_print(1, "Max gradient-squared value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 | maxG2pt[0], maxG2pt[1], maxG2pt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:85:36: note: ‘maxG2pt[1]’ was declared here 85 | double maxS, maxSpt[3], maxG2, maxG2pt[3]; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:288:5: warning: ‘maxG2pt[0]’ may be used uninitialized [-Wmaybe-uninitialized] 288 | Vnm_print(1, "Max gradient-squared value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 | maxG2pt[0], maxG2pt[1], maxG2pt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:85:36: note: ‘maxG2pt[0]’ was declared here 85 | double maxS, maxSpt[3], maxG2, maxG2pt[3]; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:280:5: warning: ‘maxSpt[2]’ may be used uninitialized [-Wmaybe-uninitialized] 280 | Vnm_print(1, "Max scalar value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 281 | maxSpt[0], maxSpt[1], maxSpt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:85:18: note: ‘maxSpt[2]’ was declared here 85 | double maxS, maxSpt[3], maxG2, maxG2pt[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:280:5: warning: ‘maxSpt[1]’ may be used uninitialized [-Wmaybe-uninitialized] 280 | Vnm_print(1, "Max scalar value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 281 | maxSpt[0], maxSpt[1], maxSpt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:85:18: note: ‘maxSpt[1]’ was declared here 85 | double maxS, maxSpt[3], maxG2, maxG2pt[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:292:5: warning: ‘minG2pt[1]’ may be used uninitialized [-Wmaybe-uninitialized] 292 | Vnm_print(1, "Min gradient-squared value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 293 | minG2pt[0], minG2pt[1], minG2pt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:86:36: note: ‘minG2pt[1]’ was declared here 86 | double minS, minSpt[3], minG2, minG2pt[3]; | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:292:5: warning: ‘minG2pt[2]’ may be used uninitialized [-Wmaybe-uninitialized] 292 | Vnm_print(1, "Min gradient-squared value location = (%4.3f, %4.3f, %4.3f)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 293 | minG2pt[0], minG2pt[1], minG2pt[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/analysis.c:86:36: note: ‘minG2pt[2]’ was declared here 86 | double minS, minSpt[3], minG2, minG2pt[3]; | ^~~~~~~ [ 78%] Linking C executable ../bin/analysis [ 78%] Built target analysis [ 79%] Building C object tools/mesh/CMakeFiles/dx2mol.dir/dx2mol.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2mol.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2mol.c:28:12: warning: unused variable ‘avg’ [-Wunused-variable] 28 | double avg; | ^~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2mol.c:19: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 80%] Linking C executable ../bin/dx2mol [ 80%] Built target dx2mol [ 81%] Building C object tools/mesh/CMakeFiles/dx2uhbd.dir/dx2uhbd.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2uhbd.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2uhbd.c:25:10: warning: unused variable ‘avg’ [-Wunused-variable] 25 | double avg; | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2uhbd.c:24:19: warning: unused variable ‘k’ [-Wunused-variable] 24 | size_t u, i, j, k, nx, ny, nz; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2uhbd.c:24:16: warning: unused variable ‘j’ [-Wunused-variable] 24 | size_t u, i, j, k, nx, ny, nz; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2uhbd.c:24:13: warning: unused variable ‘i’ [-Wunused-variable] 24 | size_t u, i, j, k, nx, ny, nz; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2uhbd.c:24:10: warning: unused variable ‘u’ [-Wunused-variable] 24 | size_t u, i, j, k, nx, ny, nz; | ^ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/dx2uhbd.c:17: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 82%] Linking C executable ../bin/dx2uhbd [ 82%] Built target dx2uhbd [ 83%] Building C object tools/mesh/CMakeFiles/del2dx.dir/del2dx.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:45:64: warning: variable ‘extent’ set but not used [-Wunused-but-set-variable] 45 | float val, xmax, scale, oldmid[3], temp, xdata, range, extent, origin[3], delta[3]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:45:50: warning: unused variable ‘xdata’ [-Wunused-variable] 45 | float val, xmax, scale, oldmid[3], temp, xdata, range, extent, origin[3], delta[3]; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:45:15: warning: unused variable ‘val’ [-Wunused-variable] 45 | float val, xmax, scale, oldmid[3], temp, xdata, range, extent, origin[3], delta[3]; | ^~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:16: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:76:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 76 | fread(&igrid, 1, sizeof(int), pfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:89:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 89 | fread(buffer, 1, sizeof(char) * 10, pfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:97:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 97 | fread(data, tot_grid, sizeof(float), pfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:103:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 103 | fread(&scale, 1, sizeof(float), pfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/del2dx.c:106:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 106 | fread(oldmid, 3, sizeof(float), pfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 85%] Linking C executable ../bin/del2dx [ 85%] Built target del2dx [ 86%] Building C object tools/mesh/CMakeFiles/tensor2dx.dir/tensor2dx.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:42:19: warning: unused variable ‘index’ [-Wunused-variable] 42 | int i,j,k,index,icol; | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:42:17: warning: unused variable ‘k’ [-Wunused-variable] 42 | int i,j,k,index,icol; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:42:15: warning: unused variable ‘j’ [-Wunused-variable] 42 | int i,j,k,index,icol; | ^ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:14: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:97:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 97 | fscanf(pfile1,"%lf %lf %lf",&origin_xyz[0],&origin_xyz[1],&origin_xyz[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:98:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 98 | fscanf(pfile1,"%lf %lf %lf",&gspace[0],&gspace[1],&gspace[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:137:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 137 | fscanf(pfile2,"%i %i %i",&itmp[0],&itmp[1],&itmp[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:138:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 138 | fscanf(pfile2,"%lf %lf %lf",&datapt[0],&tmp[1],&tmp[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:139:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 139 | fscanf(pfile2,"%lf %lf %lf",&tmp[0],&datapt[1],&tmp[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:140:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 140 | fscanf(pfile2,"%lf %lf %lf",&tmp[0],&tmp[1],&datapt[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:155:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 155 | fscanf(pfile2,"%i %i %i",&itmp[0],&itmp[1],&itmp[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:156:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 156 | fscanf(pfile2,"%lf %lf %lf",&datapt[0],&tmp[1],&tmp[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:157:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 157 | fscanf(pfile2,"%lf %lf %lf",&tmp[0],&datapt[1],&tmp[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/tensor2dx.c:158:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 158 | fscanf(pfile2,"%lf %lf %lf",&tmp[0],&tmp[1],&datapt[2]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Linking C executable ../bin/tensor2dx [ 87%] Built target tensor2dx [ 88%] Building C object tools/mesh/CMakeFiles/uhbd_asc2bin.dir/uhbd_asc2bin.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:93, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:3: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:79:9: warning: unused variable ‘dz_grid’ [-Wunused-variable] 79 | int dz_##mat = dz | ^~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:24:5: note: in expansion of macro ‘MAT3’ 24 | MAT3(grid, MXGRD, MXGRD, MXGRD); | ^~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:30:5: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 30 | scanf("%s", flnm); | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:42:5: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 42 | scanf("%s", newfile); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:54:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 54 | fscanf(inFile, "%s", title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:57:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 57 | fscanf(inFile, "%lf", &scale); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:60:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 60 | fscanf(inFile, "%lf", &dum2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:63:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 63 | fscanf(inFile, "%d", &grdflg); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:66:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 66 | fscanf(inFile, "%d", &idum2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:69:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 69 | fscanf(inFile, "%d", &km); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:72:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 72 | fscanf(inFile, "%d", &one); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:75:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 75 | fscanf(inFile, "%d", &km); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:78:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 78 | fscanf(inFile, "%d", &im); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:81:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 81 | fscanf(inFile, "%d", &jm); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:84:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 84 | fscanf(inFile, "%d", &km); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:87:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 87 | fscanf(inFile, "%lf", &h); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:90:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 90 | fscanf(inFile, "%lf", &ox); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:93:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 93 | fscanf(inFile, "%lf", &oy); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:96:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 96 | fscanf(inFile, "%lf", &oz); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:99:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 99 | fscanf(inFile, "%lf", &dum3); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:102:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 102 | fscanf(inFile, "%lf", &dum4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:105:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 105 | fscanf(inFile, "%lf", &dum5); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:108:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 108 | fscanf(inFile, "%lf", &dum6); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:111:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 111 | fscanf(inFile, "%lf", &dum7); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:114:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 114 | fscanf(inFile, "%lf", &dum8); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:117:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 117 | fscanf(inFile, "%d", &idum3); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:120:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 120 | fscanf(inFile, "%d", &idum4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:125:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 125 | fscanf(inFile, "%d", &kk); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:128:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 128 | fscanf(inFile, "%d", &im); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:131:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 131 | fscanf(inFile, "%d", &jm); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/mesh/uhbd_asc2bin.c:138:17: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 138 | fscanf(inFile, "%lf", RAT3(grid, i, j, k)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 89%] Linking C executable ../bin/uhbd_asc2bin [ 89%] Built target uhbd_asc2bin [ 90%] Building C object tools/manip/CMakeFiles/coulomb.dir/coulomb.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/manip/coulomb.c: In function ‘main’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/manip/coulomb.c:20:12: warning: unused variable ‘j’ [-Wunused-variable] 20 | int i, j; | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/manip/coulomb.c:18:34: warning: unused variable ‘disp’ [-Wunused-variable] 18 | double *pos, energy, zmagic, disp[3], force[3]; | ^~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/manip/coulomb.c:8: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 91%] Linking C executable ../bin/coulomb [ 91%] Built target coulomb [ 93%] Building C object tools/manip/CMakeFiles/born.dir/born.c.o In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tools/manip/born.c:8: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 94%] Linking C executable ../bin/born [ 94%] Built target born [ 95%] Swig compile apbslib.i for python [ 95%] Built target apbslib_swig_compilation [ 96%] Building C object tools/python/CMakeFiles/_apbslib.dir/CMakeFiles/_apbslib.dir/apbslibPYTHON_wrap.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/tools/python/CMakeFiles/_apbslib.dir/apbslibPYTHON_wrap.c: In function ‘getPotentials’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/tools/python/CMakeFiles/_apbslib.dir/apbslibPYTHON_wrap.c:3775:12: warning: unused variable ‘rc’ [-Wunused-variable] 3775 | int i, rc, nx, ny, nz; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/tools/python/CMakeFiles/_apbslib.dir/apbslibPYTHON_wrap.c: In function ‘getForces’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/tools/python/CMakeFiles/_apbslib.dir/apbslibPYTHON_wrap.c:3829:31: warning: unused variable ‘npholder’ [-Wunused-variable] 3829 | PyObject *npvalues, *np, *npholder; | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/tools/python/CMakeFiles/_apbslib.dir/apbslibPYTHON_wrap.c:3829:26: warning: unused variable ‘np’ [-Wunused-variable] 3829 | PyObject *npvalues, *np, *npholder; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/tools/python/CMakeFiles/_apbslib.dir/apbslibPYTHON_wrap.c:3829:15: warning: unused variable ‘npvalues’ [-Wunused-variable] 3829 | PyObject *npvalues, *np, *npholder; | ^~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:64, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/tools/python/CMakeFiles/_apbslib.dir/apbslibPYTHON_wrap.c:3253: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ [ 97%] Linking C shared library ../../lib/_apbslib.so [ 97%] Built target _apbslib [ 98%] Building C object contrib/iapbs/src/CMakeFiles/iapbs.dir/apbs_driver.c.o /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:62:21: warning: argument 23 of type ‘double[1]’ with mismatched bound [-Warray-parameter=] 62 | double esenergy[1], | ~~~~~~~^~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:19: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.h:173:30: note: previously declared as ‘double[20]’ 173 | double esEnergy[NOSH_MAXCALC], | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:63:21: warning: argument 24 of type ‘double[1]’ with mismatched bound [-Warray-parameter=] 63 | double npenergy[1], | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.h:174:30: note: previously declared as ‘double[20]’ 174 | double npEnergy[NOSH_MAXCALC], | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c: In function ‘apbsdrv_’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:283:5: warning: multi-line comment [-Wcomment] 283 | // Vnm_print(1,"\nError you must provide a parameter file if you\n" \ | ^ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:115:21: warning: unused variable ‘isolve’ [-Wunused-variable] 115 | int rank, size, isolve, debug, natom; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:103:11: warning: unused variable ‘gm’ [-Wunused-variable] 103 | void *gm[NOSH_MAXMOL]; | ^~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:102:11: warning: variable ‘fetk’ set but not used [-Wunused-but-set-variable] 102 | void *fetk[NOSH_MAXCALC]; | ^~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:90:14: warning: unused variable ‘feparm’ [-Wunused-variable] 90 | FEMparm *feparm = VNULL; | ^~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:77, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:70, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:11: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h: At top level: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169:20: warning: ‘GEOFLOWparm_parseVDW’ declared ‘static’ but never defined [-Wunused-function] 169 | VPRIVATE Vrc_Codes GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171:20: warning: ‘GEOFLOWparm_parseETOL’ declared ‘static’ but never defined [-Wunused-function] 171 | VPRIVATE Vrc_Codes GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:78: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:251:20: warning: ‘PBAMparm_parseSalt’ declared ‘static’ but never defined [-Wunused-function] 251 | VPRIVATE Vrc_Codes PBAMparm_parseSalt(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:260:20: warning: ‘PBAMparm_parseRunType’ declared ‘static’ but never defined [-Wunused-function] 260 | VPRIVATE Vrc_Codes PBAMparm_parseRunType(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:269:20: warning: ‘PBAMparm_parseRunName’ declared ‘static’ but never defined [-Wunused-function] 269 | VPRIVATE Vrc_Codes PBAMparm_parseRunName(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:278:20: warning: ‘PBAMparm_parseRandorient’ declared ‘static’ but never defined [-Wunused-function] 278 | VPRIVATE Vrc_Codes PBAMparm_parseRandorient(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:287:20: warning: ‘PBAMparm_parsePBCS’ declared ‘static’ but never defined [-Wunused-function] 287 | VPRIVATE Vrc_Codes PBAMparm_parsePBCS(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:296:20: warning: ‘PBAMparm_parseUnits’ declared ‘static’ but never defined [-Wunused-function] 296 | VPRIVATE Vrc_Codes PBAMparm_parseUnits(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:305:20: warning: ‘PBAMparm_parse3Dmap’ declared ‘static’ but never defined [-Wunused-function] 305 | VPRIVATE Vrc_Codes PBAMparm_parse3Dmap(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:314:20: warning: ‘PBAMparm_parseGrid2D’ declared ‘static’ but never defined [-Wunused-function] 314 | VPRIVATE Vrc_Codes PBAMparm_parseGrid2D(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:323:20: warning: ‘PBAMparm_parseDX’ declared ‘static’ but never defined [-Wunused-function] 323 | VPRIVATE Vrc_Codes PBAMparm_parseDX(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:332:20: warning: ‘PBAMparm_parseGridPts’ declared ‘static’ but never defined [-Wunused-function] 332 | VPRIVATE Vrc_Codes PBAMparm_parseGridPts(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:341:20: warning: ‘PBAMparm_parseTermcombine’ declared ‘static’ but never defined [-Wunused-function] 341 | VPRIVATE Vrc_Codes PBAMparm_parseTermcombine(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:350:20: warning: ‘PBAMparm_parseDiff’ declared ‘static’ but never defined [-Wunused-function] 350 | VPRIVATE Vrc_Codes PBAMparm_parseDiff(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:359:20: warning: ‘PBAMparm_parseXYZ’ declared ‘static’ but never defined [-Wunused-function] 359 | VPRIVATE Vrc_Codes PBAMparm_parseXYZ(PBAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.h:79: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:199:20: warning: ‘PBSAMparm_parseTolsp’ declared ‘static’ but never defined [-Wunused-function] 199 | VPRIVATE Vrc_Codes PBSAMparm_parseTolsp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:208:20: warning: ‘PBSAMparm_parseSurf’ declared ‘static’ but never defined [-Wunused-function] 208 | VPRIVATE Vrc_Codes PBSAMparm_parseSurf(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:217:20: warning: ‘PBSAMparm_parseImat’ declared ‘static’ but never defined [-Wunused-function] 217 | VPRIVATE Vrc_Codes PBSAMparm_parseImat(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:226:20: warning: ‘PBSAMparm_parseExp’ declared ‘static’ but never defined [-Wunused-function] 226 | VPRIVATE Vrc_Codes PBSAMparm_parseExp(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:235:20: warning: ‘PBSAMparm_parseMSMS’ declared ‘static’ but never defined [-Wunused-function] 235 | VPRIVATE Vrc_Codes PBSAMparm_parseMSMS(PBSAMparm *thee, Vio *sock); | ^~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:93: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:811:15: warning: ‘bcolcomp’ declared ‘static’ but never defined [-Wunused-function] 811 | VPRIVATE void bcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:834:15: warning: ‘bcolcomp2’ declared ‘static’ but never defined [-Wunused-function] 834 | VPRIVATE void bcolcomp2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:863:15: warning: ‘bcolcomp3’ declared ‘static’ but never defined [-Wunused-function] 863 | VPRIVATE void bcolcomp3( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:885:15: warning: ‘bcolcomp4’ declared ‘static’ but never defined [-Wunused-function] 885 | VPRIVATE void bcolcomp4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:910:15: warning: ‘pcolcomp’ declared ‘static’ but never defined [-Wunused-function] 910 | VPRIVATE void pcolcomp( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:933:17: warning: ‘bspline2’ declared ‘static’ but never defined [-Wunused-function] 933 | VPRIVATE double bspline2( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:942:17: warning: ‘dbspline2’ declared ‘static’ but never defined [-Wunused-function] 942 | VPRIVATE double dbspline2( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:951:17: warning: ‘VFCHI4’ declared ‘static’ but never defined [-Wunused-function] 951 | VPRIVATE double VFCHI4( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:961:17: warning: ‘bspline4’ declared ‘static’ but never defined [-Wunused-function] 961 | VPRIVATE double bspline4( | ^~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:970:17: warning: ‘dbspline4’ declared ‘static’ but never defined [-Wunused-function] 970 | VPRIVATE double dbspline4( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:979:17: warning: ‘d2bspline4’ declared ‘static’ but never defined [-Wunused-function] 979 | VPRIVATE double d2bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:988:17: warning: ‘d3bspline4’ declared ‘static’ but never defined [-Wunused-function] 988 | VPRIVATE double d3bspline4( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:998:17: warning: ‘Vpmg_polarizEnergy’ declared ‘static’ but never defined [-Wunused-function] 998 | VPRIVATE double Vpmg_polarizEnergy( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1009:17: warning: ‘Vpmg_qfEnergyPoint’ declared ‘static’ but never defined [-Wunused-function] 1009 | VPRIVATE double Vpmg_qfEnergyPoint( | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1020:17: warning: ‘Vpmg_qfEnergyVolume’ declared ‘static’ but never defined [-Wunused-function] 1020 | VPRIVATE double Vpmg_qfEnergyVolume( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1031:15: warning: ‘Vpmg_splineSelect’ declared ‘static’ but never defined [-Wunused-function] 1031 | VPRIVATE void Vpmg_splineSelect( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1047:15: warning: ‘focusFillBound’ declared ‘static’ but never defined [-Wunused-function] 1047 | VPRIVATE void focusFillBound( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1058:15: warning: ‘bcfl1’ declared ‘static’ but never defined [-Wunused-function] 1058 | VPRIVATE void bcfl1( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1080:15: warning: ‘bcfl2’ declared ‘static’ but never defined [-Wunused-function] 1080 | VPRIVATE void bcfl2( | ^~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1109:15: warning: ‘multipolebc’ declared ‘static’ but never defined [-Wunused-function] 1109 | VPRIVATE void multipolebc( | ^~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1126:17: warning: ‘bcfl1sp’ declared ‘static’ but never defined [-Wunused-function] 1126 | VPRIVATE double bcfl1sp( | ^~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1139:15: warning: ‘bcCalc’ declared ‘static’ but never defined [-Wunused-function] 1139 | VPRIVATE void bcCalc( | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1147:15: warning: ‘fillcoCoef’ declared ‘static’ but never defined [-Wunused-function] 1147 | VPRIVATE void fillcoCoef( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1155:15: warning: ‘fillcoCoefMap’ declared ‘static’ but never defined [-Wunused-function] 1155 | VPRIVATE void fillcoCoefMap( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1164:15: warning: ‘fillcoCoefMol’ declared ‘static’ but never defined [-Wunused-function] 1164 | VPRIVATE void fillcoCoefMol( | ^~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1173:15: warning: ‘fillcoCoefMolIon’ declared ‘static’ but never defined [-Wunused-function] 1173 | VPRIVATE void fillcoCoefMolIon( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1182:15: warning: ‘fillcoCoefMolDiel’ declared ‘static’ but never defined [-Wunused-function] 1182 | VPRIVATE void fillcoCoefMolDiel( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1191:15: warning: ‘fillcoCoefMolDielNoSmooth’ declared ‘static’ but never defined [-Wunused-function] 1191 | VPRIVATE void fillcoCoefMolDielNoSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1208:15: warning: ‘fillcoCoefMolDielSmooth’ declared ‘static’ but never defined [-Wunused-function] 1208 | VPRIVATE void fillcoCoefMolDielSmooth( | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1217:15: warning: ‘fillcoCoefSpline’ declared ‘static’ but never defined [-Wunused-function] 1217 | VPRIVATE void fillcoCoefSpline( | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1226:15: warning: ‘fillcoCoefSpline3’ declared ‘static’ but never defined [-Wunused-function] 1226 | VPRIVATE void fillcoCoefSpline3( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1235:15: warning: ‘fillcoCoefSpline4’ declared ‘static’ but never defined [-Wunused-function] 1235 | VPRIVATE void fillcoCoefSpline4( | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1244:20: warning: ‘fillcoCharge’ declared ‘static’ but never defined [-Wunused-function] 1244 | VPRIVATE Vrc_Codes fillcoCharge( | ^~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1253:20: warning: ‘fillcoChargeMap’ declared ‘static’ but never defined [-Wunused-function] 1253 | VPRIVATE Vrc_Codes fillcoChargeMap( | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1261:15: warning: ‘fillcoChargeSpline1’ declared ‘static’ but never defined [-Wunused-function] 1261 | VPRIVATE void fillcoChargeSpline1( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1269:15: warning: ‘fillcoChargeSpline2’ declared ‘static’ but never defined [-Wunused-function] 1269 | VPRIVATE void fillcoChargeSpline2( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1277:15: warning: ‘fillcoPermanentMultipole’ declared ‘static’ but never defined [-Wunused-function] 1277 | VPRIVATE void fillcoPermanentMultipole( | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1285:15: warning: ‘fillcoInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1285 | VPRIVATE void fillcoInducedDipole( | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1294:15: warning: ‘fillcoNLInducedDipole’ declared ‘static’ but never defined [-Wunused-function] 1294 | VPRIVATE void fillcoNLInducedDipole( | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1304:15: warning: ‘extEnergy’ declared ‘static’ but never defined [-Wunused-function] 1304 | VPRIVATE void extEnergy( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1317:15: warning: ‘qfForceSpline1’ declared ‘static’ but never defined [-Wunused-function] 1317 | VPRIVATE void qfForceSpline1( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1327:15: warning: ‘qfForceSpline2’ declared ‘static’ but never defined [-Wunused-function] 1327 | VPRIVATE void qfForceSpline2( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1337:15: warning: ‘qfForceSpline4’ declared ‘static’ but never defined [-Wunused-function] 1337 | VPRIVATE void qfForceSpline4( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1351:15: warning: ‘zlapSolve’ declared ‘static’ but never defined [-Wunused-function] 1351 | VPRIVATE void zlapSolve( | ^~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1364:15: warning: ‘markSphere’ declared ‘static’ but never defined [-Wunused-function] 1364 | VPRIVATE void markSphere( | ^~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1384:17: warning: ‘Vpmg_qmEnergySMPBE’ declared ‘static’ but never defined [-Wunused-function] 1384 | VPRIVATE double Vpmg_qmEnergySMPBE(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385:17: warning: ‘Vpmg_qmEnergyNONLIN’ declared ‘static’ but never defined [-Wunused-function] 1385 | VPRIVATE double Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c: In function ‘setupString’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:943:26: warning: ‘write pot dx iapbs-pot-’ directive writing 23 bytes into a region of size between 1 and 4096 [-Wformat-overflow=] 943 | sprintf(string, "%swrite pot dx iapbs-pot-%d\n", string, getpid()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:970, from /usr/include/maloc/maloc_base.h:80, from /usr/include/maloc/maloc.h:38, from /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h:67: In function ‘sprintf’, inlined from ‘setupString’ at /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:943:7: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 26 and 4131 bytes into a destination of size 4096 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /usr/include/bits/stdio2.h:30:10: warning: ‘__sprintf_chk’ argument 5 overlaps destination object ‘string.1’ [-Wrestrict] /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c: In function ‘setupString’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:803:17: note: destination object referenced by ‘restrict’-qualified argument 1 was declared here 803 | static char string[MAX_BUF_SIZE]; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c: In function ‘getElecEnergy’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:1060:29: warning: ‘scalar’ may be used uninitialized [-Wmaybe-uninitialized] 1060 | ltenergy += (scalar * Vunit_kb * (1e-3) * Vunit_Na * /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:1043:32: note: ‘scalar’ was declared here 1043 | double ltenergy, gtenergy, scalar; | ^~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c: In function ‘apbsdrv_’: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:554:56: warning: ‘outputformat’ may be used uninitialized [-Wmaybe-uninitialized] 554 | if ((pbeparm->calcenergy == PCE_COMPS) && (outputformat != OUTPUT_NULL)){ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/src/apbs_driver.c:118:20: note: ‘outputformat’ was declared here 118 | Voutput_Format outputformat; | ^~~~~~~~~~~~ [100%] Linking C static library ../../../lib/libiapbs.a [100%] Built target iapbs make: Leaving directory '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build' + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.VDxTxa + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + '[' /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT '!=' / ']' + rm -rf /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT ++ dirname /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT + mkdir -p /builddir/build/BUILD/apbs-3.0.0-build + mkdir /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT make: Entering directory '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd apbs-3.0.0 + /usr/bin/make install DESTDIR=/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT 'INSTALL=/usr/bin/install -p' -C build [ 5%] Built target apbs_mg [ 26%] Built target apbs_generic [ 47%] Built target apbs_pmgc [ 48%] Built target apbs [ 49%] Built target apbs_routines [ 52%] Built target apbs-bin [ 54%] Generating documentation with Doxygen warning: Tag 'TCL_SUBST' at line 213 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'COLS_IN_ALPHA_INDEX' at line 857 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'HTML_TIMESTAMP' at line 953 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'FORMULA_TRANSPARENT' at line 1175 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'LATEX_SOURCE_CODE' at line 1313 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'PERL_PATH' at line 1565 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'CLASS_DIAGRAMS' at line 1577 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MSCGEN_PATH' at line 1586 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTNAME' at line 1616 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTSIZE' at line 1621 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_TRANSPARENT' at line 1770 of file '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: tag INPUT: input source '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/doc/license/LICENSE.txt' does not exist warning: source '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/doc/license/LICENSE.txt' is not a readable file or directory... skipping. Doxygen version used: 1.12.0 Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for files to exclude Searching INPUT for files to process... Searching for files in directory /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src Searching for files in directory /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem Searching for files in directory /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic Searching for files in directory /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg Searching for files in directory /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc Reading formula repository... Reading and parsing tag files Parsing files Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/apbs.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vcsm.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vcsm.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vcsm.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vcsm.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c... 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Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vatom.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vatom.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vatom.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vatom.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vcap.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vcap.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vcap.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vcap.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vparam.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vpbe.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vpbe.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vpbe.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vpbe.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vstring.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vstring.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vstring.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vstring.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vunit.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vunit.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/main.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vmgrid.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmgp.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmgp.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmgp.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmgp.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildAd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildBd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildGd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/buildPd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/cgd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/cgd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/cgd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/cgd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/gsd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/matvecd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgcsd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgdrvd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgfasd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mgsubd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mikpckd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mlinpckd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/mypdec.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newdrvd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/newtond.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/powerd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.h:7: warning: the name 'beparm.h' supplied as the argument in the \file statement is not an input file .0.0/src/pmgc/smoothd.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/smoothd.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/smoothd.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/pmgc/smoothd.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h... Preprocessing /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/mainpage.h... Parsing file /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc/programmer/mainpage.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Building concept list... Computing nesting relations for classes... Associating documentation with classes... Associating documentation with concepts... Associating documentation with modules... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Computing module relations... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Computing tooltip texts... Generating style sheet... Generating search indices... Generating images for formulas in HTML... Generating example documentation... Generating file sources... Generating code for file doc/programmer/mainpage.h... Generating code for file src/apbs.h... Generating code for file src/fem/vcsm.c... Generating code for file src/fem/vcsm.h... Generating code for file src/fem/vfetk.c... Generating code for file src/fem/vfetk.h... Generating code for file src/fem/vpee.c... Generating code for file src/fem/vpee.h... Generating code for file src/generic/apolparm.c... Generating code for file src/generic/apolparm.h... Generating code for file src/generic/bemparm.c... Generating code for file src/generic/bemparm.h... Generating code for file src/generic/femparm.c... Generating code for file src/generic/femparm.h... Generating code for file src/generic/geoflowparm.c... Generating code for file src/generic/geoflowparm.h... Generating code for file src/generic/mgparm.c... Generating code for file src/generic/mgparm.h... Generating code for file src/generic/nosh.c... Generating code for file src/generic/nosh.h... Generating code for file src/generic/pbamparm.c... Generating code for file src/generic/pbamparm.h... Generating code for file src/generic/pbeparm.c... Generating code for file src/generic/pbeparm.h... Generating code for file src/generic/pbsamparm.c... Generating code for file src/generic/pbsamparm.h... Generating code for file sr/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:2095: warning: Member polyEval(int numP, double p[], double c[][VMAXP], double xv[]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1528: warning: Member Vfetk_PDE_initElement(PDE *thee, int elementType, int chart, double tvx[][3], void *data) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1571: warning: Member Vfetk_PDE_initPoint(PDE *thee, int pointType, int chart, double txq[], double tU[], double tdU[][3]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1741: warning: Member Vfetk_PDE_DFu_wv(PDE *thee, int key, double W[], double dW[][VAPBS_DIM], double V[], double dV[][3]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1902: warning: Member Vfetk_PDE_bisectEdge(int dim, int dimII, int edgeType, int chart[], double vx[][3]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1912: warning: Member Vfetk_PDE_mapBoundary(int dim, int dimII, int vertexType, int chart, double vx[3]) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1917: warning: Member Vfetk_PDE_markSimplex(int dim, int dimII, int simplexType, int faceType[VAPBS_NVS], int vertexType[VAPBS_NVS], int chart[], double vx[][3], void *simplex) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:1998: warning: Member Vfetk_PDE_oneChart(int dim, int dimII, int objType, int chart[], double vx[][3], int dimV) (function) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:86: warning: Member var (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:93: warning: Member diriCubeString (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:130: warning: Member neumCubeString (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:366: warning: Member dim_2DP1 (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:386: warning: Member lgr_2DP1[3][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:395: warning: Member lgr_2DP1x[3][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:402: warning: Member lgr_2DP1y[3][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:409: warning: Member lgr_2DP1z[3][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:437: warning: Member dim_3DP1 (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:438: warning: Member lgr_3DP1[VAPBS_NVS][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:446: warning: Member lgr_3DP1x[VAPBS_NVS][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:454: warning: Member lgr_3DP1y[VAPBS_NVS][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:462: warning: Member lgr_3DP1z[VAPBS_NVS][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:476: warning: Member P_DEG (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:482: warning: Member numP (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:483: warning: Member c[VMAXP][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:484: warning: Member cx[VMAXP][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:485: warning: Member cy[VMAXP][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vfetk.c:486: warning: Member cz[VMAXP][VMAXP] (variable) of file vfetk.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:498: warning: Member Vpee_userDefined(Vpee *thee, SS *sm) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:532: warning: Member Vpee_ourSimp(Vpee *thee, SS *sm, int rcol) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:66: warning: Member Aprx_estNonlinResid(Aprx *thee, SS *sm, Bvec *u, Bvec *ud, Bvec *f) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:72: warning: Member Aprx_estLocalProblem(Aprx *thee, SS *sm, Bvec *u, Bvec *ud, Bvec *f) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.c:77: warning: Member Aprx_estDualProblem(Aprx *thee, SS *sm, Bvec *u, Bvec *ud, Bvec *f) (function) of file vpee.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:237: warning: Member APOLparm_parseGRID(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:268: warning: Member APOLparm_parseMOL(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:287: warning: Member APOLparm_parseSRFM(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:309: warning: Member APOLparm_parseSRAD(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:328: warning: Member APOLparm_parseSWIN(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:347: warning: Member APOLparm_parseTEMP(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:366: warning: Member APOLparm_parseGAMMA(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:385: warning: Member APOLparm_parseCALCENERGY(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:438: warning: Member APOLparm_parseCALCFORCE(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:491: warning: Member APOLparm_parseBCONC(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:510: warning: Member APOLparm_parseSDENS(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:529: warning: Member APOLparm_parseDPOS(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/apolparm.c:558: warning: Member APOLparm_parsePRESS(APOLparm *thee, Vio *sock) (function) of file apolparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:210: warning: Member BEMparm_parseTREE_ORDER(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:233: warning: Member BEMparm_parseTREE_N0(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:256: warning: Member BEMparm_parseMAC(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:279: warning: Member BEMparm_parseMESH(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/bemparm.c:308: warning: Member BEMparm_parseOUTDATA(BEMparm *thee, Vio *sock) (function) of file bemparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:196: warning: Member FEMparm_parseDOMAINLENGTH(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:221: warning: Member FEMparm_parseETOL(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:244: warning: Member FEMparm_parseEKEY(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:276: warning: Member FEMparm_parseAKEYPRE(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:303: warning: Member FEMparm_parseAKEYSOLVE(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:333: warning: Member FEMparm_parseTARGETNUM(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:352: warning: Member FEMparm_parseTARGETRES(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:372: warning: Member FEMparm_parseMAXSOLVE(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:391: warning: Member FEMparm_parseMAXVERT(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/femparm.c:411: warning: Member FEMparm_parseUSEMESH(FEMparm *thee, Vio *sock) (function) of file femparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:138: warning: Member FUBAR(const char *name) (function) of file geoflowparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:143: warning: Member parseNonNeg(double *tf, double def, int *set, char *name, Vio *sock) (function) of file geoflowparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:164: warning: Member GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock) (function) of file geoflowparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.c:186: warning: Member GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock) (function) of file geoflowparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:169: warning: Member GEOFLOWparm_parseVDW(GEOFLOWparm *thee, Vio *sock) (function) of file geoflowparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:171: warning: Member GEOFLOWparm_parseETOL(GEOFLOWparm *thee, Vio *sock) (function) of file geoflowparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:415: warning: Member MGparm_parseDIME(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:446: warning: Member MGparm_parseCHGM(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:497: warning: Member MGparm_parseNLEV(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:516: warning: Member MGparm_parseETOL(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:539: warning: Member MGparm_parseGRID(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:570: warning: Member MGparm_parseGLEN(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:601: warning: Member MGparm_parseGAMMA(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:616: warning: Member MGparm_parseGCENT(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:668: warning: Member MGparm_parseCGLEN(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:699: warning: Member MGparm_parseFGLEN(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:730: warning: Member MGparm_parseCGCENT(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:782: warning: Member MGparm_parseFGCENT(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:834: warning: Member MGparm_parsePDIME(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:872: warning: Member MGparm_parseOFRAC(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:892: warning: Member MGparm_parseASYNC(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/mgparm.c:912: warning: Member MGparm_parseUSEAQUA(MGparm *thee, Vio *sock) (function) of file mgparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:970: warning: Member NOsh_parseREAD(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1021: warning: Member NOsh_parsePRINT(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1187: warning: Member NOsh_parseELEC(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1313: warning: Member NOsh_parseAPOLAR(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2385: warning: Member NOsh_parseFEM(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1510: warning: Member NOsh_parseMG(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2845: warning: Member NOsh_parseBEM(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2934: warning: Member NOsh_parseGEOFLOW(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:3048: warning: Member NOsh_parsePBAM(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:3166: warning: Member NOsh_parsePBSAM(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2508: warning: Member NOsh_parseAPOL(NOsh *thee, Vio *sock, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1603: warning: Member NOsh_setupCalcMG(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1815: warning: Member NOsh_setupCalcMGAUTO(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1747: warning: Member NOsh_setupCalcMGMANUAL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2090: warning: Member NOsh_setupCalcMGPARA(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1722: warning: Member NOsh_setupCalcFEM(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2471: warning: Member NOsh_setupCalcFEMANUAL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1638: warning: Member NOsh_setupCalcBEM(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1666: warning: Member NOsh_setupCalcGEOFLOW(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1686: warning: Member NOsh_setupCalcPBAM(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:1704: warning: Member NOsh_setupCalcPBSAM(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2612: warning: Member NOsh_setupCalcBEMMANUAL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2677: warning: Member NOsh_setupCalcGEOFLOWMANUAL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2735: warning: Member NOsh_setupCalcPBAMAUTO(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2786: warning: Member NOsh_setupCalcPBSAMAUTO(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:2581: warning: Member NOsh_setupCalcAPOL(NOsh *thee, NOsh_calc *elec) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:598: warning: Member NOsh_parseREAD_MOL(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:675: warning: Member NOsh_parseREAD_PARM(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:739: warning: Member NOsh_parseREAD_DIEL(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:793: warning: Member NOsh_parseREAD_KAPPA(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:839: warning: Member NOsh_parseREAD_POTENTIAL(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:884: warning: Member NOsh_parseREAD_CHARGE(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/nosh.c:930: warning: Member NOsh_parseREAD_MESH(NOsh *thee, Vio *sock) (function) of file nosh.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:458: warning: Member PBAMparm_parseNtraj(PBAMparm *thee, Vio *sock) (function) of file pbamparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.c:549: warning: Member PBAMparm_parseTerm(PBAMparm *thee, Vio *sock) (function) of file pbamparm.c is not documented. c/generic/vacc.c... Generating code for file src/generic/vacc.h... Generating code for file src/generic/valist.c... Generating code for file src/generic/valist.h... Generating code for file src/generic/vatom.c... Generating code for file src/generic/vatom.h... Generating code for file src/generic/vcap.c... Generating code for file src/generic/vcap.h... Generating code for file src/generic/vclist.c... Generating code for file src/generic/vclist.h... Generating code for file src/generic/vgreen.c... Generating code for file src/generic/vgreen.h... Generating code for file src/generic/vhal.h... Generating code for file src/generic/vmatrix.h... Generating code for file src/generic/vparam.c... Generating code for file src/generic/vparam.h... Generating code for file src/generic/vpbe.c... Generating code for file src/generic/vpbe.h... Generating code for file src/generic/vstring.c... Generating code for file src/generic/vstring.h... Generating code for file src/generic/vunit.h... Generating code for file src/main.c... Generating code for file src/mg/vgrid.c... Generating code for file src/mg/vgrid.h... Generating code for file src/mg/vmgrid.c... Generating code for file src/mg/vmgrid.h... Generating code for file src/mg/vopot.c... Generating code for file src/mg/vopot.h... Generating code for file src/mg/vpmg.c... Generating code for file src/mg/vpmg.h... Generating code for file src/mg/vpmgp.c... Generating code for file src/mg/vpmgp.h... Generating code for file src/pmgc/buildAd.c... Generating code for file src/pmgc/buildAd.h... Generating code for file src/pmgc/buildBd.c... Generating code for file src/pmgc/buildBd.h... Generating code for file src/pmgc/buildGd.c... Generating code for file src/pmgc/buildGd.h... Generating code for file src/pmgc/buildPd.c... Generating code for file src/pmgc/buildPd.h... Generating code for file src/pmgc/cgd.c... Generating code for file src/pmgc/cgd.h... Generating code for file src/pmgc/gsd.c... Generating code for file src/pmgc/gsd.h... Generating code for file src/pmgc/matvecd.c... Generating code for file src/pmgc/matvecd.h... Generating code for file src/pmgc/mgcsd.c... Generating code for file src/pmgc/mgcsd.h... Generating code for file src/pmgc/mgdrvd.c... Generating code for file src/pmgc/mgdrvd.h... Generating code for file src/pmgc/mgfasd.c... Generating code for file src/pmgc/mgfasd.h... Generating code for file src/pmgc/mgsubd.c... Generating code for file src/pmgc/mgsubd.h... Generating code for file src/pmgc/mikpckd.c... Generating code for file src/pmgc/mikpckd.h... Generating code for file src/pmgc/mlinpckd.c... Generating code for file src/pmgc/mlinpckd.h... Generating code for file src/pmgc/mypdec.c... Generating code for file src/pmgc/mypdec.h... Generating code for file src/pmgc/newdrvd.c... Generating code for file src/pmgc/newdrvd.h... Generating code for file src/pmgc/newtond.c... Generating code for file src/pmgc/newtond.h... Generating code for file src/pmgc/powerd.c... Generating code for file src/pmgc/powerd.h... Generating code for file src/pmgc/smoothd.c... Generating code for file src/pmgc/smoothd.h... Generating code for file src/routines.c... Generating code for file src/routines.h... Generating file documentation... Generating docs for file src/apbs.h... Generating docs for file src/fem/vcsm.c... Generating docs for file src/fem/vcsm.h... Generating docs for file src/fem/vfetk.c... Generating docs for file src/fem/vfetk.h... Generating docs for file src/fem/vpee.c... Generating docs for file src/fem/vpee.h... Generating docs for file src/generic/apolparm.c... Generating docs for file src/generic/bemparm.c... Generating docs for file src/generic/femparm.c... Generating docs for file src/generic/femparm.h... Generating docs for file src/generic/geoflowparm.c... Generating docs for file src/generic/geoflowparm.h... Generating docs for file src/generic/mgparm.c... Generating docs for file src/generic/mgparm.h... Generating docs for file src/generic/nosh.c... Generating docs for file src/generic/nosh.h... Generating docs for file src/generic/pbamparm.c... Gener/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:77: warning: Member PBAMPARM_MAXWRITE (macro definition) of file pbamparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:78: warning: Member PBAMPARM_MAXMOL (macro definition) of file pbamparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:87: warning: Member PBEparm_getzmem(PBEparm *thee) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:91: warning: Member PBEparm_getLmem(PBEparm *thee) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:95: warning: Member PBEparm_getmembraneDiel(PBEparm *thee) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:99: warning: Member PBEparm_getmemv(PBEparm *thee) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:368: warning: Member PBEparm_parseLPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:375: warning: Member PBEparm_parseNPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:382: warning: Member PBEparm_parseMOL(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:401: warning: Member PBEparm_parseLRPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:408: warning: Member PBEparm_parseNRPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:415: warning: Member PBEparm_parseSMPBE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:474: warning: Member PBEparm_parseBCFL(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:555: warning: Member PBEparm_parseION(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:652: warning: Member PBEparm_parsePDIE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:671: warning: Member PBEparm_parseSDENS(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:690: warning: Member PBEparm_parseSDIE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:709: warning: Member PBEparm_parseSRFM(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:780: warning: Member PBEparm_parseSRAD(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:799: warning: Member PBEparm_parseSWIN(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:818: warning: Member PBEparm_parseTEMP(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:837: warning: Member PBEparm_parseUSEMAP(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:895: warning: Member PBEparm_parseCALCENERGY(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:948: warning: Member PBEparm_parseCALCFORCE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1005: warning: Member PBEparm_parseZMEM(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1025: warning: Member PBEparm_parseLMEM(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1044: warning: Member PBEparm_parseMDIE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1063: warning: Member PBEparm_parseMEMV(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1084: warning: Member PBEparm_parseWRITE(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.c:1178: warning: Member PBEparm_parseWRITEMAT(PBEparm *thee, Vio *sock) (function) of file pbeparm.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:77: warning: Member PBSAMPARM_MAXWRITE (macro definition) of file pbsamparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:78: warning: Member PBSAMPARM_MAXMOL (macro definition) of file pbsamparm.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:277: warning: Member Vacc_vdwAcc(Vacc *thee, double center[3]) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:307: warning: Member Vacc_ivdwAcc(Vacc *thee, double center[3], double radius) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:679: warning: Member Vacc_writeGMV(Vacc *thee, double radius, int meth, Gem *gm, char *iodev, char *iofmt, char *iohost, char *iofile) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1252: warning: Member Vacc_SASAPos(Vacc *thee, double radius) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:1277: warning: Member Vacc_atomSASAPos(Vacc *thee, double radius, Vatom *atom, int mode) (function) of file vacc.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:76: warning: The following parameter of ivdwAccExclus(Vacc *thee, double center[3], double radius, int atomID) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vacc.c:490: warning: The following parameter of splineAcc(Vacc *thee, double center[VAPBS_DIM], double win, double infrad, VclistCell *cell) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:186: warning: Member Valist_readPDBSerial(Valist *thee, Vio *sock, int *serial) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:206: warning: Member Valist_readPDBAtomName(Valist *thee, Vio *sock, char atomName[VMAX_ARGLEN]) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:224: warning: Member Valist_readPDBResidueName(Valist *thee, Vio *sock, char resName[VMAX_ARGLEN]) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:242: warning: Member Valist_readPDBResidueNumber(Valist *thee, Vio *sock, int *resSeq) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:298: warning: Member Valist_readPDBAtomCoord(Valist *thee, Vio *sock, double *coord) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:316: warning: Member Valist_readPDBChargeRadius(Valist *thee, Vio *sock, double *charge, double *radius) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:344: warning: Member Valist_readPDB_throughXYZ(Valist *thee, Vio *sock, int *serial, char atomName[VMAX_ARGLEN], char resName[VMAX_ARGLEN], int *resSeq, double *x, double *y, double *z) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:424: warning: Member Valist_getAtomStorage(Valist *thee, Vatom **plist, int *pnlist, int *pnatoms) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:480: warning: Member Valist_setAtomArray(Valist *thee, Vatom **plist, int nlist, int natoms) (function) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:60: warning: Member Valist_whiteChars (variable) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:61: warning: Member Valist_commChars (variable) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/valist.c:62: warning: Member Valist_xmlwhiteChars (variable) of file valist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:128: warning: Member VCLIST_INFLATE (macro definition) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:90: warning: Member Vclist_getMolDims(Vclist *thee, double lower_corner[VAPBS_DIM], double upper_corner[VAPBS_DIM], double *r_max) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:125: warning: Member Vclist_setupGrid(Vclist *thee) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:174: warning: Member Vclist_storeParms(Vclist *thee, Valist *alist, double max_radius, int npts[VAPBS_DIM], Vclist_DomainMode mode, double lower_corner[VAPBS_DIM], double upper_corner[VAPBS_DIM]) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:231: warning: Member Vclist_gridSpan(Vclist *thee, Vatom *atom, int imin[VAPBS_DIM], int imax[VAPBS_DIM]) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:262: warning: Member Vclist_arrayIndex(Vclist *thee, int i, int j, int k) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vclist.c:270: warning: Member Vclist_assignAtoms(Vclist *thee) (function) of file vclist.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:425: warning: Member treesetup(Vgreen *thee) (function) of file vgreen.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:505: warning: Member treecleanup(Vgreen *thee) (function) of file vgreen.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vgreen.c:525: warning: Member treecalc(Vgreen *thee, double *xtar, double *ytar, double *ztar, double *qtar, int numtars, double *tpengtar, double *x, double *y, double *z, double *q, int numpars, double *fx, double *fy, double *fz, int iflag, int farrdim, int arrdim) (function) of file vgreen.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:458: warning: Member MAX_HASH_DIM (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:572: warning: Member OS_SEP_STR (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:573: warning: Member OS_SEP_CHAR (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:600: warning: Member ANNOUNCE_FUNCTION (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:601: warning: Member WARN_UNTESTED (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:602: warning: Member WARN_PARTTESTED (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:653: warning: Member VCHANNELEDMESSAGE0(channel, msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:658: warning: Member VCHANNELEDMESSAGE1(channel, msg, arg0) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:665: warning: Member VCHANNELEDMESSAGE2(channel, msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:672: warning: Member VCHANNELEDMESSAGE3(channel, msg, arg0, arg1, arg2) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:679: warning: Member VMESSAGE0(msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:680: warning: Member VMESSAGE1(msg, arg0) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:681: warning: Member VMESSAGE2(msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:682: warning: Member VMESSAGE3(msg, arg0, arg1, arg2) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:684: warning: Member VERRMSG0(msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:685: warning: Member VERRMSG1(msg, arg0) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:686: warning: Member VERRMSG2(msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:687: warning: Member VERRMSG3(msg, arg0, arg1, arg2) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:731: warning: Member VASSERT_MSG0(cnd, msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:741: warning: Member VASSERT_MSG1(cnd, msg, arg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:753: warning: Member VASSERT_MSG2(cnd, msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:825: warning: Member VWARN_MSG0(cnd, msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:838: warning: Member VWARN_MSG1(cnd, msg, arg0) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:853: warning: Member VWARN_MSG2(cnd, msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:899: warning: Member VABORT_MSG0(msg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:907: warning: Member VABORT_MSG1(msg, arg) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:917: warning: Member VABORT_MSG2(msg, arg0, arg1) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:944: warning: Member PRINT_INT(expr) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:945: warning: Member PRINT_DBL(expr) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:948: warning: Member VMALLOC(vmem, n, type) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:950: warning: Member VFREE(vmem, n, type, ptr) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:952: warning: Member VFILL(vec, n, val) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:959: warning: Member VCOPY(srcvec, dstvec, i, n) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:968: warning: Member VAT(array, i) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:969: warning: Member RAT(array, i) (macro definition) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:73: warning: Member Vrc_Codes (typedef) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:95: warning: Member Vsol_Meth (typedef) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vhal.h:966: warning: Member wrap_text(char *str, int right_margin, int left_padding) (function) of file vhal.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:64: warning: Member MAT2(mat, dx, dy) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:68: warning: Member RAT2(mat, x, y) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:71: warning: Member VAT2(mat, x, y) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:76: warning: Member MAT3(mat, dx, dy, dz) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:81: warning: Member RAT3(mat, x, y, z) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vmatrix.h:84: warning: Member VAT3(mat, x, y, z) (macro definition) of file vmatrix.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/vpbe.c:62: warning: Member MAX_SPLINE_WINDOW (macro definition) of file vpbe.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:67: warning: Member IJK(i, j, k) (macro definition) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:77: warning: Member MCwhiteChars (variable) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:78: warning: Member MCcommChars (variable) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:79: warning: Member Vcompare (variable) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vgrid.c:80: warning: Member Vprecision[26] (variable) of file vgrid.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vopot.c:113: warning: Member IJK(i, j, k) (macro definition) of file vopot.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:1401: warning: Member Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:2828: warning: Member bcCalcOrig(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3130: warning: Member gridPointIsValid(int i, int j, int k, int nx, int ny, int nz) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3313: warning: Member packAtoms(double *ax, double *ay, double *az, double *charge, double *size, Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3338: warning: Member packUnpack(int nx, int ny, int nz, int ngrid, double *gx, double *gy, double *gz, double *value, Vpmg *thee, int pack) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3407: warning: Member bcflnew(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3597: warning: Member bcfl_sdh(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3868: warning: Member bcfl_mdh(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:3995: warning: Member bcfl_mem(double zmem, double L, double eps_m, double eps_w, double V, double xkappa, double *gxcf, double *gycf, double *gzcf, double *xf, double *yf, double *zf, int nx, int ny, int nz) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:4174: warning: Member bcfl_map(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:6684: warning: Member markFrac(double rtot, double *tpos, int nx, int ny, int nz, double hx, double hy, double hzed, double xmin, double ymin, double zmin, double *xarray, double *yarray, double *zarray) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.c:10260: warning: Member fillcoPermanentInduced(Vpmg *thee) (function) of file vpmg.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1056: warning: The following parameter of bcfl1(double size, double *apos, double charge, double xkappa, double pre1, double *gxcf, double *gycf, double *gzcf, double *xf, double *yf, double *zf, int nx, int ny, int nz) is not documented: parameter 'size' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1362: warning: argument 'hz' of command @param is not found in the argument list of markSphere(double rtot, double *tpos, int nx, int ny, int nz, double hx, double hy, double hzed, double xmin, double ymin, double zmin, double *array, double markVal) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1362: warning: The following parameter of markSphere(double rtot, double *tpos, int nx, int ny, int nz, double hx, double hy, double hzed, double xmin, double ymin, double zmin, double *array, double markVal) is not documented: parameter 'rtot' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1107: warning: The following parameter of multipolebc(double r, double kappa, double eps_p, double eps_w, double rad, double tsr[3]) is not documented: parameter 'r' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1315: warning: The following parameters of qfForceSpline1(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1325: warning: The following parameters of qfForceSpline2(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1335: warning: The following parameters of qfForceSpline4(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:995: warning: The following parameter of Vpmg_polarizEnergy(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1006: warning: The following parameter of Vpmg_qfEnergyPoint(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1017: warning: The following parameter of Vpmg_qfEnergyVolume(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1029: warning: The following parameter of Vpmg_splineSelect(int srfm, Vacc *acc, double *gpos, double win, double infrad, Vatom *atom, double *force) is not documented: parameter 'srfm' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1348: warning: The following parameters of zlapSolve(Vpmg *thee, double **solution, double **source, double **work1) are not documented: parameter 'thee' parameter 'solution' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:105: warning: Member VPMGMAXPART (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1392: warning: Member VCUB(x) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1393: warning: Member VLOG(x) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1395: warning: Member IJK(i, j, k) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1396: warning: Member IJKx(j, k, i) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1397: warning: Member IJKy(i, k, j) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1398: warning: Member IJKz(i, j, k) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1399: warning: Member VFCHI(iint, iflt) (macro definition) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1385: warning: Member Vpmg_qmEnergyNONLIN(Vpmg *thee, int extFlag) (function) of file vpmg.h is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1056: warning: The following parameter of bcfl1(double size, double *apos, double charge, double xkappa, double pre1, double *gxcf, double *gycf, double *gzcf, double *xf, double *yf, double *zf, int nx, int ny, int nz) is not documented: parameter 'size' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1362: warning: The following parameter of markSphere(double rtot, double *tpos, int nx, int ny, int nz, double hx, double hy, double hzed, double xmin, double ymin, double zmin, double *array, double markVal) is not documented: parameter 'rtot' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1107: warning: The following parameter of multipolebc(double r, double kappa, double eps_p, double eps_w, double rad, double tsr[3]) is not documented: parameter 'r' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1315: warning: The following parameters of qfForceSpline1(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1325: warning: The following parameters of qfForceSpline2(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1335: warning: The following parameters of qfForceSpline4(Vpmg *thee, double *force, int atomID) are not documented: parameter 'thee' parameter 'force' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:995: warning: The following parameter of Vpmg_polarizEnergy(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1006: warning: The following parameter of Vpmg_qfEnergyPoint(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1017: warning: The following parameter of Vpmg_qfEnergyVolume(Vpmg *thee, int extFlag) is not documented: parameter 'thee' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1029: warning: The following parameter of Vpmg_splineSelect(int srfm, Vacc *acc, double *gpos, double win, double infrad, Vatom *atom, double *force) is not documented: parameter 'srfm' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmg.h:1348: warning: The following parameters of zlapSolve(Vpmg *thee, double **solution, double **source, double **work1) are not documented: parameter 'thee' parameter 'solution' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/mg/vpmgp.c:294: warning: Member coarsenThis(int nOld) (function) of file vpmgp.c is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/fem/vpee.h:17: warning: end of comment block while expecting command /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:247: warning: argument 'parm' of command @param is not found in the argument list of PBAMparm_parseSalt(PBAMparm *thee, Vio *sock) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:247: warning: The following parameter of PBAMparm_parseSalt(PBAMparm *thee, Vio *sock) is not documented: parameter 'sock' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:513: warning: The following parameter of energyAPOL(APOLparm *apolparm, double sasa, double sav, double atomsasa[], double atomwcaEnergy[], int numatoms) is not documented: parameter 'apolparm' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:610: warning: The following parameter of killFE(NOsh *nosh, Vpbe *pbe[NOSH_MAXCALC], Vfetk *fetk[NOSH_MAXCALC], Gem *gem[NOSH_MAXMOL]) is not documented: parameter 'nosh' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:262: warning: The following parameter of killMG(NOsh *nosh, Vpbe *pbe[NOSH_MAXCALC], Vpmgp *pmgp[NOSH_MAXCALC], Vpmg *pmg[NOSH_MAXCALC]) is not documented: parameter 'nosh' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:882: warning: argument 'charge' of command @param is not found in the argument list of loadChargeMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:882: warning: The following parameter of loadChargeMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) is not documented: parameter 'map' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:662: warning: argument 'kappa' of command @param is not found in the argument list of loadKappaMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:662: warning: The following parameter of loadKappaMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) is not documented: parameter 'map' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:791: warning: argument 'pot' of command @param is not found in the argument list of loadPotMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:791: warning: The following parameter of loadPotMaps(NOsh *nosh, Vgrid *map[NOSH_MAXMOL]) is not documented: parameter 'map' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:622: warning: argument 'nosh' of command @param is not found in the argument list of preRefineFE(int i, FEMparm *feparm, Vfetk *fetk[NOSH_MAXCALC]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:494: warning: The following parameter of printApolForce(Vcom *com, NOsh *nosh, int nforce[NOSH_MAXCALC], AtomForce *atomForce[NOSH_MAXCALC], int i) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:445: warning: The following parameter of printElecEnergy(Vcom *com, NOsh *nosh, double totEnergy[NOSH_MAXCALC], int iprint) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:481: warning: The following parameter of printElecForce(Vcom *com, NOsh *nosh, int nforce[NOSH_MAXCALC], AtomForce *atomForce[NOSH_MAXCALC], int i) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:432: warning: The following parameter of printEnergy(Vcom *com, NOsh *nosh, double totEnergy[NOSH_MAXCALC], int iprint) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.h:468: warning: The following parameter of printForce(Vcom *com, NOsh *nosh, int nforce[NOSH_MAXCALC], AtomForce *atomForce[NOSH_MAXCALC], int i) is not documented: parameter 'com' /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/routines.c:4125: warning: argument 'i' of command @param is not found in the argument list of solveFE(int icalc, PBEparm *pbeparm, FEMparm *feparm, Vfetk *fetk[NOSH_MAXCALC]) /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:104: warning: Member vdw (variable) of struct sGEOFLOWparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/geoflowparm.h:105: warning: Member setvdw (variable) of struct sGEOFLOWparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:111: warning: Member salt (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:112: warning: Member setsalt (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:115: warning: Member runtype[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:116: warning: Member setruntype (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:119: warning: Member runname[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:120: warning: Member setrunname (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:123: warning: Member setrandorient (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:126: warning: Member pbcboxlen (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:127: warning: Member setpbcs (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:130: warning: Member units[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:131: warning: Member setunits (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:137: warning: Member gridpt (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:138: warning: Member setgridpt (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:141: warning: Member map3dname[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:142: warning: Member set3dmap (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:145: warning: Member grid2Dname[PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:146: warning: Member grid2Dax[PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:147: warning: Member grid2Dloc[PBAMPARM_MAXWRITE] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:148: warning: Member grid2Dct (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:149: warning: Member setgrid2Dname (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:152: warning: Member dxname[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:153: warning: Member setdxname (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:158: warning: Member ntraj (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:159: warning: Member setntraj (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:161: warning: Member termcombine[CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:162: warning: Member settermcombine (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:164: warning: Member diffct (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:165: warning: Member moveType[PBAMPARM_MAXMOL][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:166: warning: Member transDiff[PBAMPARM_MAXMOL] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:167: warning: Member rotDiff[PBAMPARM_MAXMOL] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:169: warning: Member termct (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:170: warning: Member setterm (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:172: warning: Member termnam[PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:173: warning: Member termnu[PBAMPARM_MAXWRITE][1] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:174: warning: Member termVal[PBAMPARM_MAXWRITE] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:175: warning: Member confil[PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:176: warning: Member conpad[PBAMPARM_MAXWRITE] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:177: warning: Member confilct (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:179: warning: Member setxyz (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:180: warning: Member xyzct[PBAMPARM_MAXMOL] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbamparm.h:181: warning: Member xyzfil[PBAMPARM_MAXMOL][PBAMPARM_MAXWRITE][CHR_MAXLEN] (variable) of struct sPBAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.h:202: warning: Member pbam_3dmapstem[VMAX_ARGLEN] (variable) of struct sPBEparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbeparm.h:203: warning: Member pbam_3dmapflag (variable) of struct sPBEparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:112: warning: Member settolsp (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:113: warning: Member tolsp (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:115: warning: Member setmsms (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:116: warning: Member probe_radius (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:117: warning: Member density (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:119: warning: Member setsurf (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:120: warning: Member surfct (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:121: warning: Member surffil[PBSAMPARM_MAXMOL][CHR_MAXLEN] (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:123: warning: Member setimat (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:124: warning: Member imatct (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:125: warning: Member imatfil[PBSAMPARM_MAXMOL][CHR_MAXLEN] (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:127: warning: Member setexp (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:128: warning: Member expct (variable) of struct sPBSAMparm is not documented. /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/src/generic/pbsamparm.h:129: warning: Member expfil[PBSAMPARM_MAXMOL][CHR_MAXLEN] (variable) of struct sPBSAMparm is not documented. ating docs for file src/generic/pbamparm.h... Generating docs for file src/generic/pbeparm.c... Generating docs for file src/generic/pbeparm.h... Generating docs for file src/generic/pbsamparm.c... Generating docs for file src/generic/pbsamparm.h... Generating docs for file src/generic/vacc.c... Generating docs for file src/generic/vacc.h... Generating docs for file src/generic/valist.c... Generating docs for file src/generic/valist.h... Generating docs for file src/generic/vatom.c... Generating docs for file src/generic/vatom.h... Generating docs for file src/generic/vcap.c... Generating docs for file src/generic/vcap.h... Generating docs for file src/generic/vclist.c... Generating docs for file src/generic/vclist.h... Generating docs for file src/generic/vgreen.c... Generating docs for file src/generic/vgreen.h... Generating docs for file src/generic/vhal.h... Generating docs for file src/generic/vmatrix.h... Generating docs for file src/generic/vparam.c... Generating docs for file src/generic/vparam.h... Generating docs for file src/generic/vpbe.c... Generating docs for file src/generic/vpbe.h... Generating docs for file src/generic/vstring.c... Generating docs for file src/generic/vstring.h... Generating docs for file src/generic/vunit.h... Generating docs for file src/main.c... Generating docs for file src/mg/vgrid.c... Generating docs for file src/mg/vgrid.h... Generating docs for file src/mg/vmgrid.c... Generating docs for file src/mg/vmgrid.h... Generating docs for file src/mg/vopot.c... Generating docs for file src/mg/vopot.h... Generating docs for file src/mg/vpmg.c... Generating docs for file src/mg/vpmg.h... Generating docs for file src/mg/vpmgp.c... Generating docs for file src/mg/vpmgp.h... Generating docs for file src/routines.c... Generating docs for file src/routines.h... Generating page documentation... Generating docs for page bug... Generating docs for page deprecated... Generating group documentation... Generating class documentation... Generating docs for compound AtomForce... Generating docs for compound sAPOLparm... Generating docs for compound sBEMparm... Generating docs for compound sFEMparm... Generating docs for compound sGEOFLOWparm... Generating docs for compound sMGparm... Generating docs for compound sNOsh... Generating docs for compound sNOsh_calc... Generating docs for compound sPBAMparm... Generating docs for compound sPBEparm... Generating docs for compound sPBSAMparm... Generating docs for compound sVacc... Generating docs for compound sVaccSurf... Generating docs for compound sValist... Generating docs for compound sVatom... Generating docs for compound sVclist... Generating docs for compound sVclistCell... Generating docs for compound sVcsm... Generating docs for compound sVfetk... Generating docs for compound sVfetk_LocalVar... Generating docs for compound sVgreen... Generating docs for compound sVgrid... Generating docs for compound sVmgrid... Generating docs for compound sVopot... Generating docs for compound sVparam_AtomData... Generating docs for compound sVpbe... Generating docs for compound sVpee... Generating docs for compound sVpmg... Generating docs for compound sVpmgp... Generating docs for compound Vparam... Generating docs for compound Vparam_ResData... Generating concept documentation... Generating module documentation... Generating namespace documentation... Generating graph info page... Generating directory documentation... Generating dependency graph for directory src/fem Generating dependency graph for directory src/generic Generating dependency graph for directory src/mg Generating dependency graph for directory src/pmgc Generating dependency graph for directory doc/programmer Generating dependency graph for directory src Generating index page... Generating main page... Generating page index... Generating topic index... Generating module index... Generating module member index... Generating namespace index... Generating namespace member index... Generating concept index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating graphical class hierarchy... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Running plantuml with JAVA... Running dot... type lookup cache used 2286/65536 hits=42754 misses=2420 symbol lookup cache used 5506/65536 hits=44974 misses=5506 finished... [ 54%] Built target doc [ 55%] Generating pdf documentation This is pdfTeX, Version 3.141592653-2.6-1.40.25 (TeX Live 2023) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2022-11-01> patch level 1 L3 programming layer <2023-02-22> (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2022/07/02 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty (/usr/share/texlive/texmf-dist/tex/latex/tools/array-2016-10-06.sty)) (/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty) (./doxygen.sty (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/calc.sty) (/usr/share/texlive/texmf-dist/tex/latex/float/float.sty) 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Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] [25] Package longtable Warning: Column widths have changed (longtable) in table 7.14 on input line 453. Underfull \hbox (badness 10000) detected at line 468 [][][] Underfull \hbox (badness 10000) detected at line 471 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.15 on input line 482. ) (./group___vfetk.tex [26] [27] [28] [29] [30] Underfull \hbox (badness 10000) detected at line 320 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.16 on input line 336. Underfull \hbox (badness 10000) detected at line 351 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.17 on input line 371. Package longtable Warning: Column widths have changed (longtable) in table 7.18 on input line 399. [31] Underfull \hbox (badness 10000) detected at line 414 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.19 on input line 430. Underfull \hbox (badness 10000) detected at line 445 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.20 on input line 461. Underfull \hbox (badness 10000) detected at line 479 [][][] Underfull \hbox (badness 10000) detected at line 482 [][][] [32] Package longtable Warning: Column widths have changed (longtable) in table 7.21 on input line 493. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.22 on input line 523. Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [33] Package longtable Warning: Column widths have changed (longtable) in table 7.23 on input line 555. Underfull \hbox (badness 10000) detected at line 575 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.24 on input line 584. Underfull \hbox (badness 10000) detected at line 585 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.25 on input line 594. [34] Underfull \hbox (badness 10000) detected at line 609 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.26 on input line 616. Underfull \hbox (badness 10000) detected at line 631 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.27 on input line 638. Underfull \hbox (badness 10000) detected at line 653 [][][] Underfull \hbox (badness 10000) detected at line 674 [][][] Underfull \hbox (badness 10000) detected at line 677 [][][] [35] Package longtable Warning: Column widths have changed (longtable) in table 7.28 on input line 692. Underfull \hbox (badness 10000) detected at line 707 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.29 on input line 718. Underfull \hbox (badness 10000) detected at line 733 [][][] Underfull \hbox (badness 10000) detected at line 736 [][][] Underfull \hbox (badness 10000) detected at line 741 [][][] [36] Package longtable Warning: Column widths have changed (longtable) in table 7.30 on input line 752. Underfull \hbox (badness 10000) detected at line 767 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.31 on input line 780. Underfull \hbox (badness 10000) detected at line 795 [][][] Underfull \hbox (badness 10000) detected at line 798 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.32 on input line 805. [37] Underfull \hbox (badness 10000) detected at line 820 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 826 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.33 on input line 835. Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 853 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.34 on input line 860. Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 878 [][][] [38] Underfull \hbox (badness 10000) detected at line 881 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.35 on input line 890. Underfull \hbox (badness 10000) detected at line 905 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.36 on input line 915. Underfull \hbox (badness 10000) detected at line 930 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.37 on input line 940. [39] Underfull \hbox (badness 10000) detected at line 955 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.38 on input line 964. Underfull \hbox (badness 10000) detected at line 975 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.39 on input line 990. Underfull \hbox (badness 10000) detected at line 1005 [][][] Underfull \hbox (badness 10000) detected at line 1008 [][][] [40] Package longtable Warning: Column widths have changed (longtable) in table 7.40 on input line 1015. Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.41 on input line 1048. Underfull \hbox (badness 10000) detected at line 1059 [][][] Underfull \hbox (badness 10000) detected at line 1062 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.42 on input line 1071. [41] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.43 on input line 1100. Underfull \hbox (badness 10000) detected at line 1115 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.44 on input line 1134. [42] Underfull \hbox (badness 10000) detected at line 1152 [][][] Underfull \hbox (badness 10000) detected at line 1155 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.45 on input line 1174. Underfull \hbox (badness 10000) detected at line 1185 [][][] Underfull \hbox (badness 10000) detected at line 1188 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.46 on input line 1195. [43] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1213 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.47 on input line 1220. Underfull \hbox (badness 10000) detected at line 1238 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.48 on input line 1253. [44] Underfull \hbox (badness 10000) detected at line 1271 [][][] Underfull \hbox (badness 10000) detected at line 1274 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.49 on input line 1289. Underfull \hbox (badness 10000) detected at line 1304 [][][] Underfull \hbox (badness 10000) detected at line 1307 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.50 on input line 1318. [45] Underfull \hbox (badness 10000) detected at line 1333 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.51 on input line 1350. Underfull \hbox (badness 10000) detected at line 1361 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.52 on input line 1376. [46] Underfull \hbox (badness 10000) detected at line 1391 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.53 on input line 1412. Underfull \hbox (badness 10000) detected at line 1425 [][][] Underfull \hbox (badness 10000) detected at line 1428 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.54 on input line 1439. [47] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.55 on input line 1472. Underfull \hbox (badness 10000) detected at line 1483 [][][] Underfull \hbox (badness 10000) detected at line 1486 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.56 on input line 1509. [48] Underfull \hbox (badness 10000) detected at line 1520 [][][] Underfull \hbox (badness 10000) detected at line 1523 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.57 on input line 1540. Underfull \hbox (badness 10000) detected at line 1551 [][][] [49] Package longtable Warning: Column widths have changed (longtable) in table 7.58 on input line 1570. Underfull \hbox (badness 10000) detected at line 1585 [][][] Underfull \hbox (badness 10000) detected at line 1588 [][][] [50] Package longtable Warning: Column widths have changed (longtable) in table 7.59 on input line 1656. [51] Underfull \hbox (badness 10000) detected at line 1671 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.60 on input line 1690. Underfull \hbox (badness 10000) detected at line 1705 [][][] Underfull \hbox (badness 10000) detected at line 1708 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.61 on input line 1727. [52] Underfull \hbox (badness 10000) detected at line 1751 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.62 on input line 1760. Underfull \hbox (badness 10000) detected at line 1761 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.63 on input line 1770. Underfull \hbox (badness 10000) detected at line 1785 [][][] Underfull \hbox (badness 10000) detected at line 1788 [][][] Underfull \hbox (badness 10000) detected at line 1791 [][][] [53] Package longtable Warning: Column widths have changed (longtable) in table 7.64 on input line 1802. Underfull \hbox (badness 10000) detected at line 1813 [][][] Underfull \hbox (badness 10000) detected at line 1816 [][][] Underfull \hbox (badness 10000) detected at line 1819 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.65 on input line 1826. Underfull \hbox (badness 10000) detected at line 1841 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.66 on input line 1852. [54] Underfull \hbox (badness 10000) detected at line 1867 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.67 on input line 1886. Underfull \hbox (badness 10000) detected at line 1887 [][][] Underfull \hbox (badness 10000) detected at line 1892 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.68 on input line 1911. ) (./group___vpee.tex [55] Underfull \hbox (badness 849) in paragraph at lines 45--46 \T1/phv/m/n/10 Holst par-al-lel re-fine-ment rou-tine es-sen-tially re-duces th e er-ror out-side the \T1/pcr/m/n/10 local" partition to zero. Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 However, this leads to the need for a few final overlapping Schw arz solves to Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 smooth out the errors near partition boundaries. Supposedly, if the region in Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 which we allow error-based refinement includes the$\OML/cmm/m/it /10 <$\T1/pcr/m/n/10 /tt$\OML/cmm/m/it/10 >$\T1/pcr/m/n/10 local" partition and an Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 external buffer zone approximately equal in size to the local re gion, then the Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 solution will asymptotically approach the solution obtained via more typical Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 methods. This is essentially a more flexible parallel implementa tion of MC\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s [56] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.69 on input line 93. Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [57] Package longtable Warning: Column widths have changed (longtable) in table 7.70 on input line 131. Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 149 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.71 on input line 156. Underfull \hbox (badness 10000) detected at line 171 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.72 on input line 178. [58] Underfull \hbox (badness 10000) detected at line 195 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.73 on input line 226. [59] Underfull \hbox (badness 10000) detected at line 241 [][][] Underfull \hbox (badness 10000) detected at line 244 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.74 on input line 251. ) (./group___a_p_o_lparm.tex [60] Package longtable Warning: Column widths have changed (longtable) in table 7.75 on input line 154. [61] Package longtable Warning: Column widths have changed (longtable) in table 7.76 on input line 182. Package longtable Warning: Column widths have changed (longtable) in table 7.77 on input line 210. Underfull \hbox (badness 10000) detected at line 228 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.78 on input line 235. Underfull \hbox (badness 10000) detected at line 236 [][][] [62] Underfull \hbox (badness 10000) detected at line 253 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.79 on input line 262. Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 280 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.80 on input line 304. Underfull \hbox (badness 10000) detected at line 305 [][][] [63] Underfull \hbox (badness 10000) detected at line 322 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.81 on input line 329. Underfull \hbox (badness 10000) detected at line 344 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.82 on input line 351. ) (./group___b_e_mparm.tex [64] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] [65] Package longtable Warning: Column widths have changed (longtable) in table 7.83 on input line 107. Underfull \hbox (badness 10000) detected at line 125 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.84 on input line 132. Underfull \hbox (badness 10000) detected at line 133 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.85 on input line 157. Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] [66] Package longtable Warning: Column widths have changed (longtable) in table 7.86 on input line 184. Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.87 on input line 209. Underfull \hbox (badness 10000) detected at line 224 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.88 on input line 231. Underfull \hbox (badness 10000) detected at line 246 [][][] [67] Package longtable Warning: Column widths have changed (longtable) in table 7.89 on input line 257. Underfull \hbox (badness 10000) detected at line 258 [][][] ) (./group___f_e_mparm.tex [68] Underfull \hbox (badness 10000) detected at line 127 [][][] [69] Package longtable Warning: Column widths have changed (longtable) in table 7.90 on input line 156. Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.91 on input line 198. Underfull \hbox (badness 10000) detected at line 213 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.92 on input line 229. [70] Underfull \hbox (badness 10000) detected at line 247 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.93 on input line 254. Underfull \hbox (badness 10000) detected at line 255 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.94 on input line 281. Underfull \hbox (badness 10000) detected at line 296 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.95 on input line 303. Underfull \hbox (badness 10000) detected at line 304 [][][] [71] Underfull \hbox (badness 10000) detected at line 321 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.96 on input line 330. Underfull \hbox (badness 10000) detected at line 331 [][][] Underfull \hbox (badness 10000) detected at line 348 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.97 on input line 355. Underfull \hbox (badness 10000) detected at line 370 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.98 on input line 377. ) (./group___g_e_o_f_l_o_wparm.tex [72] [73] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.99 on input line 106. Underfull \hbox (badness 10000) detected at line 124 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.100 on input line 131. Underfull \hbox (badness 10000) detected at line 132 [][][] [74] Underfull \hbox (badness 10000) detected at line 149 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.101 on input line 158. Underfull \hbox (badness 10000) detected at line 173 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.102 on input line 180. Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.103 on input line 207. Underfull \hbox (badness 10000) detected at line 208 [][][] [75] Underfull \hbox (badness 10000) detected at line 225 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.104 on input line 232. Underfull \hbox (badness 10000) detected at line 247 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.105 on input line 254. Underfull \hbox (badness 10000) detected at line 269 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.106 on input line 280. Underfull \hbox (badness 10000) detected at line 281 [][][] ) (./group___m_gparm.tex [76] [77] [78] Package longtable Warning: Column widths have changed (longtable) in table 7.107 on input line 175. Package longtable Warning: Column widths have changed (longtable) in table 7.108 on input line 203. Underfull \hbox (badness 10000) detected at line 221 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.109 on input line 232. Underfull \hbox (badness 10000) detected at line 233 [][][] [79] Underfull \hbox (badness 10000) detected at line 250 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.110 on input line 261. Underfull \hbox (badness 10000) detected at line 262 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.111 on input line 286. Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [80] Package longtable Warning: Column widths have changed (longtable) in table 7.112 on input line 313. Underfull \hbox (badness 10000) detected at line 328 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.113 on input line 335. Underfull \hbox (badness 10000) detected at line 336 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.114 on input line 362. Underfull \hbox (badness 10000) detected at line 363 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [81] Package longtable Warning: Column widths have changed (longtable) in table 7.115 on input line 387. Underfull \hbox (badness 10000) detected at line 402 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.116 on input line 409. Underfull \hbox (badness 10000) detected at line 424 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.117 on input line 431. Underfull \hbox (badness 10000) detected at line 432 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.118 on input line 456. Underfull \hbox (badness 10000) detected at line 457 [][][] [82] Underfull \hbox (badness 10000) detected at line 474 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.119 on input line 481. Underfull \hbox (badness 10000) detected at line 482 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.120 on input line 506. Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 524 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.121 on input line 531. Underfull \hbox (badness 10000) detected at line 532 [][][] [83] Underfull \hbox (badness 10000) detected at line 549 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.122 on input line 556. Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 574 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.123 on input line 581. Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 599 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.124 on input line 606. Underfull \hbox (badness 10000) detected at line 607 [][][] [84] Underfull \hbox (badness 10000) detected at line 624 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.125 on input line 631. Underfull \hbox (badness 10000) detected at line 632 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.126 on input line 660. Underfull \hbox (badness 10000) detected at line 661 [][][] Underfull \hbox (badness 10000) detected at line 678 [][][] [85] Package longtable Warning: Column widths have changed (longtable) in table 7.127 on input line 687. Underfull \hbox (badness 10000) detected at line 702 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.128 on input line 711. Underfull \hbox (badness 10000) detected at line 726 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.129 on input line 735. ) (./group___n_osh.tex [86] [87] [88] [89] Package longtable Warning: Column widths have changed (longtable) in table 7.130 on input line 337. [90] Package longtable Warning: Column widths have changed (longtable) in table 7.131 on input line 365. Package longtable Warning: Column widths have changed (longtable) in table 7.132 on input line 389. Package longtable Warning: Column widths have changed (longtable) in table 7.133 on input line 429. Underfull \hbox (badness 10000) detected at line 447 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.134 on input line 456. [91] Underfull \hbox (badness 10000) detected at line 457 [][][] Underfull \hbox (badness 10000) detected at line 474 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.135 on input line 483. Underfull \hbox (badness 10000) detected at line 498 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.136 on input line 505. Underfull \hbox (badness 10000) detected at line 506 [][][] Underfull \hbox (badness 10000) detected at line 523 [][][] [92] Package longtable Warning: Column widths have changed (longtable) in table 7.137 on input line 530. Underfull \hbox (badness 10000) detected at line 545 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.138 on input line 554. Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 572 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.139 on input line 583. Underfull \hbox (badness 10000) detected at line 584 [][][] [93] Underfull \hbox (badness 10000) detected at line 601 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.140 on input line 608. Underfull \hbox (badness 10000) detected at line 623 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.141 on input line 630. Underfull \hbox (badness 10000) detected at line 645 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.142 on input line 654. Underfull \hbox (badness 10000) detected at line 655 [][][] [94] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.143 on input line 684. Underfull \hbox (badness 10000) detected at line 685 [][][] Underfull \hbox (badness 10000) detected at line 688 [][][] Underfull \hbox (badness 10000) detected at line 705 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.144 on input line 714. Underfull \hbox (badness 10000) detected at line 715 [][][] [95] Underfull \hbox (badness 10000) detected at line 732 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.145 on input line 741. Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 759 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.146 on input line 768. Underfull \hbox (badness 10000) detected at line 769 [][][] Underfull \hbox (badness 10000) detected at line 786 [][][] [96] Package longtable Warning: Column widths have changed (longtable) in table 7.147 on input line 795. Underfull \hbox (badness 10000) detected at line 796 [][][] Underfull \hbox (badness 10000) detected at line 813 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.148 on input line 822. Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 840 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.149 on input line 849. Underfull \hbox (badness 10000) detected at line 850 [][][] [97] Underfull \hbox (badness 10000) detected at line 867 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.150 on input line 876. Underfull \hbox (badness 10000) detected at line 877 [][][] Underfull \hbox (badness 10000) detected at line 894 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.151 on input line 903. Underfull \hbox (badness 10000) detected at line 904 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] [98] Package longtable Warning: Column widths have changed (longtable) in table 7.152 on input line 930. Underfull \hbox (badness 10000) detected at line 931 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.153 on input line 957. Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.154 on input line 984. Underfull \hbox (badness 10000) detected at line 985 [][][] [99] Underfull \hbox (badness 10000) detected at line 1002 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.155 on input line 1011. Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1029 [][][] Underfull \hbox (badness 10000) detected at line 1032 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.156 on input line 1041. Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] [100] Underfull \hbox (badness 10000) detected at line 1064 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.157 on input line 1073. Underfull \hbox (badness 10000) detected at line 1074 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1094 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.158 on input line 1105. Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] [101] Underfull \hbox (badness 10000) detected at line 1126 [][][] Underfull \hbox (badness 10000) detected at line 1129 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.159 on input line 1138. Underfull \hbox (badness 10000) detected at line 1139 [][][] Underfull \hbox (badness 10000) detected at line 1142 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1162 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.160 on input line 1173. Underfull \hbox (badness 10000) detected at line 1174 [][][] Underfull \hbox (badness 10000) detected at line 1177 [][][] [102] Underfull \hbox (badness 10000) detected at line 1194 [][][] Underfull \hbox (badness 10000) detected at line 1197 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.161 on input line 1206. Underfull \hbox (badness 10000) detected at line 1207 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1227 [][][] Underfull \hbox (badness 10000) detected at line 1230 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.162 on input line 1239. Underfull \hbox (badness 10000) detected at line 1240 [][][] [103] Package longtable Warning: Column widths have changed (longtable) in table 7.163 on input line 1249. Underfull \hbox (badness 10000) detected at line 1264 [][][] Underfull \hbox (badness 10000) detected at line 1267 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.164 on input line 1276. Underfull \hbox (badness 10000) detected at line 1277 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.165 on input line 1286. ) (./group___p_b_a_mparm.tex [104] [105] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.166 on input line 154. [106] Underfull \hbox (badness 10000) detected at line 172 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.167 on input line 179. Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 197 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.168 on input line 206. Underfull \hbox (badness 10000) detected at line 221 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.169 on input line 228. Underfull \hbox (badness 10000) detected at line 229 [][][] [107] Underfull \hbox (badness 10000) detected at line 246 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.170 on input line 255. Underfull \hbox (badness 10000) detected at line 256 [][][] Underfull \hbox (badness 10000) detected at line 273 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.171 on input line 280. Underfull \hbox (badness 10000) detected at line 295 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.172 on input line 302. [108] Underfull \hbox (badness 10000) detected at line 317 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.173 on input line 326. Underfull \hbox (badness 10000) detected at line 341 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.174 on input line 350. Underfull \hbox (badness 10000) detected at line 365 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.175 on input line 374. [109] Underfull \hbox (badness 10000) detected at line 389 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.176 on input line 398. Underfull \hbox (badness 10000) detected at line 413 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.177 on input line 422. Underfull \hbox (badness 10000) detected at line 437 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.178 on input line 446. [110] Underfull \hbox (badness 10000) detected at line 461 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.179 on input line 470. Underfull \hbox (badness 10000) detected at line 485 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.180 on input line 494. Underfull \hbox (badness 10000) detected at line 509 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.181 on input line 518. [111] Underfull \hbox (badness 10000) detected at line 533 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.182 on input line 542. Underfull \hbox (badness 10000) detected at line 557 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.183 on input line 566. Underfull \hbox (badness 10000) detected at line 581 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.184 on input line 592. Underfull \hbox (badness 10000) detected at line 593 [][][] [112] Underfull \hbox (badness 10000) detected at line 610 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.185 on input line 619. Underfull \hbox (badness 10000) detected at line 634 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.186 on input line 643. ) (./group___p_b_eparm.tex [113] [114] Package longtable Warning: Column widths have changed (longtable) in table 7.187 on input line 163. Package longtable Warning: Column widths have changed (longtable) in table 7.188 on input line 191. [115] Underfull \hbox (badness 10000) detected at line 209 [][][] Underfull \hbox (badness 10000) detected at line 212 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.189 on input line 219. Underfull \hbox (badness 10000) detected at line 234 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.190 on input line 243. Underfull \hbox (badness 10000) detected at line 258 [][][] Underfull \hbox (badness 10000) detected at line 261 [][][] [116] Underfull \hbox (badness 10000) detected at line 278 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.191 on input line 288. Underfull \hbox (badness 10000) detected at line 303 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.192 on input line 310. Underfull \hbox (badness 10000) detected at line 325 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.193 on input line 332. [117] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.194 on input line 359. Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.195 on input line 386. Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] [118] Package longtable Warning: Column widths have changed (longtable) in table 7.196 on input line 413. Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 431 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.197 on input line 442. ) (./group___p_b_s_a_mparm.tex [119] [120] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.198 on input line 138. Underfull \hbox (badness 10000) detected at line 156 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.199 on input line 163. Underfull \hbox (badness 10000) detected at line 164 [][][] [121] Underfull \hbox (badness 10000) detected at line 181 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.200 on input line 190. Underfull \hbox (badness 10000) detected at line 205 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.201 on input line 212. Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 230 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.202 on input line 239. Underfull \hbox (badness 10000) detected at line 240 [][][] [122] Underfull \hbox (badness 10000) detected at line 257 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.203 on input line 264. Underfull \hbox (badness 10000) detected at line 279 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.204 on input line 286. Underfull \hbox (badness 10000) detected at line 301 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.205 on input line 310. [123] Underfull \hbox (badness 10000) detected at line 325 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.206 on input line 334. Underfull \hbox (badness 10000) detected at line 349 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.207 on input line 358. Underfull \hbox (badness 10000) detected at line 373 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.208 on input line 382. [124] Underfull \hbox (badness 10000) detected at line 397 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.209 on input line 408. Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 426 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.210 on input line 435. ) (./group___vacc.tex [125] [126] [127] Underfull \hbox (badness 10000) detected at line 149 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.211 on input line 164. Underfull \hbox (badness 10000) detected at line 179 [][][] [128] Package longtable Warning: Column widths have changed (longtable) in table 7.212 on input line 192. Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.213 on input line 224. Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 242 [][][] [129] Package longtable Warning: Column widths have changed (longtable) in table 7.214 on input line 253. Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.215 on input line 282. Underfull \hbox (badness 10000) detected at line 283 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.216 on input line 290. Underfull \hbox (badness 10000) detected at line 305 [][][] Underfull \hbox (badness 10000) detected at line 308 [][][] [130] Package longtable Warning: Column widths have changed (longtable) in table 7.217 on input line 319. Underfull \hbox (badness 10000) detected at line 334 [][][] Underfull \hbox (badness 10000) detected at line 337 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.218 on input line 350. Underfull \hbox (badness 10000) detected at line 365 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.219 on input line 372. [131] Underfull \hbox (badness 10000) detected at line 387 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.220 on input line 394. Underfull \hbox (badness 10000) detected at line 411 [][][] Underfull \hbox (badness 10000) detected at line 414 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.221 on input line 430. [132] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.222 on input line 461. Underfull \hbox (badness 10000) detected at line 472 [][][] Underfull \hbox (badness 10000) detected at line 475 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.223 on input line 482. Underfull \hbox (badness 10000) detected at line 499 [][][] [133] Underfull \hbox (badness 10000) detected at line 502 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.224 on input line 515. Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.225 on input line 545. Underfull \hbox (badness 10000) detected at line 562 [][][] [134] Underfull \hbox (badness 10000) detected at line 565 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.226 on input line 578. Underfull \hbox (badness 10000) detected at line 595 [][][] Underfull \hbox (badness 10000) detected at line 598 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.227 on input line 613. [135] Underfull \hbox (badness 10000) detected at line 628 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.228 on input line 643. Underfull \hbox (badness 10000) detected at line 660 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.229 on input line 677. [136] Underfull \hbox (badness 10000) detected at line 692 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.230 on input line 709. Underfull \hbox (badness 10000) detected at line 724 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.231 on input line 741. [137] Underfull \hbox (badness 10000) detected at line 758 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.232 on input line 775. Underfull \hbox (badness 10000) detected at line 790 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.233 on input line 805. Underfull \hbox (badness 10000) detected at line 820 [][][] [138] Package longtable Warning: Column widths have changed (longtable) in table 7.234 on input line 837. Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 855 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.235 on input line 867. Underfull \hbox (badness 10000) detected at line 882 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] Underfull \hbox (badness 10000) detected at line 888 [][][] [139] Package longtable Warning: Column widths have changed (longtable) in table 7.236 on input line 901. Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.237 on input line 930. Underfull \hbox (badness 10000) detected at line 941 [][][] Underfull \hbox (badness 10000) detected at line 944 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.238 on input line 957. [140] Underfull \hbox (badness 10000) detected at line 972 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.239 on input line 992. Underfull \hbox (badness 10000) detected at line 1007 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.240 on input line 1025. [141] Underfull \hbox (badness 10000) detected at line 1040 [][][] Underfull \hbox (badness 10000) detected at line 1043 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.241 on input line 1054. Underfull \hbox (badness 10000) detected at line 1069 [][][] Underfull \hbox (badness 10000) detected at line 1072 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.242 on input line 1085. [142] Underfull \hbox (badness 10000) detected at line 1100 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.243 on input line 1107. Underfull \hbox (badness 10000) detected at line 1122 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.244 on input line 1129. Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Underfull \hbox (badness 10000) detected at line 1152 [][][] [143] Package longtable Warning: Column widths have changed (longtable) in table 7.245 on input line 1161. ) (./group___valist.tex [144] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.246 on input line 121. [145] Underfull \hbox (badness 10000) detected at line 136 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.247 on input line 143. Underfull \hbox (badness 10000) detected at line 158 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.248 on input line 165. Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 183 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.249 on input line 192. [146] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.250 on input line 217. Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.251 on input line 242. Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 260 [][][] [147] Package longtable Warning: Column widths have changed (longtable) in table 7.252 on input line 267. Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.253 on input line 292. Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 310 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.254 on input line 317. Underfull \hbox (badness 10000) detected at line 332 [][][] Underfull \hbox (badness 10000) detected at line 335 [][][] [148] Underfull \hbox (badness 10000) detected at line 352 [][][] Underfull \hbox (badness 10000) detected at line 355 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.255 on input line 362. Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] Underfull \hbox (badness 10000) detected at line 383 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.256 on input line 394. Underfull \hbox (badness 10000) detected at line 409 [][][] [149] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 415 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.257 on input line 428. Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.258 on input line 462. ) (./group___vatom.tex [150] [151] Underfull \hbox (badness 10000) detected at line 97 [][][] [152] Underfull \hbox (badness 10000) detected at line 134 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.259 on input line 143. Underfull \hbox (badness 10000) detected at line 158 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.260 on input line 167. Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.261 on input line 209. [153] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 227 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.262 on input line 234. Underfull \hbox (badness 10000) detected at line 249 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.263 on input line 256. Underfull \hbox (badness 10000) detected at line 271 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.264 on input line 278. Underfull \hbox (badness 10000) detected at line 279 [][][] [154] Underfull \hbox (badness 10000) detected at line 296 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.265 on input line 305. Underfull \hbox (badness 10000) detected at line 320 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.266 on input line 327. Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 345 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.267 on input line 352. Underfull \hbox (badness 10000) detected at line 353 [][][] [155] Underfull \hbox (badness 10000) detected at line 370 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.268 on input line 377. Underfull \hbox (badness 10000) detected at line 378 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.269 on input line 402. Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.270 on input line 427. Underfull \hbox (badness 10000) detected at line 428 [][][] [156] Underfull \hbox (badness 10000) detected at line 445 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.271 on input line 454. Underfull \hbox (badness 10000) detected at line 469 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.272 on input line 476. Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 494 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.273 on input line 503. [157] Underfull \hbox (badness 10000) detected at line 518 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.274 on input line 527. Underfull \hbox (badness 10000) detected at line 542 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.275 on input line 551. Underfull \hbox (badness 10000) detected at line 566 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.276 on input line 575. [158] Underfull \hbox (badness 10000) detected at line 590 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.277 on input line 599. Underfull \hbox (badness 10000) detected at line 614 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.278 on input line 623. Underfull \hbox (badness 10000) detected at line 638 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.279 on input line 647. [159] Underfull \hbox (badness 10000) detected at line 662 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.280 on input line 671. ) (./group___vcap.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [160] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.281 on input line 103. [161] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.282 on input line 138. Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.283 on input line 173. ) (./group___vclist.tex [162] [163] Underfull \hbox (badness 10000) detected at line 126 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.284 on input line 138. [164] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.285 on input line 176. Underfull \hbox (badness 10000) detected at line 191 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.286 on input line 213. [165] Underfull \hbox (badness 10000) detected at line 228 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.287 on input line 235. Underfull \hbox (badness 10000) detected at line 250 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.288 on input line 257. Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 275 [][][] [166] Package longtable Warning: Column widths have changed (longtable) in table 7.289 on input line 284. Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.290 on input line 309. Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.291 on input line 334. Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [167] Package longtable Warning: Column widths have changed (longtable) in table 7.292 on input line 359. Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.293 on input line 386. Underfull \hbox (badness 10000) detected at line 401 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.294 on input line 408. Underfull \hbox (badness 10000) detected at line 423 [][][] [168] Package longtable Warning: Column widths have changed (longtable) in table 7.295 on input line 430. ) (./group___vgreen.tex [169] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [170] Underfull \hbox (badness 10000) detected at line 141 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.296 on input line 158. Underfull \hbox (badness 10000) detected at line 159 [][][] [171] Underfull \hbox (badness 10000) detected at line 178 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.297 on input line 195. Underfull \hbox (badness 10000) detected at line 196 [][][] [172] Underfull \hbox (badness 10000) detected at line 215 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.298 on input line 238. Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.299 on input line 281. [173] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 299 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.300 on input line 306. Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.301 on input line 333. Underfull \hbox (badness 10000) detected at line 334 [][][] [174] Underfull \hbox (badness 10000) detected at line 351 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.302 on input line 358. Underfull \hbox (badness 10000) detected at line 373 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.303 on input line 380. Underfull \hbox (badness 10000) detected at line 395 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.304 on input line 402. Underfull \hbox (badness 10000) detected at line 403 [][][] [175] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 429 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.305 on input line 448. Underfull \hbox (badness 10000) detected at line 449 [][][] [176] Underfull \hbox (badness 10000) detected at line 471 [][][] Underfull \hbox (badness 10000) detected at line 476 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.306 on input line 499. Underfull \hbox (badness 10000) detected at line 500 [][][] Underfull \hbox (badness 10000) detected at line 517 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.307 on input line 524. Underfull \hbox (badness 10000) detected at line 525 [][][] ) (./group___vhal.tex [177] [178] [179] [180] [181] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 421 [][][] Underfull \hbox (badness 10000) detected at line 438 [][][] Underfull \hbox (badness 10000) detected at line 455 [][][] [182] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Underfull \hbox (badness 10000) detected at line 526 [][][] Underfull \hbox (badness 10000) detected at line 567 [][][] [183] [184] Underfull \hbox (badness 10000) detected at line 772 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.308 on input line 804. Underfull \hbox (badness 10000) detected at line 819 [][][] [185] Package longtable Warning: Column widths have changed (longtable) in table 7.309 on input line 835. Underfull \hbox (badness 10000) detected at line 850 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.310 on input line 870. Underfull \hbox (badness 10000) detected at line 885 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.311 on input line 917. [186] Underfull \hbox (badness 10000) detected at line 932 [][][] Missing character: There is no Å in font cmr10! Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 58. Missing character: There is no Å in font cmr10! Package longtable Warning: Column widths have changed (longtable) in table 7.312 on input line 996. Package longtable Warning: Column widths have changed (longtable) in table 7.313 on input line 1024. [187] [188] Package longtable Warning: Column widths have changed (longtable) in table 7.314 on input line 1070. Package longtable Warning: Column widths have changed (longtable) in table 7.315 on input line 1094. Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1112 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.316 on input line 1125. Underfull \hbox (badness 10000) detected at line 1140 [][][] Underfull \hbox (badness 10000) detected at line 1143 [][][] [189] Underfull \hbox (badness 10000) detected at line 1160 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.317 on input line 1185. ) (./group___vmatrix.tex) (./group___vparam.tex [190] [191] [192] Underfull \hbox (badness 10000) detected at line 152 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.318 on input line 161. Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.319 on input line 188. Underfull \hbox (badness 10000) detected at line 189 [][][] Underfull \hbox (badness 10000) detected at line 206 [][][] [193] Package longtable Warning: Column widths have changed (longtable) in table 7.320 on input line 215. Underfull \hbox (badness 10000) detected at line 230 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.321 on input line 239. Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 274 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.322 on input line 281. Underfull \hbox (badness 10000) detected at line 282 [][][] [194] Underfull \hbox (badness 10000) detected at line 299 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.323 on input line 306. Underfull \hbox (badness 10000) detected at line 321 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.324 on input line 328. Underfull \hbox (badness 10000) detected at line 343 [][][] Underfull \hbox (badness 10000) detected at line 346 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] [195] Package longtable Warning: Column widths have changed (longtable) in table 7.325 on input line 370. Underfull \hbox (badness 10000) detected at line 371 [][][] Underfull \hbox (badness 10000) detected at line 388 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.326 on input line 395. Underfull \hbox (badness 10000) detected at line 410 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.327 on input line 417. Underfull \hbox (badness 10000) detected at line 432 [][][] [196] Package longtable Warning: Column widths have changed (longtable) in table 7.328 on input line 443. Underfull \hbox (badness 10000) detected at line 444 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 467 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.329 on input line 476. Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 480 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] [197] Package longtable Warning: Column widths have changed (longtable) in table 7.330 on input line 507. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.331 on input line 540. Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [198] Underfull \hbox (badness 10000) detected at line 571 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.332 on input line 586. Underfull \hbox (badness 10000) detected at line 587 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.333 on input line 613. Underfull \hbox (badness 10000) detected at line 628 [][][] [199] Package longtable Warning: Column widths have changed (longtable) in table 7.334 on input line 635. Underfull \hbox (badness 10000) detected at line 636 [][][] Underfull \hbox (badness 10000) detected at line 653 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.335 on input line 662. Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 680 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.336 on input line 687. Underfull \hbox (badness 10000) detected at line 702 [][][] [200] Package longtable Warning: Column widths have changed (longtable) in table 7.337 on input line 709. ) (./group___vpbe.tex [201] [202] [203] Underfull \hbox (badness 10000) detected at line 128 [][][] Underfull \hbox (badness 10000) detected at line 131 [][][] LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 136 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.338 on input line 171. [204] Underfull \hbox (badness 10000) detected at line 186 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 195 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.339 on input line 232. [205] Underfull \hbox (badness 10000) detected at line 247 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.340 on input line 254. Underfull \hbox (badness 10000) detected at line 269 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.341 on input line 276. Underfull \hbox (badness 10000) detected at line 291 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.342 on input line 298. [206] Underfull \hbox (badness 10000) detected at line 299 [][][] Overfull \hbox (151.96916pt too wide) in paragraph at lines 318--318 [] \T1/p cr/m/n/8 permittivity equal to the protein interior) and zero ionic[] Underfull \hbox (badness 10000) detected at line 325 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.343 on input line 332. Underfull \hbox (badness 10000) detected at line 333 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.344 on input line 357. Underfull \hbox (badness 10000) detected at line 358 [][][] Underfull \hbox (badness 10000) detected at line 375 [][][] [207] Package longtable Warning: Column widths have changed (longtable) in table 7.345 on input line 382. Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 396 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.346 on input line 411. Underfull \hbox (badness 10000) detected at line 412 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.347 on input line 435. Underfull \hbox (badness 10000) detected at line 436 [][][] [208] Underfull \hbox (badness 10000) detected at line 453 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.348 on input line 460. Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 478 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.349 on input line 485. Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.350 on input line 510. [209] Underfull \hbox (badness 10000) detected at line 525 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.351 on input line 532. Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 550 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.352 on input line 557. Underfull \hbox (badness 10000) detected at line 558 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.353 on input line 582. Underfull \hbox (badness 10000) detected at line 583 [][][] [210] Underfull \hbox (badness 10000) detected at line 600 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.354 on input line 607. Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.355 on input line 632. Underfull \hbox (badness 10000) detected at line 633 [][][] Underfull \hbox (badness 10000) detected at line 650 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.356 on input line 657. Underfull \hbox (badness 10000) detected at line 658 [][][] [211] Underfull \hbox (badness 10000) detected at line 675 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.357 on input line 682. Underfull \hbox (badness 10000) detected at line 683 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.358 on input line 707. Underfull \hbox (badness 10000) detected at line 708 [][][] Underfull \hbox (badness 10000) detected at line 725 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.359 on input line 732. Underfull \hbox (badness 10000) detected at line 733 [][][] [212] Underfull \hbox (badness 10000) detected at line 750 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.360 on input line 757. Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 775 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.361 on input line 782. Underfull \hbox (badness 10000) detected at line 783 [][][] Underfull \hbox (badness 10000) detected at line 800 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.362 on input line 807. Underfull \hbox (badness 10000) detected at line 808 [][][] [213] Underfull \hbox (badness 10000) detected at line 825 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.363 on input line 832. Underfull \hbox (badness 10000) detected at line 833 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.364 on input line 857. Underfull \hbox (badness 10000) detected at line 858 [][][] LaTeX Warning: Command \r invalid in math mode on input line 859. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 875 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.365 on input line 882. Underfull \hbox (badness 10000) detected at line 883 [][][] [214] Underfull \hbox (badness 10000) detected at line 900 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.366 on input line 907. Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 925 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.367 on input line 932. Underfull \hbox (badness 10000) detected at line 933 [][][] ) (./group___vstring.tex [215] Underfull \hbox (badness 10000) detected at line 42 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.368 on input line 49. Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.369 on input line 79. [216] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.370 on input line 116. ) (./group___vunit.tex [217] LaTeX Warning: Command \r invalid in math mode on input line 39. Missing character: There is no Å in font cmr9! [218] LaTeX Warning: Command \r invalid in math mode on input line 142. Missing character: There is no Å in font cmr10! [219]) (./group___vgrid.tex [220] [221] Underfull \hbox (badness 10000) detected at line 125 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.371 on input line 150. Underfull \hbox (badness 10000) detected at line 151 [][][] [222] Underfull \hbox (badness 10000) detected at line 168 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.372 on input line 195. Underfull \hbox (badness 10000) detected at line 196 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.373 on input line 228. [223] Underfull \hbox (badness 10000) detected at line 229 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.374 on input line 253. Underfull \hbox (badness 10000) detected at line 268 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.375 on input line 275. Underfull \hbox (badness 10000) detected at line 290 [][][] [224] Package longtable Warning: Column widths have changed (longtable) in table 7.376 on input line 301. Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 319 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.377 on input line 326. Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.378 on input line 351. Underfull \hbox (badness 10000) detected at line 352 [][][] [225] Underfull \hbox (badness 10000) detected at line 369 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.379 on input line 376. Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.380 on input line 402. Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] [226] Package longtable Warning: Column widths have changed (longtable) in table 7.381 on input line 427. Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 445 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.382 on input line 452. Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 470 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.383 on input line 488. [227] Underfull \hbox (badness 10000) detected at line 489 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.384 on input line 527. Underfull \hbox (badness 10000) detected at line 528 [][][] Underfull \hbox (badness 10000) detected at line 531 [][][] [228] Underfull \hbox (badness 10000) detected at line 548 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.385 on input line 560. Underfull \hbox (badness 10000) detected at line 575 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.386 on input line 582. Underfull \hbox (badness 10000) detected at line 583 [][][] Underfull \hbox (badness 10000) detected at line 600 [][][] [229] Package longtable Warning: Column widths have changed (longtable) in table 7.387 on input line 611. Underfull \hbox (badness 10000) detected at line 612 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.388 on input line 648. [230] Underfull \hbox (badness 10000) detected at line 663 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.389 on input line 682. Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.390 on input line 721. ) (./group___vmgrid.tex [231] [232] Underfull \hbox (badness 10000) detected at line 105 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.391 on input line 114. Underfull \hbox (badness 10000) detected at line 115 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 135 [][][] [233] Underfull \hbox (badness 10000) detected at line 152 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.392 on input line 159. Underfull \hbox (badness 10000) detected at line 160 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.393 on input line 192. Underfull \hbox (badness 10000) detected at line 193 [][][] [234] Underfull \hbox (badness 10000) detected at line 210 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.394 on input line 217. Underfull \hbox (badness 10000) detected at line 232 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.395 on input line 239. Underfull \hbox (badness 10000) detected at line 254 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.396 on input line 263. Underfull \hbox (badness 10000) detected at line 264 [][][] [235] Underfull \hbox (badness 10000) detected at line 277 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.397 on input line 286. Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 300 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.398 on input line 311. Underfull \hbox (badness 10000) detected at line 312 [][][] Underfull \hbox (badness 10000) detected at line 329 [][][] [236] Package longtable Warning: Column widths have changed (longtable) in table 7.399 on input line 340. Underfull \hbox (badness 10000) detected at line 341 [][][] ) (./group___vopot.tex [237] Underfull \hbox (badness 10000) detected at line 77 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.400 on input line 88. Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.401 on input line 119. [238] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 137 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.402 on input line 152. Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 170 [][][] [239] Package longtable Warning: Column widths have changed (longtable) in table 7.403 on input line 177. Underfull \hbox (badness 10000) detected at line 192 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.404 on input line 199. Underfull \hbox (badness 10000) detected at line 214 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.405 on input line 225. Underfull \hbox (badness 10000) detected at line 226 [][][] Underfull \hbox (badness 10000) detected at line 243 [][][] [240] Package longtable Warning: Column widths have changed (longtable) in table 7.406 on input line 254. Underfull \hbox (badness 10000) detected at line 255 [][][] ) (./group___vpmg.tex [241] [242] [243] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.407 on input line 171. [244] Underfull \hbox (badness 10000) detected at line 186 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.408 on input line 219. [245] Underfull \hbox (badness 10000) detected at line 234 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.409 on input line 261. Underfull \hbox (badness 10000) detected at line 276 [][][] [246] Package longtable Warning: Column widths have changed (longtable) in table 7.410 on input line 309. Underfull \hbox (badness 10000) detected at line 324 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.411 on input line 347. [247] Underfull \hbox (badness 10000) detected at line 362 [][][] Underfull \hbox (badness 10000) detected at line 381 [][][] Underfull \hbox (badness 10000) detected at line 384 [][][] [248] Package longtable Warning: Column widths have changed (longtable) in table 7.412 on input line 401. Underfull \hbox (badness 10000) detected at line 416 [][][] Underfull \hbox (badness 10000) detected at line 419 [][][] Underfull \hbox (badness 10000) detected at line 422 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.413 on input line 443. [249] Underfull \hbox (badness 10000) detected at line 458 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.414 on input line 473. Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.415 on input line 505. [250] Underfull \hbox (badness 10000) detected at line 520 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.416 on input line 535. Underfull \hbox (badness 10000) detected at line 546 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.417 on input line 561. [251] Underfull \hbox (badness 10000) detected at line 572 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.418 on input line 583. Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 610 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.419 on input line 619. [252] Underfull \hbox (badness 10000) detected at line 643 [][][] Underfull \hbox (badness 10000) detected at line 646 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.420 on input line 653. Underfull \hbox (badness 10000) detected at line 668 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.421 on input line 675. Underfull \hbox (badness 10000) detected at line 690 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.422 on input line 697. Underfull \hbox (badness 10000) detected at line 712 [][][] [253] Underfull \hbox (badness 10000) detected at line 715 [][][] Underfull \hbox (badness 10000) detected at line 718 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.423 on input line 727. Underfull \hbox (badness 10000) detected at line 742 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.424 on input line 753. Underfull \hbox (badness 10000) detected at line 764 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] [254] Package longtable Warning: Column widths have changed (longtable) in table 7.425 on input line 784. Underfull \hbox (badness 10000) detected at line 799 [][][] Underfull \hbox (badness 10000) detected at line 802 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.426 on input line 841. [255] Underfull \hbox (badness 10000) detected at line 856 [][][] Underfull \hbox (badness 10000) detected at line 859 [][][] Underfull \hbox (badness 10000) detected at line 864 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.427 on input line 879. [256] Underfull \hbox (badness 10000) detected at line 894 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.428 on input line 909. Underfull \hbox (badness 10000) detected at line 920 [][][] Underfull \hbox (badness 10000) detected at line 923 [][][] Underfull \hbox (badness 10000) detected at line 928 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.429 on input line 941. [257] Underfull \hbox (badness 10000) detected at line 956 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.430 on input line 971. Underfull \hbox (badness 10000) detected at line 982 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.431 on input line 997. [258] Underfull \hbox (badness 10000) detected at line 1008 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.432 on input line 1019. Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.433 on input line 1040. Underfull \hbox (badness 10000) detected at line 1055 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.434 on input line 1076. [259] Underfull \hbox (badness 10000) detected at line 1093 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] Underfull \hbox (badness 10000) detected at line 1099 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.435 on input line 1108. [260] Underfull \hbox (badness 10000) detected at line 1123 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.436 on input line 1140. Underfull \hbox (badness 10000) detected at line 1160 [][][] Underfull \hbox (badness 10000) detected at line 1163 [][][] Underfull \hbox (badness 10000) detected at line 1166 [][][] [261] Package longtable Warning: Column widths have changed (longtable) in table 7.437 on input line 1175. Underfull \hbox (badness 10000) detected at line 1190 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1198 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.438 on input line 1211. Underfull \hbox (badness 10000) detected at line 1226 [][][] [262] Package longtable Warning: Column widths have changed (longtable) in table 7.439 on input line 1241. Underfull \hbox (badness 10000) detected at line 1252 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.440 on input line 1269. Underfull \hbox (badness 10000) detected at line 1280 [][][] Underfull \hbox (badness 10000) detected at line 1283 [][][] [263] Package longtable Warning: Column widths have changed (longtable) in table 7.441 on input line 1292. Underfull \hbox (badness 10000) detected at line 1303 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.442 on input line 1316. Underfull \hbox (badness 10000) detected at line 1343 [][][] Underfull \hbox (badness 10000) detected at line 1346 [][][] Underfull \hbox (badness 10000) detected at line 1349 [][][] [264] Package longtable Warning: Column widths have changed (longtable) in table 7.443 on input line 1358. Underfull \hbox (badness 10000) detected at line 1373 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.444 on input line 1386. Underfull \hbox (badness 10000) detected at line 1401 [][][] Underfull \hbox (badness 10000) detected at line 1404 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.445 on input line 1411. [265] Underfull \hbox (badness 10000) detected at line 1426 [][][] Underfull \hbox (badness 10000) detected at line 1429 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.446 on input line 1439. Underfull \hbox (badness 10000) detected at line 1454 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.447 on input line 1461. ) (./group___vpmgp.tex [266] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] [267] Package longtable Warning: Column widths have changed (longtable) in table 7.448 on input line 85. Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.449 on input line 112. Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 130 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.450 on input line 137. Underfull \hbox (badness 10000) detected at line 152 [][][] [268] Package longtable Warning: Column widths have changed (longtable) in table 7.451 on input line 159. Underfull \hbox (badness 10000) detected at line 174 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.452 on input line 193. Underfull \hbox (badness 10000) detected at line 208 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.453 on input line 215. ) (./group___p_m_g_c.tex [269] [270] [271] [272] [273] Underfull \hbox (badness 10000) detected at line 155 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 170--170 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [274] Underfull \hbox (badness 10000) detected at line 217 [][][] Underfull \hbox (badness 10000) detected at line 220 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 232--232 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [275] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.454 on input line 298. Underfull \hbox (badness 10000) detected at line 313 [][][] Underfull \hbox (badness 10000) detected at line 316 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.455 on input line 329. [276] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [277] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 400 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 409--409 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 444 [][][] [278] Package longtable Warning: Column widths have changed (longtable) in table 7.456 on input line 493. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] [279] Overfull \hbox (304.08286pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 561 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 573--573 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [280] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 611 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.457 on input line 636. [281] Underfull \hbox (badness 10000) detected at line 651 [][][] Underfull \hbox (badness 10000) detected at line 654 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.458 on input line 709. [282] Underfull \hbox (badness 10000) detected at line 724 [][][] Underfull \hbox (badness 10000) detected at line 727 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.459 on input line 762. [283] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 780 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 793--793 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [284] Underfull \hbox (badness 10000) detected at line 830 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 842--842 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Package longtable Warning: Column widths have changed (longtable) in table 7.460 on input line 897. [285] [286] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 915 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.461 on input line 1040. [287] [288] [289] Underfull \hbox (badness 10000) detected at line 1055 [][][] Underfull \hbox (badness 10000) detected at line 1058 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.462 on input line 1219. [290] [291] [292] Underfull \hbox (badness 10000) detected at line 1234 [][][] Underfull \hbox (badness 10000) detected at line 1237 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.463 on input line 1372. [293] [294] Underfull \hbox (badness 10000) detected at line 1387 [][][] Underfull \hbox (badness 10000) detected at line 1390 [][][] Underfull \hbox (badness 10000) detected at line 1393 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.464 on input line 1436. [295] Underfull \hbox (badness 10000) detected at line 1451 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1467--1467 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [296] Underfull \hbox (badness 10000) detected at line 1504 [][][] Underfull \hbox (badness 10000) detected at line 1507 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.465 on input line 1572. [297] Underfull \hbox (badness 10000) detected at line 1587 [][][] Underfull \hbox (badness 10000) detected at line 1590 [][][] Underfull \hbox (badness 10000) detected at line 1593 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1603--1603 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [298] Underfull \hbox (badness 10000) detected at line 1640 [][][] Underfull \hbox (badness 10000) detected at line 1643 [][][] Underfull \hbox (badness 10000) detected at line 1646 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1655--1655 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [299] Package longtable Warning: Column widths have changed (longtable) in table 7.466 on input line 1718. Underfull \hbox (badness 10000) detected at line 1733 [][][] Underfull \hbox (badness 10000) detected at line 1738 [][][] Underfull \hbox (badness 10000) detected at line 1741 [][][] [300] Package longtable Warning: Column widths have changed (longtable) in table 7.467 on input line 1756. Underfull \hbox (badness 10000) detected at line 1771 [][][] Underfull \hbox (badness 10000) detected at line 1774 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.468 on input line 1793. [301] Underfull \hbox (badness 10000) detected at line 1808 [][][] Underfull \hbox (badness 10000) detected at line 1811 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.469 on input line 1830. Underfull \hbox (badness 10000) detected at line 1845 [][][] Underfull \hbox (badness 10000) detected at line 1848 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.470 on input line 1867. [302] Underfull \hbox (badness 10000) detected at line 1882 [][][] Underfull \hbox (badness 10000) detected at line 1885 [][][] Underfull \hbox (badness 10000) detected at line 1888 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1898--1898 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [303] Underfull \hbox (badness 10000) detected at line 1935 [][][] Underfull \hbox (badness 10000) detected at line 1938 [][][] Underfull \hbox (badness 10000) detected at line 1941 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1950--1950 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [304] Package longtable Warning: Column widths have changed (longtable) in table 7.471 on input line 2021. Underfull \hbox (badness 10000) detected at line 2036 [][][] Underfull \hbox (badness 10000) detected at line 2039 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.472 on input line 2058. [305] Underfull \hbox (badness 10000) detected at line 2073 [][][] Underfull \hbox (badness 10000) detected at line 2076 [][][] Underfull \hbox (badness 10000) detected at line 2079 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2089--2089 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [306] Underfull \hbox (badness 10000) detected at line 2126 [][][] Underfull \hbox (badness 10000) detected at line 2129 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2138--2138 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 2173 [][][] Underfull \hbox (badness 10000) detected at line 2176 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.473 on input line 2193. [307] Underfull \hbox (badness 10000) detected at line 2208 [][][] Underfull \hbox (badness 10000) detected at line 2211 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.474 on input line 2232. [308] Underfull \hbox (badness 10000) detected at line 2247 [][][] Underfull \hbox (badness 10000) detected at line 2250 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.475 on input line 2271. Underfull \hbox (badness 10000) detected at line 2286 [][][] Underfull \hbox (badness 10000) detected at line 2289 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.476 on input line 2302. [309] Underfull \hbox (badness 10000) detected at line 2317 [][][] Underfull \hbox (badness 10000) detected at line 2320 [][][] Underfull \hbox (badness 10000) detected at line 2323 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2333--2333 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [310] Underfull \hbox (badness 10000) detected at line 2370 [][][] Underfull \hbox (badness 10000) detected at line 2373 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2382--2382 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [311] Underfull \hbox (badness 10000) detected at line 2417 [][][] Underfull \hbox (badness 10000) detected at line 2420 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.477 on input line 2491. [312] Underfull \hbox (badness 10000) detected at line 2506 [][][] Underfull \hbox (badness 10000) detected at line 2509 [][][] Underfull \hbox (badness 10000) detected at line 2512 [][][] [313] Underfull \hbox (badness 10000) detected at line 2560 [][][] Underfull \hbox (badness 10000) detected at line 2563 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2572--2572 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [314] Underfull \hbox (badness 10000) detected at line 2607 [][][] Underfull \hbox (badness 10000) detected at line 2610 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.478 on input line 2685. [315] Underfull \hbox (badness 10000) detected at line 2700 [][][] Underfull \hbox (badness 10000) detected at line 2703 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.479 on input line 2734. [316] Underfull \hbox (badness 10000) detected at line 2749 [][][] Underfull \hbox (badness 10000) detected at line 2752 [][][] Underfull \hbox (badness 10000) detected at line 2755 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2765--2765 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [317] Underfull \hbox (badness 10000) detected at line 2802 [][][] Underfull \hbox (badness 10000) detected at line 2805 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2814--2814 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [318] Underfull \hbox (badness 10000) detected at line 2849 [][][] Underfull \hbox (badness 10000) detected at line 2852 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.480 on input line 2893. [319] Underfull \hbox (badness 10000) detected at line 2908 [][][] Underfull \hbox (badness 10000) detected at line 2911 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.481 on input line 2934. [320] Underfull \hbox (badness 10000) detected at line 2949 [][][] Underfull \hbox (badness 10000) detected at line 2960 [][][] Underfull \hbox (badness 10000) detected at line 2963 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.482 on input line 3034. [321] Underfull \hbox (badness 10000) detected at line 3049 [][][] Underfull \hbox (badness 10000) detected at line 3052 [][][] Underfull \hbox (badness 10000) detected at line 3055 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [322] Underfull \hbox (badness 10000) detected at line 3102 [][][] Underfull \hbox (badness 10000) detected at line 3105 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3114--3114 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [323] Underfull \hbox (badness 10000) detected at line 3149 [][][] Underfull \hbox (badness 10000) detected at line 3152 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.483 on input line 3175. Underfull \hbox (badness 10000) detected at line 3190 [][][] [324] Underfull \hbox (badness 10000) detected at line 3193 [][][] Underfull \hbox (badness 10000) detected at line 3196 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3206--3206 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3243 [][][] Underfull \hbox (badness 10000) detected at line 3246 [][][] Underfull \hbox (badness 10000) detected at line 3249 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3258--3258 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [325] Underfull \hbox (badness 10000) detected at line 3291 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.484 on input line 3330. [326] Underfull \hbox (badness 10000) detected at line 3345 [][][] [327] Package longtable Warning: Column widths have changed (longtable) in table 7.485 on input line 3427. [328] [329] Underfull \hbox (badness 10000) detected at line 3501 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.486 on input line 3544. [330] Underfull \hbox (badness 10000) detected at line 3559 [][][] Underfull \hbox (badness 10000) detected at line 3562 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.487 on input line 3587. [331] Underfull \hbox (badness 10000) detected at line 3602 [][][] Underfull \hbox (badness 10000) detected at line 3605 [][][] Underfull \hbox (badness 10000) detected at line 3608 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3618--3618 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [332] Underfull \hbox (badness 10000) detected at line 3655 [][][] Underfull \hbox (badness 10000) detected at line 3658 [][][] Underfull \hbox (badness 10000) detected at line 3661 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3670--3670 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [333] Underfull \hbox (badness 10000) detected at line 3719 [][][] Underfull \hbox (badness 10000) detected at line 3722 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.488 on input line 3791. [334] Underfull \hbox (badness 10000) detected at line 3806 [][][] Underfull \hbox (badness 10000) detected at line 3809 [][][] [335] Package longtable Warning: Column widths have changed (longtable) in table 7.489 on input line 3892. Underfull \hbox (badness 10000) detected at line 3907 [][][] [336] Underfull \hbox (badness 10000) detected at line 3910 [][][] Underfull \hbox (badness 10000) detected at line 3913 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3923--3923 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3960 [][][] Underfull \hbox (badness 10000) detected at line 3963 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.490 on input line 3974. [337] Underfull \hbox (badness 10000) detected at line 3989 [][][] Underfull \hbox (badness 10000) detected at line 3992 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.491 on input line 4003. Underfull \hbox (badness 10000) detected at line 4018 [][][] Underfull \hbox (badness 10000) detected at line 4021 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.492 on input line 4036. [338] Underfull \hbox (badness 10000) detected at line 4051 [][][] Underfull \hbox (badness 10000) detected at line 4054 [][][] Underfull \hbox (badness 10000) detected at line 4057 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4067--4067 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [339] Underfull \hbox (badness 10000) detected at line 4104 [][][] Underfull \hbox (badness 10000) detected at line 4107 [][][] Underfull \hbox (badness 10000) detected at line 4110 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4119--4119 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [340] Underfull \hbox (badness 10000) detected at line 4154 [][][] Underfull \hbox (badness 10000) detected at line 4157 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.493 on input line 4196. [341] Underfull \hbox (badness 10000) detected at line 4211 [][][] Underfull \hbox (badness 10000) detected at line 4239 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.494 on input line 4298. [342] [343] Underfull \hbox (badness 10000) detected at line 4313 [][][] Underfull \hbox (badness 10000) detected at line 4316 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.495 on input line 4391. [344] Underfull \hbox (badness 10000) detected at line 4406 [][][] Underfull \hbox (badness 10000) detected at line 4409 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.496 on input line 4434. [345] Underfull \hbox (badness 10000) detected at line 4449 [][][] Underfull \hbox (badness 10000) detected at line 4452 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.497 on input line 4479. [346] Underfull \hbox (badness 10000) detected at line 4494 [][][] Underfull \hbox (badness 10000) detected at line 4497 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.498 on input line 4540. [347] Underfull \hbox (badness 10000) detected at line 4555 [][][] Underfull \hbox (badness 10000) detected at line 4558 [][][] Underfull \hbox (badness 10000) detected at line 4561 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4571--4571 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [348] Underfull \hbox (badness 10000) detected at line 4608 [][][] Underfull \hbox (badness 10000) detected at line 4611 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4620--4620 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4653 [][][] Underfull \hbox (badness 10000) detected at line 4656 [][][] Underfull \hbox (badness 10000) detected at line 4659 [][][] [349] Package longtable Warning: Column widths have changed (longtable) in table 7.499 on input line 4704. Underfull \hbox (badness 10000) detected at line 4715 [][][] Underfull \hbox (badness 10000) detected at line 4718 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.500 on input line 4735. [350] Underfull \hbox (badness 10000) detected at line 4750 [][][] Underfull \hbox (badness 10000) detected at line 4753 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.501 on input line 4776. [351] Underfull \hbox (badness 10000) detected at line 4791 [][][] Underfull \hbox (badness 10000) detected at line 4794 [][][] Underfull \hbox (badness 10000) detected at line 4797 [][][] Overfull \hbox (20.88268pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute,[] Underfull \hbox (badness 10000) detected at line 4845 [][][] [352] Underfull \hbox (badness 10000) detected at line 4848 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4892 [][][] Underfull \hbox (badness 10000) detected at line 4895 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.502 on input line 4938. [353] Underfull \hbox (badness 10000) detected at line 4953 [][][] Underfull \hbox (badness 10000) detected at line 4956 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.503 on input line 4973. [354] Underfull \hbox (badness 10000) detected at line 4988 [][][] Underfull \hbox (badness 10000) detected at line 4991 [][][] Underfull \hbox (badness 10000) detected at line 4994 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 5004--5004 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 5041 [][][] Underfull \hbox (badness 10000) detected at line 5044 [][][] Underfull \hbox (badness 10000) detected at line 5047 [][][] [355] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 5056--5056 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 5091 [][][] Underfull \hbox (badness 10000) detected at line 5094 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.504 on input line 5109. [356] Underfull \hbox (badness 10000) detected at line 5124 [][][] Underfull \hbox (badness 10000) detected at line 5127 [][][] Underfull \hbox (badness 10000) detected at line 5130 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.505 on input line 5145. Underfull \hbox (badness 10000) detected at line 5160 [][][] Underfull \hbox (badness 10000) detected at line 5163 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.506 on input line 5178. [357] Underfull \hbox (badness 10000) detected at line 5193 [][][] Underfull \hbox (badness 10000) detected at line 5196 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.507 on input line 5211. Underfull \hbox (badness 10000) detected at line 5226 [][][] Underfull \hbox (badness 10000) detected at line 5229 [][][] [358] Package longtable Warning: Column widths have changed (longtable) in table 7.508 on input line 5242. Underfull \hbox (badness 10000) detected at line 5257 [][][] Underfull \hbox (badness 10000) detected at line 5260 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.509 on input line 5273. Underfull \hbox (badness 10000) detected at line 5288 [][][] Underfull \hbox (badness 10000) detected at line 5291 [][][] [359] Package longtable Warning: Column widths have changed (longtable) in table 7.510 on input line 5306. ) (./group___frontend.tex Underfull \hbox (badness 2495) in paragraph at lines 32--33 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Overfull \hbox (16.65858pt too wide) in paragraph at lines 40--41 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 42--43 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], [360] Underfull \hbox (badness 1910) in paragraph at lines 60--61 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 60--61 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 5817) in paragraph at lines 78--79 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 80--81 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [361] [362] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] [363] Package longtable Warning: Column widths have changed (longtable) in table 7.511 on input line 196. Underfull \hbox (badness 10000) detected at line 211 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.512 on input line 232. Underfull \hbox (badness 10000) detected at line 235 [][][] [364] Package longtable Warning: Column widths have changed (longtable) in table 7.513 on input line 260. Underfull \hbox (badness 10000) detected at line 275 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.514 on input line 296. Underfull \hbox (badness 10000) detected at line 297 [][][] [365] Underfull \hbox (badness 10000) detected at line 314 [][][] Underfull \hbox (badness 10000) detected at line 317 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.515 on input line 336. Underfull \hbox (badness 10000) detected at line 351 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.516 on input line 372. [366] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 393 [][][] [367] Package longtable Warning: Column widths have changed (longtable) in table 7.517 on input line 480. Underfull \hbox (badness 10000) detected at line 495 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [368] Package longtable Warning: Column widths have changed (longtable) in table 7.518 on input line 557. Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.519 on input line 610. [369] Underfull \hbox (badness 10000) detected at line 625 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.520 on input line 634. Underfull \hbox (badness 10000) detected at line 649 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.521 on input line 662. [370] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.522 on input line 705. Underfull \hbox (badness 10000) detected at line 720 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.523 on input line 733. [371] Underfull \hbox (badness 10000) detected at line 748 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.524 on input line 757. Underfull \hbox (badness 10000) detected at line 772 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.525 on input line 781. Underfull \hbox (badness 10000) detected at line 792 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.526 on input line 803. [372] Underfull \hbox (badness 10000) detected at line 818 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.527 on input line 827. Underfull \hbox (badness 10000) detected at line 842 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.528 on input line 851. Underfull \hbox (badness 10000) detected at line 866 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.529 on input line 875. Underfull \hbox (badness 10000) detected at line 876 [][][] [373] Underfull \hbox (badness 10000) detected at line 895 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.530 on input line 908. Underfull \hbox (badness 10000) detected at line 909 [][][] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.531 on input line 938. Underfull \hbox (badness 10000) detected at line 939 [][][] [374] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 961 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.532 on input line 970. Underfull \hbox (badness 10000) detected at line 981 [][][] Underfull \hbox (badness 10000) detected at line 984 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.533 on input line 995. Underfull \hbox (badness 10000) detected at line 1010 [][][] Underfull \hbox (badness 10000) detected at line 1013 [][][] [375] Package longtable Warning: Column widths have changed (longtable) in table 7.534 on input line 1020. Underfull \hbox (badness 10000) detected at line 1035 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.535 on input line 1044. Underfull \hbox (badness 10000) detected at line 1045 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1067 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.536 on input line 1076. [376] Underfull \hbox (badness 10000) detected at line 1091 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.537 on input line 1104. Underfull \hbox (badness 10000) detected at line 1105 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.538 on input line 1133. Underfull \hbox (badness 10000) detected at line 1134 [][][] Underfull \hbox (badness 10000) in paragraph at lines 1135--1136 Underfull \hbox (badness 10000) detected at line 1138 [][][] [377] Package longtable Warning: Column widths have changed (longtable) in table 7.539 on input line 1151. Underfull \hbox (badness 10000) detected at line 1166 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.540 on input line 1179. Underfull \hbox (badness 10000) detected at line 1180 [][][] Underfull \hbox (badness 10000) detected at line 1201 [][][] Underfull \hbox (badness 10000) detected at line 1204 [][][] [378] Package longtable Warning: Column widths have changed (longtable) in table 7.541 on input line 1213. Underfull \hbox (badness 10000) detected at line 1228 [][][] Underfull \hbox (badness 10000) detected at line 1231 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.542 on input line 1244. Underfull \hbox (badness 10000) detected at line 1259 [][][] Underfull \hbox (badness 10000) detected at line 1262 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.543 on input line 1273. [379] Underfull \hbox (badness 10000) detected at line 1288 [][][] Underfull \hbox (badness 10000) detected at line 1291 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.544 on input line 1304. Underfull \hbox (badness 10000) detected at line 1319 [][][] Underfull \hbox (badness 10000) detected at line 1322 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.545 on input line 1333. [380] Underfull \hbox (badness 10000) detected at line 1348 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.546 on input line 1362. Underfull \hbox (badness 10000) detected at line 1377 [][][] Underfull \hbox (badness 10000) detected at line 1380 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.547 on input line 1393. [381] Underfull \hbox (badness 10000) detected at line 1408 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.548 on input line 1417. Underfull \hbox (badness 10000) detected at line 1432 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.549 on input line 1439. Underfull \hbox (badness 10000) detected at line 1454 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.550 on input line 1467. Underfull \hbox (badness 10000) detected at line 1468 [][][] [382] Underfull \hbox (badness 10000) detected at line 1485 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.551 on input line 1496. Underfull \hbox (badness 10000) detected at line 1497 [][][] Underfull \hbox (badness 10000) detected at line 1514 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.552 on input line 1527. Underfull \hbox (badness 10000) detected at line 1528 [][][] [383] Package longtable Warning: Column widths have changed (longtable) in table 7.553 on input line 1547. Underfull \hbox (badness 10000) detected at line 1562 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.554 on input line 1573. Underfull \hbox (badness 10000) detected at line 1574 [][][] Underfull \hbox (badness 10000) detected at line 1591 [][][] Underfull \hbox (badness 10000) detected at line 1608 [][][] [384] Package longtable Warning: Column widths have changed (longtable) in table 7.555 on input line 1621. Underfull \hbox (badness 10000) detected at line 1636 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.556 on input line 1649. Underfull \hbox (badness 10000) detected at line 1650 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.557 on input line 1673. [385] Underfull \hbox (badness 10000) detected at line 1688 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.558 on input line 1715. Underfull \hbox (badness 10000) detected at line 1716 [][][] Underfull \hbox (badness 10000) detected at line 1733 [][][] [386] Package longtable Warning: Column widths have changed (longtable) in table 7.559 on input line 1746. Underfull \hbox (badness 10000) detected at line 1747 [][][] Underfull \hbox (badness 10000) detected at line 1764 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.560 on input line 1791. Underfull \hbox (badness 10000) detected at line 1792 [][][] [387] Underfull \hbox (badness 10000) detected at line 1809 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.561 on input line 1822. Underfull \hbox (badness 10000) detected at line 1823 [][][] ) [388] Chapter 8. (./struct_atom_force.tex Underfull \hbox (badness 10000) detected at line 32 [][][] [389]) (./structs_a_p_o_lparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/apolparm.[] [390] Underfull \hbox (badness 10000) detected at line 88 [][][] [391] Underfull \hbox (badness 10000) detected at line 224 [][][] [392] Underfull \hbox (badness 10000) detected at line 237 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 263 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] Underfull \hbox (badness 10000) detected at line 289 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] [393] Underfull \hbox (badness 10000) detected at line 315 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 354 [][][] Underfull \hbox (badness 10000) detected at line 367 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [394]) (./structs_b_e_mparm.tex [395] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/bemparm.[] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [396] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 155 [][][] [397] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] ) (./structs_f_e_mparm.tex Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/femparm.[] [398] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) in paragraph at lines 84--85 [399] [400] [401]) (./structs_g_e_o_f_l_o_wparm.tex Overfull \hbox (42.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/geoflowparm.[] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [402]) (./structs_m_gparm.tex [403] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] [404] Underfull \hbox (badness 10000) in paragraph at lines 149--150 Underfull \hbox (badness 10000) in paragraph at lines 180--181 [405] Underfull \hbox (badness 10000) in paragraph at lines 261--262 [406] [407] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 460 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [408] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] [409] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [410] Underfull \hbox (badness 10000) detected at line 642 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] ) (./structs_n_osh.tex [411] Underfull \hbox (badness 10000) detected at line 108 [][][] [412] [413] [414] [415] [416] [417]) (./structs_n_osh__calc.tex Underfull \hbox (badness 10000) detected at line 38 [][][] [418]) (./structs_p_b_a_mparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbamparm.[] [419] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] [420] [421] [422] [423]) (./structs_p_b_eparm.tex [424] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbeparm.[] [425] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] [426] [427] [428] Underfull \hbox (badness 10000) detected at line 391 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Underfull \hbox (badness 10000) detected at line 430 [][][] [429] Underfull \hbox (badness 10000) detected at line 473 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] [430] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] [431] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [432] [433]) (./structs_p_b_s_a_mparm.tex Overfull \hbox (30.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbsamparm.[] [434] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [435]) (./structs_vacc.tex [436] Underfull \hbox (badness 10000) detected at line 36 [][][] [437]) (./structs_vacc_surf.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [438]) (./structs_valist.tex [439] Underfull \hbox (badness 10000) detected at line 36 [][][] [440]) (./structs_vatom.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [441] Underfull \hbox (badness 10000) in paragraph at lines 62--63 Underfull \hbox (badness 10000) in paragraph at lines 93--94 Underfull \hbox (badness 10000) in paragraph at lines 114--115 ) (./structs_vclist.tex [442] Underfull \hbox (badness 10000) detected at line 40 [][][] [443]) (./structs_vclist_cell.tex [444] Underfull \hbox (badness 10000) detected at line 24 [][][] ) (./structs_vcsm.tex Underfull \hbox (badness 10000) detected at line 42 [][][] [445] [446]) (./structs_vfetk.tex Underfull \hbox (badness 10000) detected at line 60 [][][] [447] Underfull \hbox (badness 10000) in paragraph at lines 116--117 [448] [449]) (./structs_vfetk___local_var.tex [450] Underfull \hbox (badness 10000) detected at line 86 [][][] [451] [452] [453]) (./structs_vgreen.tex [454] Underfull \hbox (badness 10000) detected at line 34 [][][] [455]) (./structs_vgrid.tex Underfull \hbox (badness 10000) detected at line 52 [][][] [456] [457]) (./structs_vmgrid.tex Underfull \hbox (badness 10000) detected at line 24 [][][] [458]) (./structs_vopot.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [459]) (./structs_vparam___atom_data.tex Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [460]) (./structs_vpbe.tex [461] Underfull \hbox (badness 10000) detected at line 86 [][][] [462] [463] [464]) (./structs_vpee.tex [465] Underfull \hbox (badness 10000) detected at line 34 [][][] [466]) (./structs_vpmg.tex [467] Underfull \hbox (badness 10000) detected at line 116 [][][] [468] [469] [470] [471] [472]) (./structs_vpmgp.tex [473] [474] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) in paragraph at lines 164--165 Underfull \hbox (badness 10000) in paragraph at lines 175--176 Underfull \hbox (badness 10000) in paragraph at lines 186--187 [475] Underfull \hbox (badness 10000) in paragraph at lines 234--235 [476] [477] [478] [479] Underfull \hbox (badness 10000) in paragraph at lines 506--507 [480] Underfull \hbox (badness 10000) in paragraph at lines 527--528 Underfull \hbox (badness 10000) in paragraph at lines 548--549 Underfull \hbox (badness 10000) in paragraph at lines 589--590 [481] Underfull \hbox (badness 10000) in paragraph at lines 630--631 Underfull \hbox (badness 10000) in paragraph at lines 671--672 [482]) (./struct_vparam.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [483]) (./struct_vparam___res_data.tex Underfull \hbox (badness 10000) detected at line 28 [][][] [484]) [485] [486] Chapter 9. (./mainpage_8h_source.tex) (./apbs_8h.tex <./apbs_8h__incl.pdf> <./apbs_8h__dep __incl.pdf> [487] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] [488]) (./apbs_8h_source.tex) (./vcsm_8c.tex [489] <./vcsm_8c__incl.pdf> [490] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [491]) (./vcsm_8c_source.tex [492] [493] [494] [495] [496] [497]) (./vcsm_8h.tex <./vcsm_8h__incl.pdf> <./vcsm_8h__dep__incl.pdf> [498] [499] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 81 [][][] [500]) (./vcsm_8h_source.tex [501]) (./vfetk_8c.tex [502] <./vfetk_8c__incl.pdf > [503] [504] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 165 [][][] [505] Underfull \hbox (badness 10000) detected at line 168 [][][] [506] [507] [508] [509]) (./vfetk_8c_source.tex [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539]) (./vfetk_8h.tex [540] <./vfetk_8h__incl.pdf> <./vfetk_8h__dep__inc l.pdf> [541] [542] [543] Underfull \hbox (badness 10000) detected at line 187 [][][] [544] Underfull \hbox (badness 10000) detected at line 190 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] ) (./vfetk_8h_source.tex [545] [546] [547] [548] [549] [550]) (./vpee_8c.tex <. /vpee_8c__incl.pdf> [551] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [552]) (./vpee_8c_source.tex [553] [554] [555] [556] [557] [558]) (./vpee_8h.tex <./vpee_8h__incl.pdf> [559] <./vpee_8h__dep__incl.pdf> [560] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] [561]) (./vpee_8h_source.tex [562]) (./apolparm_8c.tex <./apolparm_8c__incl.pdf > [563] Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [564] [565]) (./apolparm_8c_source.tex [566] [567] [568] [569] [570] [571] [572] [573]) (./apolparm_8h_source.tex [574]) (./bemparm_8c.tex <./bemparm_8c__ incl.pdf> [575] [576] Underfull \hbox (badness 10000) detected at line 48 [][][] Underfull \hbox (badness 10000) detected at line 51 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] [577] Underfull \hbox (badness 10000) detected at line 120 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.1 on input line 129. ) (./bemparm_8c_source.tex [578] [579] [580] [581]) (./bemparm_8h_source.tex [582]) (./femparm_8c.tex <./femparm_8c__incl.pdf> [583] [584] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] Underfull \hbox (badness 10000) detected at line 64 [][][] [585] [586]) (./femparm_8c_source.tex [587] [588] [589] [590] [591]) (./femparm_8h.tex <./femparm_8h__incl.pdf> [592] <./femparm_8h__dep__incl.pdf> [593] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [594] Underfull \hbox (badness 10000) detected at line 93 [][][] ) (./femparm_8h_source.tex [595]) (./geoflowparm_8c.tex <./geoflowparm_8c__incl .pdf> [596] [597] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] [598]) (./geoflowparm_8c_source.tex [599] [600]) (./geoflowparm_8h.tex <./geofl owparm_8h__incl.pdf> [601] <./geoflowparm_8h__dep__incl.pdf> [602] [603] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [604]) (./geoflowparm_8h_source.tex [605]) (./mgparm_8c.tex <./mgparm_8c__incl. pdf> [606] [607] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] [608] [609]) (./mgparm_8c_source.tex [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621]) (./mgparm_8h.tex <./mgparm_8h__incl.pdf> [622] <./mgparm_8h__dep__incl.pdf> [623] [624] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 108 [][][] [625]) (./mgparm_8h_source.tex [626]) (./nosh_8c.tex <./nosh_8c__incl.pdf> [627] [628] [629] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] [630] [631] [632] [633] [634]) (./nosh_8c_source.tex [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] [666] [667] [668] [669] [670] [671] [672] [673] [674]) (./nosh_8h.tex <./nosh_8h__incl.pdf> [675] <./nosh_8h__dep__incl.pdf> [676] [677] [678] Underfull \hbox (badness 10000) detected at line 169 [][][] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] ) (./nosh_8h_source.tex [679] [680] [681]) (./pbamparm_8c.tex <./pbamparm_8c__i ncl.pdf> [682] [683] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] [684]) (./pbamparm_8c_source.tex [685] [686] [687] [688] [689] [690] [691] [692] [693]) (./pbamparm_8h.tex <./pbamparm_8h__incl.pdf> <./pbamparm_8h__dep__ incl.pdf> [694] [695] Underfull \hbox (badness 10000) detected at line 100 [][][] [696] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [697]) (./pbamparm_8h_source.tex [698]) (./pbeparm_8c.tex [699] <./pbeparm_8c__ incl.pdf> [700] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [701] [702] [703] [704] [705]) (./pbeparm_8c_source.tex [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720]) (./pbeparm_8h.tex <./pbeparm_8h__incl.pdf> [721] <./pbeparm_8h__dep__incl.pdf> [722] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [723]) (./pbeparm_8h_source.tex [724] [725]) (./pbsamparm_8c.tex <./pbsamparm_8 c__incl.pdf> [726] [727] Underfull \hbox (badness 10000) detected at line 48 [][][] Underfull \hbox (badness 10000) detected at line 51 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] [728]) (./pbsamparm_8c_source.tex [729] [730]) (./pbsamparm_8h.tex [731] <./pbs amparm_8h__incl.pdf> <./pbsamparm_8h__dep__incl.pdf> [732] [733] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [734]) (./pbsamparm_8h_source.tex [735]) (./vacc_8c.tex <./vacc_8c__incl.pdf> [736] [737] [738] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] Underfull \hbox (badness 10000) detected at line 112 [][][] [739] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.2 on input line 192. Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] [740] Package longtable Warning: Column widths have changed (longtable) in table 9.3 on input line 223. [741]) (./vacc_8c_source.tex [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764]) (./vacc_8h.tex <./vacc_8h__incl.pdf> <./vacc_8h__dep__incl.p df> [765] [766] [767] Underfull \hbox (badness 10000) detected at line 121 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 127 [][][] [768]) (./vacc_8h_source.tex [769] [770] [771]) (./valist_8c.tex <./valist_8c__ incl.pdf> [772] [773] Underfull \hbox (badness 2293) in paragraph at lines 53--55 []\T1/phv/m/n/10 VPRIVATE Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/ m/n/10 thee, Vio $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 sock, int $\OMS/cmsy/m/n/ 10 ^^C$\T1/phv/m/n/10 serial, char atom[] Underfull \hbox (badness 10000) detected at line 81 [][][] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] [774] [775] [776]) (./valist_8c_source.tex [777] [778] [779] [780] [781] [782] [783] [784] [785] [786]) (./valist_8h.tex [787] <./valist_8h__incl.pdf> < ./valist_8h__dep__incl.pdf> [788] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 81 [][][] [789]) (./valist_8h_source.tex [790] [791]) (./vatom_8c.tex <./vatom_8c__incl.p df> [792] Underfull \hbox (badness 10000) detected at line 70 [][][] Underfull \hbox (badness 10000) detected at line 73 [][][] Underfull \hbox (badness 10000) detected at line 76 [][][] [793]) (./vatom_8c_source.tex [794] [795] [796]) (./vatom_8h.tex <./vatom_8h__i ncl.pdf> [797] <./vatom_8h__dep__incl.pdf> [798] [799] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] ) (./vatom_8h_source.tex [800] [801]) (./vcap_8c.tex <./vcap_8c__incl.pdf> [802] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] Underfull \hbox (badness 10000) detected at line 36 [][][] [803]) (./vcap_8c_source.tex [804]) (./vcap_8h.tex <./vcap_8h__incl.pdf> <./vca p_8h__dep__incl.pdf> [805] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 48 [][][] [806] Underfull \hbox (badness 10000) detected at line 51 [][][] ) (./vcap_8h_source.tex [807]) (./vclist_8c.tex <./vclist_8c__incl.pdf> Underfull \hbox (badness 4060) in paragraph at lines 31--33 []\T1/phv/m/n/10 VPRIVATE void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 thee , dou-ble lower[]_[]corner[][][], dou-ble upper[]_[] [808] Underfull \hbox (badness 1297) in paragraph at lines 43--44 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m /n/10 thee, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 alist, dou-ble max[]_[]radi us, int npts[][][], Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [809] [810]) (./vclist_8c_source.tex [811] [812] [813] [814] [815]) (./vclist_8h.tex [816] <./vclist_8h__incl.pdf> <./vclist_8h__dep__incl.pdf> [817] [818] Underfull \hbox (badness 10000) detected at line 82 [][][] Underfull \hbox (badness 10000) detected at line 85 [][][] Underfull \hbox (badness 10000) detected at line 88 [][][] [819]) (./vclist_8h_source.tex [820]) (./vgreen_8c.tex <./vgreen_8c__incl.pdf> [821] [822] Underfull \hbox (badness 10000) detected at line 54 [][][] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [823]) (./vgreen_8c_source.tex [824] [825] [826] [827] [828] [829]) (./vgreen_8h.tex <./vgreen_8h__incl.pdf> [830] <./vgreen_8h__dep__incl.pdf> [831] Underfull \hbox (badness 10000) detected at line 70 [][][] Underfull \hbox (badness 10000) detected at line 73 [][][] ) (./vgreen_8h_source.tex [832]) (./vhal_8h.tex [833] <./vhal_8h__incl.pdf> <./ vhal_8h__dep__incl.pdf> [834] [835] [836] [837] Underfull \hbox (badness 10000) detected at line 301 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 316--316 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [838] [839] [840] [841] [842] [843] [844]) (./vhal_8h_source.tex [845] [846] [847] [848] [849] [850] [851] [852]) (./vmatrix_8h.tex <./vmatrix_8h__dep__incl .pdf> [853] Underfull \hbox (badness 10000) detected at line 35 [][][] Underfull \hbox (badness 10000) detected at line 38 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] [854] [855]) (./vmatrix_8h_source.tex [856]) (./vparam_8c.tex <./vparam_8c__inc l.pdf> [857] Underfull \hbox (badness 10000) detected at line 77 [][][] [858] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] ) (./vparam_8c_source.tex [859] [860] [861] [862] [863] [864] [865] [866]) (./vparam_8h.tex [867] <./vparam_8h__incl.pdf> <./vparam_8h__dep__incl.pdf> [868] [869] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] [870]) (./vparam_8h_source.tex [871]) (./vpbe_8c.tex <./vpbe_8c__incl.pdf> [872] [873] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] Underfull \hbox (badness 10000) detected at line 95 [][][] [874]) (./vpbe_8c_source.tex [875] [876] [877] [878] [879] [880]) (./vpbe_8h.tex <./vpbe_8h__incl.pdf> [881] <./vpbe_8h__dep__incl.pdf> [882] [883] Underfull \hbox (badness 10000) detected at line 109 [][][] Underfull \hbox (badness 10000) detected at line 112 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] [884]) (./vpbe_8h_source.tex [885] [886]) (./vstring_8c.tex <./vstring_8c__incl .pdf> [887] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] Underfull \hbox (badness 10000) detected at line 36 [][][] [888]) (./vstring_8c_source.tex [889] [890]) (./vstring_8h.tex <./vstring_8h__i ncl.pdf> [891] <./vstring_8h__dep__incl.pdf> Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] [892] Underfull \hbox (badness 10000) detected at line 45 [][][] ) (./vstring_8h_source.tex [893]) (./vunit_8h.tex <./vunit_8h__dep__incl.pdf> [894] LaTeX Warning: Command \r invalid in math mode on input line 41. Missing character: There is no Å in font cmr9! Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] Underfull \hbox (badness 10000) detected at line 57 [][][] [895]) (./vunit_8h_source.tex) (./main_8c.tex <./main_8c__incl.pdf> [896] Underfull \hbox (badness 10000) detected at line 27 [][][] Underfull \hbox (badness 10000) detected at line 40 [][][] Underfull \hbox (badness 10000) detected at line 43 [][][] [897]) (./main_8c_source.tex [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908]) (./vgrid_8c.tex <./vgrid_8c__incl.pdf> [909] [910] Underfull \hbox (badness 10000) detected at line 83 [][][] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] [911] Underfull \hbox (badness 10000) detected at line 173 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.4 on input line 192. [912]) (./vgrid_8c_source.tex [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935]) (./vgrid_8h.tex <./vgrid_8h__incl.pdf> [936] <./vgrid_ 8h__dep__incl.pdf> [937] [938] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] [939] Underfull \hbox (badness 10000) detected at line 163 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.5 on input line 182. ) (./vgrid_8h_source.tex [940] [941]) (./vmgrid_8c.tex <./vmgrid_8c__incl.pdf> [942] [943] Underfull \hbox (badness 10000) detected at line 40 [][][] Underfull \hbox (badness 10000) detected at line 43 [][][] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] Overfull \hbox (1024.08331pt too wide) in paragraph at lines 58--58 []\T1/pcr/m/n/8 * Copyright (c) 2010, Pacific Northwest National Laboratory. Portions Copyright (c) 2002-2020, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2020, T he Regents of the University of California. Portions Copyright (c) 1995, Michae l Holst.[] ) (./vmgrid_8c_source.tex [944] [945] [946]) (./vmgrid_8h.tex <./vmgrid_8h__inc l.pdf> <./vmgrid_8h__dep__incl.pdf> [947] [948] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [949]) (./vmgrid_8h_source.tex) (./vopot_8c.tex [950] <./vopot_8c__incl.pdf> Underfull \hbox (badness 10000) detected at line 43 [][][] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] [951]) (./vopot_8c_source.tex [952] [953] [954] [955] [956]) (./vopot_8h.tex <. /vopot_8h__incl.pdf> <./vopot_8h__dep__incl.pdf> [957] [958] Underfull \hbox (badness 10000) detected at line 63 [][][] Underfull \hbox (badness 10000) detected at line 66 [][][] Underfull \hbox (badness 10000) detected at line 69 [][][] ) (./vopot_8h_source.tex [959]) (./vpmg_8c.tex <./vpmg_8c__incl.pdf> [960] [961] [962] [963] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] Underfull \hbox (badness 10000) detected at line 178 [][][] [964] Underfull \hbox (badness 10000) detected at line 260 [][][] [965] Underfull \hbox (badness 10000) detected at line 287 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.6 on input line 318. [966] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 386 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.7 on input line 393. Underfull \hbox (badness 10000) detected at line 408 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.8 on input line 418. [967] Underfull \hbox (badness 10000) detected at line 433 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.9 on input line 443. Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.10 on input line 468. Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] [968] Package longtable Warning: Column widths have changed (longtable) in table 9.11 on input line 493. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.12 on input line 518. Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 553 [][][] Underfull \hbox (badness 10000) detected at line 556 [][][] [969] Underfull \hbox (badness 10000) detected at line 573 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 641 [][][] [970] Underfull \hbox (badness 10000) detected at line 658 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 696 [][][] Underfull \hbox (badness 10000) detected at line 699 [][][] Underfull \hbox (badness 10000) detected at line 716 [][][] [971] Underfull \hbox (badness 10000) detected at line 733 [][][] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] Underfull \hbox (badness 10000) detected at line 794 [][][] [972] Underfull \hbox (badness 10000) detected at line 831 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.13 on input line 860. [973] Underfull \hbox (badness 10000) detected at line 875 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.14 on input line 890. [974] Underfull \hbox (badness 10000) detected at line 925 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.15 on input line 932. Underfull \hbox (badness 10000) detected at line 947 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.16 on input line 954. [975] Underfull \hbox (badness 10000) detected at line 969 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.17 on input line 976. Underfull \hbox (badness 10000) detected at line 991 [][][] Underfull \hbox (badness 10000) detected at line 994 [][][] Underfull \hbox (badness 10000) detected at line 1011 [][][] Underfull \hbox (badness 10000) detected at line 1014 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.18 on input line 1021. Underfull \hbox (badness 10000) detected at line 1036 [][][] Underfull \hbox (badness 10000) detected at line 1039 [][][] [976] Package longtable Warning: Column widths have changed (longtable) in table 9.19 on input line 1046. Underfull \hbox (badness 10000) detected at line 1061 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.20 on input line 1071. Underfull \hbox (badness 10000) detected at line 1096 [][][] [977] Underfull \hbox (badness 10000) detected at line 1113 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.21 on input line 1130. Underfull \hbox (badness 10000) detected at line 1145 [][][] Underfull \hbox (badness 10000) detected at line 1148 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.22 on input line 1157. ) (./vpmg_8c_source.tex [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113]) (./vpmg_8h.tex <./vpmg_8h__incl.pdf> [1114] <./vpmg_8h__dep__incl.pdf> [1115] [1116] [1117] [1118] [1119] Underfull \hbox (badness 10000) detected at line 233 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] [1120] [1121] Underfull \hbox (badness 10000) detected at line 439 [][][] [1122] Underfull \hbox (badness 10000) detected at line 456 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.23 on input line 487. Underfull \hbox (badness 10000) detected at line 502 [][][] [1123] Underfull \hbox (badness 10000) detected at line 505 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.24 on input line 512. Underfull \hbox (badness 10000) detected at line 527 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.25 on input line 537. Underfull \hbox (badness 10000) detected at line 552 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.26 on input line 562. Underfull \hbox (badness 10000) detected at line 577 [][][] [1124] Underfull \hbox (badness 10000) detected at line 580 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.27 on input line 587. Underfull \hbox (badness 10000) detected at line 602 [][][] Underfull \hbox (badness 10000) detected at line 605 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.28 on input line 612. Underfull \hbox (badness 10000) detected at line 627 [][][] Underfull \hbox (badness 10000) detected at line 630 [][][] [1125] Package longtable Warning: Column widths have changed (longtable) in table 9.29 on input line 637. Underfull \hbox (badness 10000) detected at line 652 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 709 [][][] [1126] Underfull \hbox (badness 10000) detected at line 726 [][][] Underfull \hbox (badness 10000) detected at line 743 [][][] Underfull \hbox (badness 10000) detected at line 760 [][][] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 794 [][][] [1127] Underfull \hbox (badness 10000) detected at line 815 [][][] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 835 [][][] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 869 [][][] [1128] Underfull \hbox (badness 10000) detected at line 886 [][][] Underfull \hbox (badness 10000) detected at line 903 [][][] Underfull \hbox (badness 10000) detected at line 916 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] [1129] Underfull \hbox (badness 10000) detected at line 946 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.30 on input line 975. Underfull \hbox (badness 10000) detected at line 990 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.31 on input line 1005. [1130] Underfull \hbox (badness 10000) detected at line 1020 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.32 on input line 1027. Underfull \hbox (badness 10000) detected at line 1042 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.33 on input line 1049. Underfull \hbox (badness 10000) detected at line 1064 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.34 on input line 1071. [1131] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.35 on input line 1116. Underfull \hbox (badness 10000) detected at line 1131 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.36 on input line 1141. [1132] Underfull \hbox (badness 10000) detected at line 1156 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.37 on input line 1166. Underfull \hbox (badness 10000) detected at line 1191 [][][] Underfull \hbox (badness 10000) detected at line 1208 [][][] [1133] Package longtable Warning: Column widths have changed (longtable) in table 9.38 on input line 1225. Underfull \hbox (badness 10000) detected at line 1240 [][][] Underfull \hbox (badness 10000) detected at line 1243 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.39 on input line 1252. ) (./vpmg_8h_source.tex [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142]) (./vpmgp_8c.tex <./vpmgp_8c__incl.pdf> [1143] Underfull \hbox (badness 10000) detected at line 38 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [1144]) (./vpmgp_8c_source.tex [1145] [1146] [1147]) (./vpmgp_8h.tex [1148] <./ vpmgp_8h__incl.pdf> <./vpmgp_8h__dep__incl.pdf> [1149] [1150] Underfull \hbox (badness 10000) detected at line 56 [][][] Underfull \hbox (badness 10000) detected at line 59 [][][] Underfull \hbox (badness 10000) detected at line 62 [][][] Underfull \hbox (badness 10000) detected at line 65 [][][] [1151]) (./vpmgp_8h_source.tex [1152]) (./build_ad_8c_source.tex [1153] [1154] [1155]) 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<./routines_8h__dep__incl.pdf> [1398] Overfull \hbox (16.65858pt too wide) in paragraph at lines 50--51 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 52--53 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Underfull \hbox (badness 1910) in paragraph at lines 70--71 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 70--71 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 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LaTeX Warning: Label `group___vhal_ga068e237d419d537df01fc0fad01e24e8' multiply defined. ) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (./refman.out) (./refman.out) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texlive/texmf-dist/tex/latex/wasysym/uwasy.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}{/usr/share/texlive/texmf-dist/fonts/enc/dvips /base/8r.enc}] [2] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] (./index.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1phv.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [1] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [2]) (./bug.tex [3] [4] Chapter 2. 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Underfull \hbox (badness 10000) in paragraph at lines 5--9 ) [9] [10] Chapter 4. (./topics.tex) [11] [12] Chapter 5. (./annotated.tex [13]) [14] Chapter 6. (./files.tex [15] [16] [17]) [18] Chapter 7. 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1813 [][][] Underfull \hbox (badness 10000) detected at line 1816 [][][] Underfull \hbox (badness 10000) detected at line 1819 [][][] Underfull \hbox (badness 10000) detected at line 1841 [][][] [54] Underfull \hbox (badness 10000) detected at line 1867 [][][] Underfull \hbox (badness 10000) detected at line 1887 [][][] Underfull \hbox (badness 10000) detected at line 1892 [][][] ) (./group___vpee.tex [55] Underfull \hbox (badness 849) in paragraph at lines 45--46 \T1/phv/m/n/10 Holst par-al-lel re-fine-ment rou-tine es-sen-tially re-duces th e er-ror out-side the \T1/pcr/m/n/10 local" partition to zero. Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 However, this leads to the need for a few final overlapping Schw arz solves to Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 smooth out the errors near partition boundaries. Supposedly, if the region in Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 which we allow error-based refinement includes the$\OML/cmm/m/it /10 <$\T1/pcr/m/n/10 /tt$\OML/cmm/m/it/10 >$\T1/pcr/m/n/10 local" partition and an Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 external buffer zone approximately equal in size to the local re gion, then the Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 solution will asymptotically approach the solution obtained via more typical Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 methods. This is essentially a more flexible parallel implementa tion of MC\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s [56] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [57] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 171 [][][] [58] Underfull \hbox (badness 10000) detected at line 195 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] [59] Underfull \hbox (badness 10000) detected at line 241 [][][] Underfull \hbox (badness 10000) detected at line 244 [][][] ) (./group___a_p_o_lparm.tex [60] [61] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] [62] Underfull \hbox (badness 10000) detected at line 253 [][][] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 280 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] [63] Underfull \hbox (badness 10000) detected at line 322 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] ) (./group___b_e_mparm.tex [64] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] [65] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 133 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] [66] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] Underfull \hbox (badness 10000) detected at line 224 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] [67] Underfull \hbox (badness 10000) detected at line 258 [][][] ) (./group___f_e_mparm.tex [68] Underfull \hbox (badness 10000) detected at line 127 [][][] [69] Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [70] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 255 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [71] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 331 [][][] Underfull \hbox (badness 10000) detected at line 348 [][][] Underfull \hbox (badness 10000) detected at line 370 [][][] ) (./group___g_e_o_f_l_o_wparm.tex [72] [73] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] [74] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] [75] Underfull \hbox (badness 10000) detected at line 225 [][][] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] ) (./group___m_gparm.tex [76] [77] [78] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 233 [][][] [79] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 262 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [80] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 336 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [81] Underfull \hbox (badness 10000) detected at line 402 [][][] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Underfull \hbox (badness 10000) detected at line 457 [][][] [82] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 482 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 524 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] [83] Underfull \hbox (badness 10000) detected at line 549 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 599 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] [84] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] Underfull \hbox (badness 10000) detected at line 661 [][][] Underfull \hbox (badness 10000) detected at line 678 [][][] [85] Underfull \hbox (badness 10000) detected at line 702 [][][] Underfull \hbox (badness 10000) detected at line 726 [][][] ) (./group___n_osh.tex [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) detected at line 447 [][][] [91] Underfull \hbox (badness 10000) detected at line 457 [][][] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 498 [][][] Underfull \hbox (badness 10000) detected at line 506 [][][] Underfull \hbox (badness 10000) detected at line 523 [][][] [92] Underfull \hbox (badness 10000) detected at line 545 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 584 [][][] [93] Underfull \hbox (badness 10000) detected at line 601 [][][] Underfull \hbox (badness 10000) detected at line 623 [][][] Underfull \hbox (badness 10000) detected at line 645 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] [94] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 685 [][][] Underfull \hbox (badness 10000) detected at line 688 [][][] Underfull \hbox (badness 10000) detected at line 705 [][][] Underfull \hbox (badness 10000) detected at line 715 [][][] [95] Underfull \hbox (badness 10000) detected at line 732 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 759 [][][] Underfull \hbox (badness 10000) detected at line 769 [][][] Underfull \hbox (badness 10000) detected at line 786 [][][] [96] Underfull \hbox (badness 10000) detected at line 796 [][][] Underfull \hbox (badness 10000) detected at line 813 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 840 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] [97] Underfull \hbox (badness 10000) detected at line 867 [][][] Underfull \hbox (badness 10000) detected at line 877 [][][] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 904 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] [98] Underfull \hbox (badness 10000) detected at line 931 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 985 [][][] [99] Underfull \hbox (badness 10000) detected at line 1002 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1029 [][][] Underfull \hbox (badness 10000) detected at line 1032 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] [100] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1074 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1094 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] [101] Underfull \hbox (badness 10000) detected at line 1126 [][][] Underfull \hbox (badness 10000) detected at line 1129 [][][] Underfull \hbox (badness 10000) detected at line 1139 [][][] Underfull \hbox (badness 10000) detected at line 1142 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1162 [][][] Underfull \hbox (badness 10000) detected at line 1174 [][][] Underfull \hbox (badness 10000) detected at line 1177 [][][] [102] Underfull \hbox (badness 10000) detected at line 1194 [][][] Underfull \hbox (badness 10000) detected at line 1197 [][][] Underfull \hbox (badness 10000) detected at line 1207 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1227 [][][] Underfull \hbox (badness 10000) detected at line 1230 [][][] Underfull \hbox (badness 10000) detected at line 1240 [][][] [103] Underfull \hbox (badness 10000) detected at line 1264 [][][] Underfull \hbox (badness 10000) detected at line 1267 [][][] Underfull \hbox (badness 10000) detected at line 1277 [][][] ) (./group___p_b_a_mparm.tex [104] [105] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] [106] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 197 [][][] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 229 [][][] [107] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 256 [][][] Underfull \hbox (badness 10000) detected at line 273 [][][] Underfull \hbox (badness 10000) detected at line 295 [][][] [108] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [109] Underfull \hbox (badness 10000) detected at line 389 [][][] Underfull \hbox (badness 10000) detected at line 413 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] [110] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 485 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] [111] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 581 [][][] Underfull \hbox (badness 10000) detected at line 593 [][][] [112] Underfull \hbox (badness 10000) detected at line 610 [][][] Underfull \hbox (badness 10000) detected at line 634 [][][] ) (./group___p_b_eparm.tex [113] [114] [115] Underfull \hbox (badness 10000) detected at line 209 [][][] Underfull \hbox (badness 10000) detected at line 212 [][][] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] Underfull \hbox (badness 10000) detected at line 261 [][][] [116] Underfull \hbox (badness 10000) detected at line 278 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 325 [][][] [117] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] [118] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 431 [][][] ) (./group___p_b_s_a_mparm.tex [119] [120] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] [121] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 205 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 240 [][][] [122] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 301 [][][] [123] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] [124] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 426 [][][] ) (./group___vacc.tex [125] [126] [127] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [128] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 242 [][][] [129] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 283 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] Underfull \hbox (badness 10000) detected at line 308 [][][] [130] Underfull \hbox (badness 10000) detected at line 334 [][][] Underfull \hbox (badness 10000) detected at line 337 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [131] Underfull \hbox (badness 10000) detected at line 387 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] Underfull \hbox (badness 10000) detected at line 414 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] [132] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 472 [][][] Underfull \hbox (badness 10000) detected at line 475 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] [133] Underfull \hbox (badness 10000) detected at line 502 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 562 [][][] [134] Underfull \hbox (badness 10000) detected at line 565 [][][] Underfull \hbox (badness 10000) detected at line 595 [][][] Underfull \hbox (badness 10000) detected at line 598 [][][] [135] Underfull \hbox (badness 10000) detected at line 628 [][][] Underfull \hbox (badness 10000) detected at line 660 [][][] [136] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 724 [][][] [137] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 790 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] [138] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 855 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] Underfull \hbox (badness 10000) detected at line 882 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] Underfull \hbox (badness 10000) detected at line 888 [][][] [139] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] Underfull \hbox (badness 10000) detected at line 941 [][][] Underfull \hbox (badness 10000) detected at line 944 [][][] [140] Underfull \hbox (badness 10000) detected at line 972 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1007 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] [141] Underfull \hbox (badness 10000) detected at line 1040 [][][] Underfull \hbox (badness 10000) detected at line 1043 [][][] Underfull \hbox (badness 10000) detected at line 1069 [][][] Underfull \hbox (badness 10000) detected at line 1072 [][][] [142] Underfull \hbox (badness 10000) detected at line 1100 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Underfull \hbox (badness 10000) detected at line 1152 [][][] [143]) (./group___valist.tex [144] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [145] Underfull \hbox (badness 10000) detected at line 136 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 183 [][][] [146] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 260 [][][] [147] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 310 [][][] Underfull \hbox (badness 10000) detected at line 332 [][][] Underfull \hbox (badness 10000) detected at line 335 [][][] [148] Underfull \hbox (badness 10000) detected at line 352 [][][] Underfull \hbox (badness 10000) detected at line 355 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] [149] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 415 [][][] Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] ) (./group___vatom.tex [150] [151] Underfull \hbox (badness 10000) detected at line 97 [][][] [152] Underfull \hbox (badness 10000) detected at line 134 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] [153] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 227 [][][] Underfull \hbox (badness 10000) detected at line 249 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] [154] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 320 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 345 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] [155] Underfull \hbox (badness 10000) detected at line 370 [][][] Underfull \hbox (badness 10000) detected at line 378 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] Underfull \hbox (badness 10000) detected at line 428 [][][] [156] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 469 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 494 [][][] [157] Underfull \hbox (badness 10000) detected at line 518 [][][] Underfull \hbox (badness 10000) detected at line 542 [][][] Underfull \hbox (badness 10000) detected at line 566 [][][] [158] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 614 [][][] Underfull \hbox (badness 10000) detected at line 638 [][][] [159] Underfull \hbox (badness 10000) detected at line 662 [][][] ) (./group___vcap.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [160] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [161] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] ) (./group___vclist.tex [162] [163] Underfull \hbox (badness 10000) detected at line 126 [][][] [164] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] Underfull \hbox (badness 10000) detected at line 191 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] [165] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 275 [][][] [166] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [167] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 423 [][][] [168]) (./group___vgreen.tex [169] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [170] Underfull \hbox (badness 10000) detected at line 141 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] [171] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] [172] Underfull \hbox (badness 10000) detected at line 215 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] [173] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 334 [][][] [174] Underfull \hbox (badness 10000) detected at line 351 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] [175] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 429 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] [176] Underfull \hbox (badness 10000) detected at line 471 [][][] Underfull \hbox (badness 10000) detected at line 476 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] Underfull \hbox (badness 10000) detected at line 517 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] ) (./group___vhal.tex [177] [178] [179] [180] [181] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 421 [][][] Underfull \hbox (badness 10000) detected at line 438 [][][] Underfull \hbox (badness 10000) detected at line 455 [][][] [182] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Underfull \hbox (badness 10000) detected at line 526 [][][] Underfull \hbox (badness 10000) detected at line 567 [][][] [183] [184] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 819 [][][] [185] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] [186] Underfull \hbox (badness 10000) detected at line 932 [][][] Missing character: There is no Å in font cmr10! Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 58. Missing character: There is no Å in font cmr10! [187] [188] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1112 [][][] Underfull \hbox (badness 10000) detected at line 1140 [][][] Underfull \hbox (badness 10000) detected at line 1143 [][][] [189] Underfull \hbox (badness 10000) detected at line 1160 [][][] ) (./group___vmatrix.tex) (./group___vparam.tex [190] [191] [192] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] Underfull \hbox (badness 10000) detected at line 206 [][][] [193] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 274 [][][] Underfull \hbox (badness 10000) detected at line 282 [][][] [194] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 343 [][][] Underfull \hbox (badness 10000) detected at line 346 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] [195] Underfull \hbox (badness 10000) detected at line 371 [][][] Underfull \hbox (badness 10000) detected at line 388 [][][] Underfull \hbox (badness 10000) detected at line 410 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] [196] Underfull \hbox (badness 10000) detected at line 444 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 467 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 480 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] [197] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [198] Underfull \hbox (badness 10000) detected at line 571 [][][] Underfull \hbox (badness 10000) detected at line 587 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 628 [][][] [199] Underfull \hbox (badness 10000) detected at line 636 [][][] Underfull \hbox (badness 10000) detected at line 653 [][][] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 680 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] [200]) (./group___vpbe.tex [201] [202] [203] Underfull \hbox (badness 10000) detected at line 128 [][][] Underfull \hbox (badness 10000) detected at line 131 [][][] LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 136 [][][] [204] Underfull \hbox (badness 10000) detected at line 186 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 195 [][][] [205] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 291 [][][] [206] Underfull \hbox (badness 10000) detected at line 299 [][][] Overfull \hbox (151.96916pt too wide) in paragraph at lines 318--318 [] \T1/p cr/m/n/8 permittivity equal to the protein interior) and zero ionic[] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 333 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 358 [][][] Underfull \hbox (badness 10000) detected at line 375 [][][] [207] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 396 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] [208] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 478 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] [209] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 550 [][][] Underfull \hbox (badness 10000) detected at line 558 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] [210] Underfull \hbox (badness 10000) detected at line 600 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 633 [][][] Underfull \hbox (badness 10000) detected at line 650 [][][] Underfull \hbox (badness 10000) detected at line 658 [][][] [211] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 683 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 708 [][][] Underfull \hbox (badness 10000) detected at line 725 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] [212] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 775 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Underfull \hbox (badness 10000) detected at line 800 [][][] Underfull \hbox (badness 10000) detected at line 808 [][][] [213] Underfull \hbox (badness 10000) detected at line 825 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] LaTeX Warning: Command \r invalid in math mode on input line 859. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 883 [][][] [214] Underfull \hbox (badness 10000) detected at line 900 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] ) (./group___vstring.tex [215] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [216] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] ) (./group___vunit.tex [217] LaTeX Warning: Command \r invalid in math mode on input line 39. Missing character: There is no Å in font cmr9! [218] LaTeX Warning: Command \r invalid in math mode on input line 142. Missing character: There is no Å in font cmr10! [219]) (./group___vgrid.tex [220] [221] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 151 [][][] [222] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [223] Underfull \hbox (badness 10000) detected at line 229 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 290 [][][] [224] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 319 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [225] Underfull \hbox (badness 10000) detected at line 369 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] [226] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 470 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [227] Underfull \hbox (badness 10000) detected at line 489 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 528 [][][] Underfull \hbox (badness 10000) detected at line 531 [][][] [228] Underfull \hbox (badness 10000) detected at line 548 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] Underfull \hbox (badness 10000) detected at line 600 [][][] [229] Underfull \hbox (badness 10000) detected at line 612 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [230] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] ) (./group___vmgrid.tex [231] [232] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 135 [][][] [233] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 160 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] [234] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 264 [][][] [235] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 300 [][][] Underfull \hbox (badness 10000) detected at line 312 [][][] Underfull \hbox (badness 10000) detected at line 329 [][][] [236] Underfull \hbox (badness 10000) detected at line 341 [][][] ) (./group___vopot.tex [237] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [238] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 137 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 170 [][][] [239] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 214 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] Underfull \hbox (badness 10000) detected at line 243 [][][] [240] Underfull \hbox (badness 10000) detected at line 255 [][][] ) (./group___vpmg.tex [241] [242] [243] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] [244] Underfull \hbox (badness 10000) detected at line 186 [][][] [245] Underfull \hbox (badness 10000) detected at line 234 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.409 on input line 261. Underfull \hbox (badness 10000) detected at line 276 [][][] [246] Package longtable Warning: Column widths have changed (longtable) in table 7.410 on input line 309. Underfull \hbox (badness 10000) detected at line 324 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.411 on input line 347. [247] Underfull \hbox (badness 10000) detected at line 362 [][][] Underfull \hbox (badness 10000) detected at line 381 [][][] Underfull \hbox (badness 10000) detected at line 384 [][][] [248] Underfull \hbox (badness 10000) detected at line 416 [][][] Underfull \hbox (badness 10000) detected at line 419 [][][] Underfull \hbox (badness 10000) detected at line 422 [][][] [249] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] [250] Underfull \hbox (badness 10000) detected at line 520 [][][] Underfull \hbox (badness 10000) detected at line 546 [][][] [251] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 610 [][][] [252] Underfull \hbox (badness 10000) detected at line 643 [][][] Underfull \hbox (badness 10000) detected at line 646 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] Underfull \hbox (badness 10000) detected at line 690 [][][] Underfull \hbox (badness 10000) detected at line 712 [][][] [253] Underfull \hbox (badness 10000) detected at line 715 [][][] Underfull \hbox (badness 10000) detected at line 718 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 764 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] [254] Underfull \hbox (badness 10000) detected at line 799 [][][] Underfull \hbox (badness 10000) detected at line 802 [][][] [255] Underfull \hbox (badness 10000) detected at line 856 [][][] Underfull \hbox (badness 10000) detected at line 859 [][][] Underfull \hbox (badness 10000) detected at line 864 [][][] [256] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 920 [][][] Underfull \hbox (badness 10000) detected at line 923 [][][] Underfull \hbox (badness 10000) detected at line 928 [][][] [257] Underfull \hbox (badness 10000) detected at line 956 [][][] Underfull \hbox (badness 10000) detected at line 982 [][][] [258] Underfull \hbox (badness 10000) detected at line 1008 [][][] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1055 [][][] [259] Underfull \hbox (badness 10000) detected at line 1093 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] Underfull \hbox (badness 10000) detected at line 1099 [][][] [260] Underfull \hbox (badness 10000) detected at line 1123 [][][] Underfull \hbox (badness 10000) detected at line 1160 [][][] Underfull \hbox (badness 10000) detected at line 1163 [][][] Underfull \hbox (badness 10000) detected at line 1166 [][][] [261] Underfull \hbox (badness 10000) detected at line 1190 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1198 [][][] Underfull \hbox (badness 10000) detected at line 1226 [][][] [262] Underfull \hbox (badness 10000) detected at line 1252 [][][] Underfull \hbox (badness 10000) detected at line 1280 [][][] Underfull \hbox (badness 10000) detected at line 1283 [][][] [263] Underfull \hbox (badness 10000) detected at line 1303 [][][] Underfull \hbox (badness 10000) detected at line 1343 [][][] Underfull \hbox (badness 10000) detected at line 1346 [][][] Underfull \hbox (badness 10000) detected at line 1349 [][][] [264] Underfull \hbox (badness 10000) detected at line 1373 [][][] Underfull \hbox (badness 10000) detected at line 1401 [][][] Underfull \hbox (badness 10000) detected at line 1404 [][][] [265] Underfull \hbox (badness 10000) detected at line 1426 [][][] Underfull \hbox (badness 10000) detected at line 1429 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] ) (./group___vpmgp.tex [266] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] [267] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 130 [][][] Underfull \hbox (badness 10000) detected at line 152 [][][] [268] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] ) (./group___p_m_g_c.tex [269] [270] [271] [272] [273] Underfull \hbox (badness 10000) detected at line 155 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 170--170 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [274] Underfull \hbox (badness 10000) detected at line 217 [][][] Underfull \hbox (badness 10000) detected at line 220 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 232--232 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [275] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 313 [][][] Underfull \hbox (badness 10000) detected at line 316 [][][] [276] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [277] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 400 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 409--409 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 444 [][][] [278] Package longtable Warning: Column widths have changed (longtable) in table 7.456 on input line 493. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] [279] Overfull \hbox (304.08286pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 561 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 573--573 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [280] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 611 [][][] [281] Underfull \hbox (badness 10000) detected at line 651 [][][] Underfull \hbox (badness 10000) detected at line 654 [][][] [282] Underfull \hbox (badness 10000) detected at line 724 [][][] Underfull \hbox (badness 10000) detected at line 727 [][][] [283] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 780 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 793--793 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [284] Underfull \hbox (badness 10000) detected at line 830 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 842--842 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Package longtable Warning: Column widths have changed (longtable) in table 7.460 on input line 897. [285] [286] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 915 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.461 on input line 1040. [287] [288] [289] Underfull \hbox (badness 10000) detected at line 1055 [][][] Underfull \hbox (badness 10000) detected at line 1058 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.462 on input line 1219. [290] [291] [292] Underfull \hbox (badness 10000) detected at line 1234 [][][] Underfull \hbox (badness 10000) detected at line 1237 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.463 on input line 1372. [293] [294] Underfull \hbox (badness 10000) detected at line 1387 [][][] Underfull \hbox (badness 10000) detected at line 1390 [][][] Underfull \hbox (badness 10000) detected at line 1393 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.464 on input line 1436. [295] Underfull \hbox (badness 10000) detected at line 1451 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1467--1467 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [296] Underfull \hbox (badness 10000) detected at line 1504 [][][] Underfull \hbox (badness 10000) detected at line 1507 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.465 on input line 1572. [297] Underfull \hbox (badness 10000) detected at line 1587 [][][] Underfull \hbox (badness 10000) detected at line 1590 [][][] Underfull \hbox (badness 10000) detected at line 1593 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1603--1603 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [298] Underfull \hbox (badness 10000) detected at line 1640 [][][] Underfull \hbox (badness 10000) detected at line 1643 [][][] Underfull \hbox (badness 10000) detected at line 1646 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1655--1655 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [299] Package longtable Warning: Column widths have changed (longtable) in table 7.466 on input line 1718. Underfull \hbox (badness 10000) detected at line 1733 [][][] Underfull \hbox (badness 10000) detected at line 1738 [][][] Underfull \hbox (badness 10000) detected at line 1741 [][][] [300] Underfull \hbox (badness 10000) detected at line 1771 [][][] Underfull \hbox (badness 10000) detected at line 1774 [][][] [301] Underfull \hbox (badness 10000) detected at line 1808 [][][] Underfull \hbox (badness 10000) detected at line 1811 [][][] Underfull \hbox (badness 10000) detected at line 1845 [][][] Underfull \hbox (badness 10000) detected at line 1848 [][][] [302] Underfull \hbox (badness 10000) detected at line 1882 [][][] Underfull \hbox (badness 10000) detected at line 1885 [][][] Underfull \hbox (badness 10000) detected at line 1888 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1898--1898 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [303] Underfull \hbox (badness 10000) detected at line 1935 [][][] Underfull \hbox (badness 10000) detected at line 1938 [][][] Underfull \hbox (badness 10000) detected at line 1941 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1950--1950 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [304] Package longtable Warning: Column widths have changed (longtable) in table 7.471 on input line 2021. Underfull \hbox (badness 10000) detected at line 2036 [][][] Underfull \hbox (badness 10000) detected at line 2039 [][][] [305] Underfull \hbox (badness 10000) detected at line 2073 [][][] Underfull \hbox (badness 10000) detected at line 2076 [][][] Underfull \hbox (badness 10000) detected at line 2079 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2089--2089 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [306] Underfull \hbox (badness 10000) detected at line 2126 [][][] Underfull \hbox (badness 10000) detected at line 2129 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2138--2138 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 2173 [][][] Underfull \hbox (badness 10000) detected at line 2176 [][][] [307] Underfull \hbox (badness 10000) detected at line 2208 [][][] Underfull \hbox (badness 10000) detected at line 2211 [][][] [308] Underfull \hbox (badness 10000) detected at line 2247 [][][] Underfull \hbox (badness 10000) detected at line 2250 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.475 on input line 2271. Underfull \hbox (badness 10000) detected at line 2286 [][][] Underfull \hbox (badness 10000) detected at line 2289 [][][] [309] Underfull \hbox (badness 10000) detected at line 2317 [][][] Underfull \hbox (badness 10000) detected at line 2320 [][][] Underfull \hbox (badness 10000) detected at line 2323 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2333--2333 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [310] Underfull \hbox (badness 10000) detected at line 2370 [][][] Underfull \hbox (badness 10000) detected at line 2373 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2382--2382 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [311] Underfull \hbox (badness 10000) detected at line 2417 [][][] Underfull \hbox (badness 10000) detected at line 2420 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.477 on input line 2491. [312] Underfull \hbox (badness 10000) detected at line 2506 [][][] Underfull \hbox (badness 10000) detected at line 2509 [][][] Underfull \hbox (badness 10000) detected at line 2512 [][][] [313] Underfull \hbox (badness 10000) detected at line 2560 [][][] Underfull \hbox (badness 10000) detected at line 2563 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2572--2572 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [314] Underfull \hbox (badness 10000) detected at line 2607 [][][] Underfull \hbox (badness 10000) detected at line 2610 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.478 on input line 2685. [315] Underfull \hbox (badness 10000) detected at line 2700 [][][] Underfull \hbox (badness 10000) detected at line 2703 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.479 on input line 2734. [316] Underfull \hbox (badness 10000) detected at line 2749 [][][] Underfull \hbox (badness 10000) detected at line 2752 [][][] Underfull \hbox (badness 10000) detected at line 2755 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2765--2765 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [317] Underfull \hbox (badness 10000) detected at line 2802 [][][] Underfull \hbox (badness 10000) detected at line 2805 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2814--2814 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [318] Underfull \hbox (badness 10000) detected at line 2849 [][][] Underfull \hbox (badness 10000) detected at line 2852 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.480 on input line 2893. [319] Underfull \hbox (badness 10000) detected at line 2908 [][][] Underfull \hbox (badness 10000) detected at line 2911 [][][] [320] Underfull \hbox (badness 10000) detected at line 2949 [][][] Underfull \hbox (badness 10000) detected at line 2960 [][][] Underfull \hbox (badness 10000) detected at line 2963 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.482 on input line 3034. [321] Underfull \hbox (badness 10000) detected at line 3049 [][][] Underfull \hbox (badness 10000) detected at line 3052 [][][] Underfull \hbox (badness 10000) detected at line 3055 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [322] Underfull \hbox (badness 10000) detected at line 3102 [][][] Underfull \hbox (badness 10000) detected at line 3105 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3114--3114 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [323] Underfull \hbox (badness 10000) detected at line 3149 [][][] Underfull \hbox (badness 10000) detected at line 3152 [][][] Underfull \hbox (badness 10000) detected at line 3190 [][][] [324] Underfull \hbox (badness 10000) detected at line 3193 [][][] Underfull \hbox (badness 10000) detected at line 3196 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3206--3206 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3243 [][][] Underfull \hbox (badness 10000) detected at line 3246 [][][] Underfull \hbox (badness 10000) detected at line 3249 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3258--3258 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [325] Underfull \hbox (badness 10000) detected at line 3291 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.484 on input line 3330. [326] Underfull \hbox (badness 10000) detected at line 3345 [][][] [327] Package longtable Warning: Column widths have changed (longtable) in table 7.485 on input line 3427. [328] [329] Underfull \hbox (badness 10000) detected at line 3501 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.486 on input line 3544. [330] Underfull \hbox (badness 10000) detected at line 3559 [][][] Underfull \hbox (badness 10000) detected at line 3562 [][][] [331] Underfull \hbox (badness 10000) detected at line 3602 [][][] Underfull \hbox (badness 10000) detected at line 3605 [][][] Underfull \hbox (badness 10000) detected at line 3608 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3618--3618 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [332] Underfull \hbox (badness 10000) detected at line 3655 [][][] Underfull \hbox (badness 10000) detected at line 3658 [][][] Underfull \hbox (badness 10000) detected at line 3661 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3670--3670 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [333] Underfull \hbox (badness 10000) detected at line 3719 [][][] Underfull \hbox (badness 10000) detected at line 3722 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.488 on input line 3791. [334] Underfull \hbox (badness 10000) detected at line 3806 [][][] Underfull \hbox (badness 10000) detected at line 3809 [][][] [335] Package longtable Warning: Column widths have changed (longtable) in table 7.489 on input line 3892. Underfull \hbox (badness 10000) detected at line 3907 [][][] [336] Underfull \hbox (badness 10000) detected at line 3910 [][][] Underfull \hbox (badness 10000) detected at line 3913 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3923--3923 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3960 [][][] Underfull \hbox (badness 10000) detected at line 3963 [][][] [337] Underfull \hbox (badness 10000) detected at line 3989 [][][] Underfull \hbox (badness 10000) detected at line 3992 [][][] Underfull \hbox (badness 10000) detected at line 4018 [][][] Underfull \hbox (badness 10000) detected at line 4021 [][][] [338] Underfull \hbox (badness 10000) detected at line 4051 [][][] Underfull \hbox (badness 10000) detected at line 4054 [][][] Underfull \hbox (badness 10000) detected at line 4057 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4067--4067 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [339] Underfull \hbox (badness 10000) detected at line 4104 [][][] Underfull \hbox (badness 10000) detected at line 4107 [][][] Underfull \hbox (badness 10000) detected at line 4110 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4119--4119 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [340] Underfull \hbox (badness 10000) detected at line 4154 [][][] Underfull \hbox (badness 10000) detected at line 4157 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.493 on input line 4196. [341] Underfull \hbox (badness 10000) detected at line 4211 [][][] Underfull \hbox (badness 10000) detected at line 4239 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.494 on input line 4298. [342] [343] Underfull \hbox (badness 10000) detected at line 4313 [][][] Underfull \hbox (badness 10000) detected at line 4316 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.495 on input line 4391. [344] Underfull \hbox (badness 10000) detected at line 4406 [][][] Underfull \hbox (badness 10000) detected at line 4409 [][][] [345] Underfull \hbox (badness 10000) detected at line 4449 [][][] Underfull \hbox (badness 10000) detected at line 4452 [][][] [346] Underfull \hbox (badness 10000) detected at line 4494 [][][] Underfull \hbox (badness 10000) detected at line 4497 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.498 on input line 4540. [347] Underfull \hbox (badness 10000) detected at line 4555 [][][] Underfull \hbox (badness 10000) detected at line 4558 [][][] Underfull \hbox (badness 10000) detected at line 4561 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4571--4571 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [348] Underfull \hbox (badness 10000) detected at line 4608 [][][] Underfull \hbox (badness 10000) detected at line 4611 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4620--4620 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4653 [][][] Underfull \hbox (badness 10000) detected at line 4656 [][][] Underfull \hbox (badness 10000) detected at line 4659 [][][] [349] Package longtable Warning: Column widths have changed (longtable) in table 7.499 on input line 4704. Underfull \hbox (badness 10000) detected at line 4715 [][][] Underfull \hbox (badness 10000) detected at line 4718 [][][] [350] Underfull \hbox (badness 10000) detected at line 4750 [][][] Underfull \hbox (badness 10000) detected at line 4753 [][][] [351] Underfull \hbox (badness 10000) detected at line 4791 [][][] Underfull \hbox (badness 10000) detected at line 4794 [][][] Underfull \hbox (badness 10000) detected at line 4797 [][][] Overfull \hbox (20.88268pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute,[] Underfull \hbox (badness 10000) detected at line 4845 [][][] [352] Underfull \hbox (badness 10000) detected at line 4848 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4892 [][][] Underfull \hbox (badness 10000) detected at line 4895 [][][] Package longtable Warning: Column widths have changed (longtable) in table 7.502 on input line 4938. [353] Underfull \hbox (badness 10000) detected at line 4953 [][][] Underfull \hbox (badness 10000) detected at line 4956 [][][] [354] Underfull \hbox (badness 10000) detected at line 4988 [][][] Underfull \hbox (badness 10000) detected at line 4991 [][][] Underfull \hbox (badness 10000) detected at line 4994 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 5004--5004 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 5041 [][][] Underfull \hbox (badness 10000) detected at line 5044 [][][] Underfull \hbox (badness 10000) detected at line 5047 [][][] [355] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 5056--5056 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 5091 [][][] Underfull \hbox (badness 10000) detected at line 5094 [][][] [356] Underfull \hbox (badness 10000) detected at line 5124 [][][] Underfull \hbox (badness 10000) detected at line 5127 [][][] Underfull \hbox (badness 10000) detected at line 5130 [][][] Underfull \hbox (badness 10000) detected at line 5160 [][][] Underfull \hbox (badness 10000) detected at line 5163 [][][] [357] Underfull \hbox (badness 10000) detected at line 5193 [][][] Underfull \hbox (badness 10000) detected at line 5196 [][][] Underfull \hbox (badness 10000) detected at line 5226 [][][] Underfull \hbox (badness 10000) detected at line 5229 [][][] [358] Underfull \hbox (badness 10000) detected at line 5257 [][][] Underfull \hbox (badness 10000) detected at line 5260 [][][] Underfull \hbox (badness 10000) detected at line 5288 [][][] Underfull \hbox (badness 10000) detected at line 5291 [][][] [359]) (./group___frontend.tex Underfull \hbox (badness 2495) in paragraph at lines 32--33 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Overfull \hbox (16.65858pt too wide) in paragraph at lines 40--41 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 42--43 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], [360] Underfull \hbox (badness 1910) in paragraph at lines 60--61 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 60--61 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 5817) in paragraph at lines 78--79 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 80--81 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [361] [362] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] [363] Underfull \hbox (badness 10000) detected at line 211 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] [364] Underfull \hbox (badness 10000) detected at line 275 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] [365] Underfull \hbox (badness 10000) detected at line 314 [][][] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 351 [][][] [366] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 393 [][][] [367] Underfull \hbox (badness 10000) detected at line 495 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [368] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] [369] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] [370] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 720 [][][] [371] Underfull \hbox (badness 10000) detected at line 748 [][][] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 792 [][][] [372] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 842 [][][] Underfull \hbox (badness 10000) detected at line 866 [][][] Underfull \hbox (badness 10000) detected at line 876 [][][] [373] Underfull \hbox (badness 10000) detected at line 895 [][][] Underfull \hbox (badness 10000) detected at line 909 [][][] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] Underfull \hbox (badness 10000) detected at line 939 [][][] [374] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 961 [][][] Underfull \hbox (badness 10000) detected at line 981 [][][] Underfull \hbox (badness 10000) detected at line 984 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] Underfull \hbox (badness 10000) detected at line 1013 [][][] [375] Underfull \hbox (badness 10000) detected at line 1035 [][][] Underfull \hbox (badness 10000) detected at line 1045 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1067 [][][] [376] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1105 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] Underfull \hbox (badness 10000) in paragraph at lines 1135--1136 Underfull \hbox (badness 10000) detected at line 1138 [][][] [377] Underfull \hbox (badness 10000) detected at line 1166 [][][] Underfull \hbox (badness 10000) detected at line 1180 [][][] Underfull \hbox (badness 10000) detected at line 1201 [][][] Underfull \hbox (badness 10000) detected at line 1204 [][][] [378] Underfull \hbox (badness 10000) detected at line 1228 [][][] Underfull \hbox (badness 10000) detected at line 1231 [][][] Underfull \hbox (badness 10000) detected at line 1259 [][][] Underfull \hbox (badness 10000) detected at line 1262 [][][] [379] Underfull \hbox (badness 10000) detected at line 1288 [][][] Underfull \hbox (badness 10000) detected at line 1291 [][][] Underfull \hbox (badness 10000) detected at line 1319 [][][] Underfull \hbox (badness 10000) detected at line 1322 [][][] [380] Underfull \hbox (badness 10000) detected at line 1348 [][][] Underfull \hbox (badness 10000) detected at line 1377 [][][] Underfull \hbox (badness 10000) detected at line 1380 [][][] [381] Underfull \hbox (badness 10000) detected at line 1408 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1468 [][][] [382] Underfull \hbox (badness 10000) detected at line 1485 [][][] Underfull \hbox (badness 10000) detected at line 1497 [][][] Underfull \hbox (badness 10000) detected at line 1514 [][][] Underfull \hbox (badness 10000) detected at line 1528 [][][] [383] Underfull \hbox (badness 10000) detected at line 1562 [][][] Underfull \hbox (badness 10000) detected at line 1574 [][][] Underfull \hbox (badness 10000) detected at line 1591 [][][] Underfull \hbox (badness 10000) detected at line 1608 [][][] [384] Underfull \hbox (badness 10000) detected at line 1636 [][][] Underfull \hbox (badness 10000) detected at line 1650 [][][] [385] Underfull \hbox (badness 10000) detected at line 1688 [][][] Underfull \hbox (badness 10000) detected at line 1716 [][][] Underfull \hbox (badness 10000) detected at line 1733 [][][] [386] Underfull \hbox (badness 10000) detected at line 1747 [][][] Underfull \hbox (badness 10000) detected at line 1764 [][][] Underfull \hbox (badness 10000) detected at line 1792 [][][] [387] Underfull \hbox (badness 10000) detected at line 1809 [][][] Underfull \hbox (badness 10000) detected at line 1823 [][][] ) [388] Chapter 8. (./struct_atom_force.tex Underfull \hbox (badness 10000) detected at line 32 [][][] [389]) (./structs_a_p_o_lparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/apolparm.[] [390] Underfull \hbox (badness 10000) detected at line 88 [][][] [391] Underfull \hbox (badness 10000) detected at line 224 [][][] [392] Underfull \hbox (badness 10000) detected at line 237 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 263 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] Underfull \hbox (badness 10000) detected at line 289 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] [393] Underfull \hbox (badness 10000) detected at line 315 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 354 [][][] Underfull \hbox (badness 10000) detected at line 367 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [394]) (./structs_b_e_mparm.tex [395] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/bemparm.[] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [396] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 155 [][][] [397] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] ) (./structs_f_e_mparm.tex Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/femparm.[] [398] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) in paragraph at lines 84--85 [399] [400] [401]) (./structs_g_e_o_f_l_o_wparm.tex Overfull \hbox (42.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/geoflowparm.[] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [402]) (./structs_m_gparm.tex [403] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] [404] Underfull \hbox (badness 10000) in paragraph at lines 149--150 Underfull \hbox (badness 10000) in paragraph at lines 180--181 [405] Underfull \hbox (badness 10000) in paragraph at lines 261--262 [406] [407] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 460 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [408] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] [409] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [410] Underfull \hbox (badness 10000) detected at line 642 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] ) (./structs_n_osh.tex [411] Underfull \hbox (badness 10000) detected at line 108 [][][] [412] [413] [414] [415] [416] [417]) (./structs_n_osh__calc.tex Underfull \hbox (badness 10000) detected at line 38 [][][] [418]) (./structs_p_b_a_mparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbamparm.[] [419] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] [420] [421] [422] [423]) (./structs_p_b_eparm.tex [424] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbeparm.[] [425] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] [426] [427] [428] Underfull \hbox (badness 10000) detected at line 391 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Underfull \hbox (badness 10000) detected at line 430 [][][] [429] Underfull \hbox (badness 10000) detected at line 473 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] [430] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] [431] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [432] [433]) (./structs_p_b_s_a_mparm.tex Overfull \hbox (30.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbsamparm.[] [434] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [435]) (./structs_vacc.tex [436] Underfull \hbox (badness 10000) detected at line 36 [][][] [437]) (./structs_vacc_surf.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [438]) (./structs_valist.tex [439] Underfull \hbox (badness 10000) detected at line 36 [][][] [440]) (./structs_vatom.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [441] Underfull \hbox (badness 10000) in paragraph at lines 62--63 Underfull \hbox (badness 10000) in paragraph at lines 93--94 Underfull \hbox (badness 10000) in paragraph at lines 114--115 ) (./structs_vclist.tex [442] Underfull \hbox (badness 10000) detected at line 40 [][][] [443]) (./structs_vclist_cell.tex [444] Underfull \hbox (badness 10000) detected at line 24 [][][] ) (./structs_vcsm.tex Underfull \hbox (badness 10000) detected at line 42 [][][] [445] [446]) (./structs_vfetk.tex Underfull \hbox (badness 10000) detected at line 60 [][][] [447] Underfull \hbox (badness 10000) in paragraph at lines 116--117 [448] [449]) (./structs_vfetk___local_var.tex [450] Underfull \hbox (badness 10000) detected at line 86 [][][] [451] [452] [453]) (./structs_vgreen.tex [454] Underfull \hbox (badness 10000) detected at line 34 [][][] [455]) (./structs_vgrid.tex Underfull \hbox (badness 10000) detected at line 52 [][][] [456] [457]) (./structs_vmgrid.tex Underfull \hbox (badness 10000) detected at line 24 [][][] [458]) (./structs_vopot.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [459]) (./structs_vparam___atom_data.tex Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [460]) (./structs_vpbe.tex [461] Underfull \hbox (badness 10000) detected at line 86 [][][] [462] [463] [464]) (./structs_vpee.tex [465] Underfull \hbox (badness 10000) detected at line 34 [][][] [466]) (./structs_vpmg.tex [467] Underfull \hbox (badness 10000) detected at line 116 [][][] [468] [469] [470] [471] [472]) (./structs_vpmgp.tex [473] [474] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) in paragraph at lines 164--165 Underfull \hbox (badness 10000) in paragraph at lines 175--176 Underfull \hbox (badness 10000) in paragraph at lines 186--187 [475] Underfull \hbox (badness 10000) in paragraph at lines 234--235 [476] [477] [478] [479] Underfull \hbox (badness 10000) in paragraph at lines 506--507 [480] Underfull \hbox (badness 10000) in paragraph at lines 527--528 Underfull \hbox (badness 10000) in paragraph at lines 548--549 Underfull \hbox (badness 10000) in paragraph at lines 589--590 [481] Underfull \hbox (badness 10000) in paragraph at lines 630--631 Underfull \hbox (badness 10000) in paragraph at lines 671--672 [482]) (./struct_vparam.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [483]) (./struct_vparam___res_data.tex Underfull \hbox (badness 10000) detected at line 28 [][][] [484]) [485] [486] Chapter 9. (./mainpage_8h_source.tex) (./apbs_8h.tex <./apbs_8h__incl.pdf> <./apbs_8h__dep __incl.pdf> [487] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] [488]) (./apbs_8h_source.tex) (./vcsm_8c.tex [489] <./vcsm_8c__incl.pdf> [490] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [491]) (./vcsm_8c_source.tex [492] [493] [494] [495] [496] [497]) (./vcsm_8h.tex <./vcsm_8h__incl.pdf> <./vcsm_8h__dep__incl.pdf> [498] [499] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 81 [][][] [500]) (./vcsm_8h_source.tex [501]) (./vfetk_8c.tex [502] <./vfetk_8c__incl.pdf > [503] [504] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 165 [][][] [505] Underfull \hbox (badness 10000) detected at line 168 [][][] [506] [507] [508] [509]) (./vfetk_8c_source.tex [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539]) (./vfetk_8h.tex [540] <./vfetk_8h__incl.pdf> <./vfetk_8h__dep__inc l.pdf> [541] [542] [543] Underfull \hbox (badness 10000) detected at line 187 [][][] [544] Underfull \hbox (badness 10000) detected at line 190 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] ) (./vfetk_8h_source.tex [545] [546] [547] [548] [549] [550]) (./vpee_8c.tex <. /vpee_8c__incl.pdf> [551] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [552]) (./vpee_8c_source.tex [553] [554] [555] [556] [557] [558]) (./vpee_8h.tex <./vpee_8h__incl.pdf> [559] <./vpee_8h__dep__incl.pdf> [560] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] [561]) (./vpee_8h_source.tex [562]) (./apolparm_8c.tex <./apolparm_8c__incl.pdf > [563] Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [564] [565]) (./apolparm_8c_source.tex [566] [567] [568] [569] [570] [571] [572] [573]) (./apolparm_8h_source.tex [574]) (./bemparm_8c.tex <./bemparm_8c__ incl.pdf> [575] [576] Underfull \hbox (badness 10000) detected at line 48 [][][] Underfull \hbox (badness 10000) detected at line 51 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] [577] Underfull \hbox (badness 10000) detected at line 120 [][][] ) (./bemparm_8c_source.tex [578] [579] [580] [581]) (./bemparm_8h_source.tex [582]) (./femparm_8c.tex <./femparm_8c__incl.pdf> [583] [584] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] Underfull \hbox (badness 10000) detected at line 64 [][][] [585] [586]) (./femparm_8c_source.tex [587] [588] [589] [590] [591]) (./femparm_8h.tex <./femparm_8h__incl.pdf> [592] <./femparm_8h__dep__incl.pdf> [593] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [594] Underfull \hbox (badness 10000) detected at line 93 [][][] ) (./femparm_8h_source.tex [595]) (./geoflowparm_8c.tex <./geoflowparm_8c__incl .pdf> [596] [597] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] [598]) (./geoflowparm_8c_source.tex [599] [600]) (./geoflowparm_8h.tex <./geofl owparm_8h__incl.pdf> [601] <./geoflowparm_8h__dep__incl.pdf> [602] [603] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [604]) (./geoflowparm_8h_source.tex [605]) (./mgparm_8c.tex <./mgparm_8c__incl. pdf> [606] [607] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] [608] [609]) (./mgparm_8c_source.tex [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621]) (./mgparm_8h.tex <./mgparm_8h__incl.pdf> [622] <./mgparm_8h__dep__incl.pdf> [623] [624] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 108 [][][] [625]) (./mgparm_8h_source.tex [626]) (./nosh_8c.tex <./nosh_8c__incl.pdf> [627] [628] [629] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] [630] [631] [632] [633] [634]) (./nosh_8c_source.tex [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] [666] [667] [668] [669] [670] [671] [672] [673] [674]) (./nosh_8h.tex <./nosh_8h__incl.pdf> [675] <./nosh_8h__dep__incl.pdf> [676] [677] [678] Underfull \hbox (badness 10000) detected at line 169 [][][] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] ) (./nosh_8h_source.tex [679] [680] [681]) (./pbamparm_8c.tex <./pbamparm_8c__i ncl.pdf> [682] [683] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] [684]) (./pbamparm_8c_source.tex [685] [686] [687] [688] [689] [690] [691] [692] [693]) (./pbamparm_8h.tex <./pbamparm_8h__incl.pdf> <./pbamparm_8h__dep__ incl.pdf> [694] [695] Underfull \hbox (badness 10000) detected at line 100 [][][] [696] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [697]) (./pbamparm_8h_source.tex [698]) (./pbeparm_8c.tex [699] <./pbeparm_8c__ incl.pdf> [700] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [701] [702] [703] [704] [705]) (./pbeparm_8c_source.tex [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720]) (./pbeparm_8h.tex <./pbeparm_8h__incl.pdf> [721] <./pbeparm_8h__dep__incl.pdf> [722] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [723]) (./pbeparm_8h_source.tex [724] [725]) (./pbsamparm_8c.tex <./pbsamparm_8 c__incl.pdf> [726] [727] Underfull \hbox (badness 10000) detected at line 48 [][][] Underfull \hbox (badness 10000) detected at line 51 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] [728]) (./pbsamparm_8c_source.tex [729] [730]) (./pbsamparm_8h.tex [731] <./pbs amparm_8h__incl.pdf> <./pbsamparm_8h__dep__incl.pdf> [732] [733] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [734]) (./pbsamparm_8h_source.tex [735]) (./vacc_8c.tex <./vacc_8c__incl.pdf> [736] [737] [738] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] Underfull \hbox (badness 10000) detected at line 112 [][][] [739] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] [740] [741]) (./vacc_8c_source.tex [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764]) (./vacc_8h.tex <./vacc_8h__incl.pdf> <./vacc_8h__dep__ incl.pdf> [765] [766] [767] Underfull \hbox (badness 10000) detected at line 121 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 127 [][][] [768]) (./vacc_8h_source.tex [769] [770] [771]) (./valist_8c.tex <./valist_8c__ incl.pdf> [772] [773] Underfull \hbox (badness 2293) in paragraph at lines 53--55 []\T1/phv/m/n/10 VPRIVATE Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/ m/n/10 thee, Vio $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 sock, int $\OMS/cmsy/m/n/ 10 ^^C$\T1/phv/m/n/10 serial, char atom[] Underfull \hbox (badness 10000) detected at line 81 [][][] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] [774] [775] [776]) (./valist_8c_source.tex [777] [778] [779] [780] [781] [782] [783] [784] [785] [786]) (./valist_8h.tex [787] <./valist_8h__incl.pdf> < ./valist_8h__dep__incl.pdf> [788] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 81 [][][] [789]) (./valist_8h_source.tex [790] [791]) (./vatom_8c.tex <./vatom_8c__incl.p df> [792] Underfull \hbox (badness 10000) detected at line 70 [][][] Underfull \hbox (badness 10000) detected at line 73 [][][] Underfull \hbox (badness 10000) detected at line 76 [][][] [793]) (./vatom_8c_source.tex [794] [795] [796]) (./vatom_8h.tex <./vatom_8h__i ncl.pdf> [797] <./vatom_8h__dep__incl.pdf> [798] [799] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] ) (./vatom_8h_source.tex [800] [801]) (./vcap_8c.tex <./vcap_8c__incl.pdf> [802] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] Underfull \hbox (badness 10000) detected at line 36 [][][] [803]) (./vcap_8c_source.tex [804]) (./vcap_8h.tex <./vcap_8h__incl.pdf> <./vca p_8h__dep__incl.pdf> [805] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 48 [][][] [806] Underfull \hbox (badness 10000) detected at line 51 [][][] ) (./vcap_8h_source.tex [807]) (./vclist_8c.tex <./vclist_8c__incl.pdf> Underfull \hbox (badness 4060) in paragraph at lines 31--33 []\T1/phv/m/n/10 VPRIVATE void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 thee , dou-ble lower[]_[]corner[][][], dou-ble upper[]_[] [808] Underfull \hbox (badness 1297) in paragraph at lines 43--44 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m /n/10 thee, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 alist, dou-ble max[]_[]radi us, int npts[][][], Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [809] [810]) (./vclist_8c_source.tex [811] [812] [813] [814] [815]) (./vclist_8h.tex [816] <./vclist_8h__incl.pdf> <./vclist_8h__dep__incl.pdf> [817] [818] Underfull \hbox (badness 10000) detected at line 82 [][][] Underfull \hbox (badness 10000) detected at line 85 [][][] Underfull \hbox (badness 10000) detected at line 88 [][][] [819]) (./vclist_8h_source.tex [820]) (./vgreen_8c.tex <./vgreen_8c__incl.pdf> [821] [822] Underfull \hbox (badness 10000) detected at line 54 [][][] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [823]) (./vgreen_8c_source.tex [824] [825] [826] [827] [828] [829]) (./vgreen_8h.tex <./vgreen_8h__incl.pdf> [830] <./vgreen_8h__dep__incl.pdf> [831] Underfull \hbox (badness 10000) detected at line 70 [][][] Underfull \hbox (badness 10000) detected at line 73 [][][] ) (./vgreen_8h_source.tex [832]) (./vhal_8h.tex [833] <./vhal_8h__incl.pdf> <./ vhal_8h__dep__incl.pdf> [834] [835] [836] [837] Underfull \hbox (badness 10000) detected at line 301 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 316--316 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [838] [839] [840] [841] [842] [843] [844]) (./vhal_8h_source.tex [845] [846] [847] [848] [849] [850] [851] [852]) (./vmatrix_8h.tex <./vmatrix_8h__dep__incl .pdf> [853] Underfull \hbox (badness 10000) detected at line 35 [][][] Underfull \hbox (badness 10000) detected at line 38 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] [854] [855]) (./vmatrix_8h_source.tex [856]) (./vparam_8c.tex <./vparam_8c__inc l.pdf> [857] Underfull \hbox (badness 10000) detected at line 77 [][][] [858] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] ) (./vparam_8c_source.tex [859] [860] [861] [862] [863] [864] [865] [866]) (./vparam_8h.tex [867] <./vparam_8h__incl.pdf> <./vparam_8h__dep__incl.pdf> [868] [869] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] [870]) (./vparam_8h_source.tex [871]) (./vpbe_8c.tex <./vpbe_8c__incl.pdf> [872] [873] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] Underfull \hbox (badness 10000) detected at line 95 [][][] [874]) (./vpbe_8c_source.tex [875] [876] [877] [878] [879] [880]) (./vpbe_8h.tex <./vpbe_8h__incl.pdf> [881] <./vpbe_8h__dep__incl.pdf> [882] [883] Underfull \hbox (badness 10000) detected at line 109 [][][] Underfull \hbox (badness 10000) detected at line 112 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] [884]) (./vpbe_8h_source.tex [885] [886]) (./vstring_8c.tex <./vstring_8c__incl .pdf> [887] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] Underfull \hbox (badness 10000) detected at line 36 [][][] [888]) (./vstring_8c_source.tex [889] [890]) (./vstring_8h.tex <./vstring_8h__i ncl.pdf> [891] <./vstring_8h__dep__incl.pdf> Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] [892] Underfull \hbox (badness 10000) detected at line 45 [][][] ) (./vstring_8h_source.tex [893]) (./vunit_8h.tex <./vunit_8h__dep__incl.pdf> [894] LaTeX Warning: Command \r invalid in math mode on input line 41. Missing character: There is no Å in font cmr9! Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] Underfull \hbox (badness 10000) detected at line 57 [][][] [895]) (./vunit_8h_source.tex) (./main_8c.tex <./main_8c__incl.pdf> [896] Underfull \hbox (badness 10000) detected at line 27 [][][] Underfull \hbox (badness 10000) detected at line 40 [][][] Underfull \hbox (badness 10000) detected at line 43 [][][] [897]) (./main_8c_source.tex [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908]) (./vgrid_8c.tex <./vgrid_8c__incl.pdf> [909] [910] Underfull \hbox (badness 10000) detected at line 83 [][][] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] [911] Underfull \hbox (badness 10000) detected at line 173 [][][] [912]) (./vgrid_8c_source.tex [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935]) (./vgrid_8h.tex <./vgrid_8h__incl.pdf> [936] <./vgrid_ 8h__dep__incl.pdf> [937] [938] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] [939] Underfull \hbox (badness 10000) detected at line 163 [][][] ) (./vgrid_8h_source.tex [940] [941]) (./vmgrid_8c.tex <./vmgrid_8c__incl.pdf> [942] [943] Underfull \hbox (badness 10000) detected at line 40 [][][] Underfull \hbox (badness 10000) detected at line 43 [][][] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] Overfull \hbox (1024.08331pt too wide) in paragraph at lines 58--58 []\T1/pcr/m/n/8 * Copyright (c) 2010, Pacific Northwest National Laboratory. Portions Copyright (c) 2002-2020, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2020, T he Regents of the University of California. Portions Copyright (c) 1995, Michae l Holst.[] ) (./vmgrid_8c_source.tex [944] [945] [946]) (./vmgrid_8h.tex <./vmgrid_8h__inc l.pdf> <./vmgrid_8h__dep__incl.pdf> [947] [948] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [949]) (./vmgrid_8h_source.tex) (./vopot_8c.tex [950] <./vopot_8c__incl.pdf> Underfull \hbox (badness 10000) detected at line 43 [][][] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] [951]) (./vopot_8c_source.tex [952] [953] [954] [955] [956]) (./vopot_8h.tex <. /vopot_8h__incl.pdf> <./vopot_8h__dep__incl.pdf> [957] [958] Underfull \hbox (badness 10000) detected at line 63 [][][] Underfull \hbox (badness 10000) detected at line 66 [][][] Underfull \hbox (badness 10000) detected at line 69 [][][] ) (./vopot_8h_source.tex [959]) (./vpmg_8c.tex <./vpmg_8c__incl.pdf> [960] [961] [962] [963] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] Underfull \hbox (badness 10000) detected at line 178 [][][] [964] Underfull \hbox (badness 10000) detected at line 260 [][][] [965] Underfull \hbox (badness 10000) detected at line 287 [][][] [966] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 386 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.7 on input line 393. Underfull \hbox (badness 10000) detected at line 408 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.8 on input line 418. [967] Underfull \hbox (badness 10000) detected at line 433 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.9 on input line 443. Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.10 on input line 468. Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] [968] Package longtable Warning: Column widths have changed (longtable) in table 9.11 on input line 493. Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.12 on input line 518. Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 553 [][][] Underfull \hbox (badness 10000) detected at line 556 [][][] [969] Underfull \hbox (badness 10000) detected at line 573 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 641 [][][] [970] Underfull \hbox (badness 10000) detected at line 658 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 696 [][][] Underfull \hbox (badness 10000) detected at line 699 [][][] Underfull \hbox (badness 10000) detected at line 716 [][][] [971] Underfull \hbox (badness 10000) detected at line 733 [][][] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] Underfull \hbox (badness 10000) detected at line 794 [][][] [972] Underfull \hbox (badness 10000) detected at line 831 [][][] [973] Underfull \hbox (badness 10000) detected at line 875 [][][] [974] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 947 [][][] [975] Underfull \hbox (badness 10000) detected at line 969 [][][] Underfull \hbox (badness 10000) detected at line 991 [][][] Underfull \hbox (badness 10000) detected at line 994 [][][] Underfull \hbox (badness 10000) detected at line 1011 [][][] Underfull \hbox (badness 10000) detected at line 1014 [][][] Underfull \hbox (badness 10000) detected at line 1036 [][][] Underfull \hbox (badness 10000) detected at line 1039 [][][] [976] Underfull \hbox (badness 10000) detected at line 1061 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] [977] Underfull \hbox (badness 10000) detected at line 1113 [][][] Underfull \hbox (badness 10000) detected at line 1145 [][][] Underfull \hbox (badness 10000) detected at line 1148 [][][] ) (./vpmg_8c_source.tex [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113]) (./vpmg_8h.tex <./vpmg_8h__incl.pdf> [1114] <./vpmg_8h__dep__incl.pdf> [1115] [1116] [1117] [1118] [1119] Underfull \hbox (badness 10000) detected at line 233 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] [1120] [1121] Underfull \hbox (badness 10000) detected at line 439 [][][] [1122] Underfull \hbox (badness 10000) detected at line 456 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [1123] Underfull \hbox (badness 10000) detected at line 505 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.24 on input line 512. Underfull \hbox (badness 10000) detected at line 527 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.25 on input line 537. Underfull \hbox (badness 10000) detected at line 552 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.26 on input line 562. Underfull \hbox (badness 10000) detected at line 577 [][][] [1124] Underfull \hbox (badness 10000) detected at line 580 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.27 on input line 587. Underfull \hbox (badness 10000) detected at line 602 [][][] Underfull \hbox (badness 10000) detected at line 605 [][][] Package longtable Warning: Column widths have changed (longtable) in table 9.28 on input line 612. Underfull \hbox (badness 10000) detected at line 627 [][][] Underfull \hbox (badness 10000) detected at line 630 [][][] [1125] Package longtable Warning: Column widths have changed (longtable) in table 9.29 on input line 637. Underfull \hbox (badness 10000) detected at line 652 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 709 [][][] [1126] Underfull \hbox (badness 10000) detected at line 726 [][][] Underfull \hbox (badness 10000) detected at line 743 [][][] Underfull \hbox (badness 10000) detected at line 760 [][][] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 794 [][][] [1127] Underfull \hbox (badness 10000) detected at line 815 [][][] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 835 [][][] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 869 [][][] [1128] Underfull \hbox (badness 10000) detected at line 886 [][][] Underfull \hbox (badness 10000) detected at line 903 [][][] Underfull \hbox (badness 10000) detected at line 916 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] [1129] Underfull \hbox (badness 10000) detected at line 946 [][][] Underfull \hbox (badness 10000) detected at line 990 [][][] [1130] Underfull \hbox (badness 10000) detected at line 1020 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] [1131] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1131 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] [1132] Underfull \hbox (badness 10000) detected at line 1156 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1191 [][][] Underfull \hbox (badness 10000) detected at line 1208 [][][] [1133] Underfull \hbox (badness 10000) detected at line 1240 [][][] Underfull \hbox (badness 10000) detected at line 1243 [][][] ) (./vpmg_8h_source.tex [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142]) (./vpmgp_8c.tex <./vpmgp_8c__incl.pdf> [1143] Underfull \hbox (badness 10000) detected at line 38 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [1144]) (./vpmgp_8c_source.tex [1145] [1146] [1147]) (./vpmgp_8h.tex [1148] <./ vpmgp_8h__incl.pdf> <./vpmgp_8h__dep__incl.pdf> [1149] [1150] Underfull \hbox (badness 10000) detected at line 56 [][][] Underfull \hbox (badness 10000) detected at line 59 [][][] Underfull \hbox (badness 10000) detected at line 62 [][][] Underfull \hbox (badness 10000) detected at line 65 [][][] [1151]) (./vpmgp_8h_source.tex [1152]) (./build_ad_8c_source.tex [1153] [1154] [1155]) (./build_ad_8h_source.tex [1156]) (./build_bd_8c_source.tex [1157] [1158] [1159] [1160]) (./build_bd_8h_source.tex [1161]) (./build_gd_8c_source.tex [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199]) (./build_gd_8h_source.tex [1200] [1201]) (./build_pd_8c_source.tex [1202] [1203] [1204] [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220]) (./build_pd_8h_source.tex [1221] [1222] [1223]) (./cgd_8c_source.tex) (./cgd_8h_source.tex [1224]) (./gsd_8c_source.tex [1225] [1226] [1227] [1228]) (./gsd_8h_source.tex [1229]) (./matvecd_8c_source.tex [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242]) (./matvecd_8h_source.tex [1243] [1244] [1245] [1246] [1247] [1248]) (./mgcsd_8c_source.tex [1249] [1250] [1251] [1252] [1253] [1254]) (./mgcsd_8h_source.tex [1255]) (./mgdrvd_8c_source.tex [1256] [1257] [1258] [1259] [1260] [1261] [1262]) (./mgdrvd_8h_source.tex [1263] [1264]) (./mgfasd_8c_source.tex [1265] [1266] [1267] [1268] [1269] [1270]) (./mgfasd_8h_source.tex [1271] [1272]) (./mgsubd_8c_source.tex [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283]) (./mgsubd_8h_source.tex [1284] [1285] [1286] [1287]) (./mikpckd_8c_source.tex [1288] [1289] [1290] [1291]) (./mikpckd_8h_source.tex [1292] [1293] [1294]) (./mlinpckd_8c_source.tex [1295] [1296]) (./mlinpckd_8h_source.tex) (./mypdec_8c_source.tex [1297] [1298] [1299] [1300] [1301] [1302] [1303]) (./mypdec_8h_source.tex [1304]) (./newdrvd_8c_source.tex [1305] [1306] [1307] [1308]) (./newdrvd_8h_source.tex [1309]) (./newtond_8c_source.tex [1310] [1311] [1312] [1313] [1314] [1315] [1316]) (./newtond_8h_source.tex [1317]) (./powerd_8c_source.tex [1318] [1319] [1320] [1321] [1322]) (./powerd_8h_source.tex [1323]) (./smoothd_8c_source.tex [1324]) (./smoothd_8h_source.tex [1325]) (./routines_8c.tex <./routines_8c__incl.pdf> [1326] Underfull \hbox (badness 776) in paragraph at lines 47--48 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv /m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[] Underfull \hbox (badness 2856) in paragraph at lines 47--48 \T1/phv/m/n/10 YMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]ZMap[] [][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 kappa[]Map[][][], [] Underfull \hbox (badness 1237) in paragraph at lines 47--48 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 905) in paragraph at lines 61--62 []\T1/phv/m/n/10 VPUBLIC void [] (Vmem $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 mem , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy /m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 5817) in paragraph at lines 67--68 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 69--70 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1327] Underfull \hbox (badness 1442) in paragraph at lines 81--82 []\T1/phv/m/n/10 VPUBLIC int [] (Vcom $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 com, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy/ m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 931) in paragraph at lines 87--88 []\T1/phv/m/n/10 VPUBLIC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T 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(./routines_8h.tex <./routine s_8h__incl.pdf> <./routines_8h__dep__incl.pdf> [1398] Overfull \hbox (16.65858pt too wide) in paragraph at lines 50--51 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 52--53 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Underfull \hbox (badness 1910) in paragraph at lines 70--71 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 70--71 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 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Rerun LaTeX. (./refman.aux) LaTeX Warning: There were multiply-defined labels. Package rerunfilecheck Warning: File `refman.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information)< /usr/share/texlive/texmf-dist/fonts/type1/urw/courier/ucrro8a.pfb> Output written on refman.pdf (1515 pages, 6340406 bytes). Transcript written on refman.log. Package longtable Warning: Table widths have changed. Rerun LaTeX. Rerunning latex.... 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LaTeX Warning: Label `group___vhal_ga068e237d419d537df01fc0fad01e24e8' multiply defined. ) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (./refman.out) (./refman.out) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texlive/texmf-dist/tex/latex/wasysym/uwasy.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}{/usr/share/texlive/texmf-dist/fonts/enc/dvips /base/8r.enc}] [2] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] (./index.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1phv.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [1] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [2]) (./bug.tex [3] [4] Chapter 2. 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Underfull \hbox (badness 10000) in paragraph at lines 5--9 ) [9] [10] Chapter 4. (./topics.tex) [11] [12] Chapter 5. (./annotated.tex [13]) [14] Chapter 6. (./files.tex [15] [16] [17]) [18] Chapter 7. 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1813 [][][] Underfull \hbox (badness 10000) detected at line 1816 [][][] Underfull \hbox (badness 10000) detected at line 1819 [][][] Underfull \hbox (badness 10000) detected at line 1841 [][][] [54] Underfull \hbox (badness 10000) detected at line 1867 [][][] Underfull \hbox (badness 10000) detected at line 1887 [][][] Underfull \hbox (badness 10000) detected at line 1892 [][][] ) (./group___vpee.tex [55] Underfull \hbox (badness 849) in paragraph at lines 45--46 \T1/phv/m/n/10 Holst par-al-lel re-fine-ment rou-tine es-sen-tially re-duces th e er-ror out-side the \T1/pcr/m/n/10 local" partition to zero. Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 However, this leads to the need for a few final overlapping Schw arz solves to Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 smooth out the errors near partition boundaries. Supposedly, if the region in Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 which we allow error-based refinement includes the$\OML/cmm/m/it /10 <$\T1/pcr/m/n/10 /tt$\OML/cmm/m/it/10 >$\T1/pcr/m/n/10 local" partition and an Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 external buffer zone approximately equal in size to the local re gion, then the Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 solution will asymptotically approach the solution obtained via more typical Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 methods. This is essentially a more flexible parallel implementa tion of MC\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s [56] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [57] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 171 [][][] [58] Underfull \hbox (badness 10000) detected at line 195 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] [59] Underfull \hbox (badness 10000) detected at line 241 [][][] Underfull \hbox (badness 10000) detected at line 244 [][][] ) (./group___a_p_o_lparm.tex [60] [61] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] [62] Underfull \hbox (badness 10000) detected at line 253 [][][] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 280 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] [63] Underfull \hbox (badness 10000) detected at line 322 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] ) (./group___b_e_mparm.tex [64] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] [65] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 133 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] [66] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] Underfull \hbox (badness 10000) detected at line 224 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] [67] Underfull \hbox (badness 10000) detected at line 258 [][][] ) (./group___f_e_mparm.tex [68] Underfull \hbox (badness 10000) detected at line 127 [][][] [69] Underfull \hbox (badness 10000) detected at line 171 [][][] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [70] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 255 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [71] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 331 [][][] Underfull \hbox (badness 10000) detected at line 348 [][][] Underfull \hbox (badness 10000) detected at line 370 [][][] ) (./group___g_e_o_f_l_o_wparm.tex [72] [73] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] [74] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] [75] Underfull \hbox (badness 10000) detected at line 225 [][][] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] ) (./group___m_gparm.tex [76] [77] [78] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 233 [][][] [79] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 262 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [80] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 336 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [81] Underfull \hbox (badness 10000) detected at line 402 [][][] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Underfull \hbox (badness 10000) detected at line 457 [][][] [82] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 482 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 524 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] [83] Underfull \hbox (badness 10000) detected at line 549 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 599 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] [84] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] Underfull \hbox (badness 10000) detected at line 661 [][][] Underfull \hbox (badness 10000) detected at line 678 [][][] [85] Underfull \hbox (badness 10000) detected at line 702 [][][] Underfull \hbox (badness 10000) detected at line 726 [][][] ) (./group___n_osh.tex [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) detected at line 447 [][][] [91] Underfull \hbox (badness 10000) detected at line 457 [][][] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 498 [][][] Underfull \hbox (badness 10000) detected at line 506 [][][] Underfull \hbox (badness 10000) detected at line 523 [][][] [92] Underfull \hbox (badness 10000) detected at line 545 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 584 [][][] [93] Underfull \hbox (badness 10000) detected at line 601 [][][] Underfull \hbox (badness 10000) detected at line 623 [][][] Underfull \hbox (badness 10000) detected at line 645 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] [94] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 685 [][][] Underfull \hbox (badness 10000) detected at line 688 [][][] Underfull \hbox (badness 10000) detected at line 705 [][][] Underfull \hbox (badness 10000) detected at line 715 [][][] [95] Underfull \hbox (badness 10000) detected at line 732 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 759 [][][] Underfull \hbox (badness 10000) detected at line 769 [][][] Underfull \hbox (badness 10000) detected at line 786 [][][] [96] Underfull \hbox (badness 10000) detected at line 796 [][][] Underfull \hbox (badness 10000) detected at line 813 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 840 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] [97] Underfull \hbox (badness 10000) detected at line 867 [][][] Underfull \hbox (badness 10000) detected at line 877 [][][] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 904 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] [98] Underfull \hbox (badness 10000) detected at line 931 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 985 [][][] [99] Underfull \hbox (badness 10000) detected at line 1002 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1029 [][][] Underfull \hbox (badness 10000) detected at line 1032 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] [100] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1074 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1094 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] [101] Underfull \hbox (badness 10000) detected at line 1126 [][][] Underfull \hbox (badness 10000) detected at line 1129 [][][] Underfull \hbox (badness 10000) detected at line 1139 [][][] Underfull \hbox (badness 10000) detected at line 1142 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1162 [][][] Underfull \hbox (badness 10000) detected at line 1174 [][][] Underfull \hbox (badness 10000) detected at line 1177 [][][] [102] Underfull \hbox (badness 10000) detected at line 1194 [][][] Underfull \hbox (badness 10000) detected at line 1197 [][][] Underfull \hbox (badness 10000) detected at line 1207 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1227 [][][] Underfull \hbox (badness 10000) detected at line 1230 [][][] Underfull \hbox (badness 10000) detected at line 1240 [][][] [103] Underfull \hbox (badness 10000) detected at line 1264 [][][] Underfull \hbox (badness 10000) detected at line 1267 [][][] Underfull \hbox (badness 10000) detected at line 1277 [][][] ) (./group___p_b_a_mparm.tex [104] [105] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] [106] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 197 [][][] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 229 [][][] [107] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 256 [][][] Underfull \hbox (badness 10000) detected at line 273 [][][] Underfull \hbox (badness 10000) detected at line 295 [][][] [108] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [109] Underfull \hbox (badness 10000) detected at line 389 [][][] Underfull \hbox (badness 10000) detected at line 413 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] [110] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 485 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] [111] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 581 [][][] Underfull \hbox (badness 10000) detected at line 593 [][][] [112] Underfull \hbox (badness 10000) detected at line 610 [][][] Underfull \hbox (badness 10000) detected at line 634 [][][] ) (./group___p_b_eparm.tex [113] [114] [115] Underfull \hbox (badness 10000) detected at line 209 [][][] Underfull \hbox (badness 10000) detected at line 212 [][][] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] Underfull \hbox (badness 10000) detected at line 261 [][][] [116] Underfull \hbox (badness 10000) detected at line 278 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 325 [][][] [117] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] [118] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 431 [][][] ) (./group___p_b_s_a_mparm.tex [119] [120] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] [121] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 205 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 240 [][][] [122] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 301 [][][] [123] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] [124] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 426 [][][] ) (./group___vacc.tex [125] [126] [127] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [128] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 242 [][][] [129] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 283 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] Underfull \hbox (badness 10000) detected at line 308 [][][] [130] Underfull \hbox (badness 10000) detected at line 334 [][][] Underfull \hbox (badness 10000) detected at line 337 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [131] Underfull \hbox (badness 10000) detected at line 387 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] Underfull \hbox (badness 10000) detected at line 414 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] [132] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 472 [][][] Underfull \hbox (badness 10000) detected at line 475 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] [133] Underfull \hbox (badness 10000) detected at line 502 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 562 [][][] [134] Underfull \hbox (badness 10000) detected at line 565 [][][] Underfull \hbox (badness 10000) detected at line 595 [][][] Underfull \hbox (badness 10000) detected at line 598 [][][] [135] Underfull \hbox (badness 10000) detected at line 628 [][][] Underfull \hbox (badness 10000) detected at line 660 [][][] [136] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 724 [][][] [137] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 790 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] [138] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 855 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] Underfull \hbox (badness 10000) detected at line 882 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] Underfull \hbox (badness 10000) detected at line 888 [][][] [139] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] Underfull \hbox (badness 10000) detected at line 941 [][][] Underfull \hbox (badness 10000) detected at line 944 [][][] [140] Underfull \hbox (badness 10000) detected at line 972 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1007 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] [141] Underfull \hbox (badness 10000) detected at line 1040 [][][] Underfull \hbox (badness 10000) detected at line 1043 [][][] Underfull \hbox (badness 10000) detected at line 1069 [][][] Underfull \hbox (badness 10000) detected at line 1072 [][][] [142] Underfull \hbox (badness 10000) detected at line 1100 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Underfull \hbox (badness 10000) detected at line 1152 [][][] [143]) (./group___valist.tex [144] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [145] Underfull \hbox (badness 10000) detected at line 136 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 183 [][][] [146] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 260 [][][] [147] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 310 [][][] Underfull \hbox (badness 10000) detected at line 332 [][][] Underfull \hbox (badness 10000) detected at line 335 [][][] [148] Underfull \hbox (badness 10000) detected at line 352 [][][] Underfull \hbox (badness 10000) detected at line 355 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] [149] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 415 [][][] Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] ) (./group___vatom.tex [150] [151] Underfull \hbox (badness 10000) detected at line 97 [][][] [152] Underfull \hbox (badness 10000) detected at line 134 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] [153] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 227 [][][] Underfull \hbox (badness 10000) detected at line 249 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] [154] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 320 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 345 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] [155] Underfull \hbox (badness 10000) detected at line 370 [][][] Underfull \hbox (badness 10000) detected at line 378 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] Underfull \hbox (badness 10000) detected at line 428 [][][] [156] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 469 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 494 [][][] [157] Underfull \hbox (badness 10000) detected at line 518 [][][] Underfull \hbox (badness 10000) detected at line 542 [][][] Underfull \hbox (badness 10000) detected at line 566 [][][] [158] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 614 [][][] Underfull \hbox (badness 10000) detected at line 638 [][][] [159] Underfull \hbox (badness 10000) detected at line 662 [][][] ) (./group___vcap.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [160] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [161] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] ) (./group___vclist.tex [162] [163] Underfull \hbox (badness 10000) detected at line 126 [][][] [164] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] Underfull \hbox (badness 10000) detected at line 191 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] [165] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 275 [][][] [166] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [167] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 423 [][][] [168]) (./group___vgreen.tex [169] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [170] Underfull \hbox (badness 10000) detected at line 141 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] [171] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] [172] Underfull \hbox (badness 10000) detected at line 215 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] [173] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 334 [][][] [174] Underfull \hbox (badness 10000) detected at line 351 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] [175] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 429 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] [176] Underfull \hbox (badness 10000) detected at line 471 [][][] Underfull \hbox (badness 10000) detected at line 476 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] Underfull \hbox (badness 10000) detected at line 517 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] ) (./group___vhal.tex [177] [178] [179] [180] [181] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 421 [][][] Underfull \hbox (badness 10000) detected at line 438 [][][] Underfull \hbox (badness 10000) detected at line 455 [][][] [182] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Underfull \hbox (badness 10000) detected at line 526 [][][] Underfull \hbox (badness 10000) detected at line 567 [][][] [183] [184] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 819 [][][] [185] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] [186] Underfull \hbox (badness 10000) detected at line 932 [][][] Missing character: There is no Å in font cmr10! Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 58. Missing character: There is no Å in font cmr10! [187] [188] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1112 [][][] Underfull \hbox (badness 10000) detected at line 1140 [][][] Underfull \hbox (badness 10000) detected at line 1143 [][][] [189] Underfull \hbox (badness 10000) detected at line 1160 [][][] ) (./group___vmatrix.tex) (./group___vparam.tex [190] [191] [192] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] Underfull \hbox (badness 10000) detected at line 206 [][][] [193] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 274 [][][] Underfull \hbox (badness 10000) detected at line 282 [][][] [194] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 343 [][][] Underfull \hbox (badness 10000) detected at line 346 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] [195] Underfull \hbox (badness 10000) detected at line 371 [][][] Underfull \hbox (badness 10000) detected at line 388 [][][] Underfull \hbox (badness 10000) detected at line 410 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] [196] Underfull \hbox (badness 10000) detected at line 444 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 467 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 480 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] [197] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [198] Underfull \hbox (badness 10000) detected at line 571 [][][] Underfull \hbox (badness 10000) detected at line 587 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 628 [][][] [199] Underfull \hbox (badness 10000) detected at line 636 [][][] Underfull \hbox (badness 10000) detected at line 653 [][][] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 680 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] [200]) (./group___vpbe.tex [201] [202] [203] Underfull \hbox (badness 10000) detected at line 128 [][][] Underfull \hbox (badness 10000) detected at line 131 [][][] LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 136 [][][] [204] Underfull \hbox (badness 10000) detected at line 186 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 195 [][][] [205] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 291 [][][] [206] Underfull \hbox (badness 10000) detected at line 299 [][][] Overfull \hbox (151.96916pt too wide) in paragraph at lines 318--318 [] \T1/p cr/m/n/8 permittivity equal to the protein interior) and zero ionic[] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 333 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 358 [][][] Underfull \hbox (badness 10000) detected at line 375 [][][] [207] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 396 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] [208] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 478 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] [209] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 550 [][][] Underfull \hbox (badness 10000) detected at line 558 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] [210] Underfull \hbox (badness 10000) detected at line 600 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 633 [][][] Underfull \hbox (badness 10000) detected at line 650 [][][] Underfull \hbox (badness 10000) detected at line 658 [][][] [211] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 683 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 708 [][][] Underfull \hbox (badness 10000) detected at line 725 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] [212] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 775 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Underfull \hbox (badness 10000) detected at line 800 [][][] Underfull \hbox (badness 10000) detected at line 808 [][][] [213] Underfull \hbox (badness 10000) detected at line 825 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] LaTeX Warning: Command \r invalid in math mode on input line 859. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 883 [][][] [214] Underfull \hbox (badness 10000) detected at line 900 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] ) (./group___vstring.tex [215] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [216] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] ) (./group___vunit.tex [217] LaTeX Warning: Command \r invalid in math mode on input line 39. Missing character: There is no Å in font cmr9! [218] LaTeX Warning: Command \r invalid in math mode on input line 142. Missing character: There is no Å in font cmr10! [219]) (./group___vgrid.tex [220] [221] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 151 [][][] [222] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [223] Underfull \hbox (badness 10000) detected at line 229 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 290 [][][] [224] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 319 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [225] Underfull \hbox (badness 10000) detected at line 369 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] [226] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 470 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [227] Underfull \hbox (badness 10000) detected at line 489 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 528 [][][] Underfull \hbox (badness 10000) detected at line 531 [][][] [228] Underfull \hbox (badness 10000) detected at line 548 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] Underfull \hbox (badness 10000) detected at line 600 [][][] [229] Underfull \hbox (badness 10000) detected at line 612 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [230] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] ) (./group___vmgrid.tex [231] [232] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 135 [][][] [233] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 160 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] [234] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 264 [][][] [235] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 300 [][][] Underfull \hbox (badness 10000) detected at line 312 [][][] Underfull \hbox (badness 10000) detected at line 329 [][][] [236] Underfull \hbox (badness 10000) detected at line 341 [][][] ) (./group___vopot.tex [237] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [238] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 137 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 170 [][][] [239] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 214 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] Underfull \hbox (badness 10000) detected at line 243 [][][] [240] Underfull \hbox (badness 10000) detected at line 255 [][][] ) (./group___vpmg.tex [241] [242] [243] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] [244] Underfull \hbox (badness 10000) detected at line 186 [][][] [245] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] [246] Underfull \hbox (badness 10000) detected at line 324 [][][] [247] Underfull \hbox (badness 10000) detected at line 362 [][][] Underfull \hbox (badness 10000) detected at line 381 [][][] Underfull \hbox (badness 10000) detected at line 384 [][][] [248] Underfull \hbox (badness 10000) detected at line 416 [][][] Underfull \hbox (badness 10000) detected at line 419 [][][] Underfull \hbox (badness 10000) detected at line 422 [][][] [249] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] [250] Underfull \hbox (badness 10000) detected at line 520 [][][] Underfull \hbox (badness 10000) detected at line 546 [][][] [251] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 610 [][][] [252] Underfull \hbox (badness 10000) detected at line 643 [][][] Underfull \hbox (badness 10000) detected at line 646 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] Underfull \hbox (badness 10000) detected at line 690 [][][] Underfull \hbox (badness 10000) detected at line 712 [][][] [253] Underfull \hbox (badness 10000) detected at line 715 [][][] Underfull \hbox (badness 10000) detected at line 718 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 764 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] [254] Underfull \hbox (badness 10000) detected at line 799 [][][] Underfull \hbox (badness 10000) detected at line 802 [][][] [255] Underfull \hbox (badness 10000) detected at line 856 [][][] Underfull \hbox (badness 10000) detected at line 859 [][][] Underfull \hbox (badness 10000) detected at line 864 [][][] [256] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 920 [][][] Underfull \hbox (badness 10000) detected at line 923 [][][] Underfull \hbox (badness 10000) detected at line 928 [][][] [257] Underfull \hbox (badness 10000) detected at line 956 [][][] Underfull \hbox (badness 10000) detected at line 982 [][][] [258] Underfull \hbox (badness 10000) detected at line 1008 [][][] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1055 [][][] [259] Underfull \hbox (badness 10000) detected at line 1093 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] Underfull \hbox (badness 10000) detected at line 1099 [][][] [260] Underfull \hbox (badness 10000) detected at line 1123 [][][] Underfull \hbox (badness 10000) detected at line 1160 [][][] Underfull \hbox (badness 10000) detected at line 1163 [][][] Underfull \hbox (badness 10000) detected at line 1166 [][][] [261] Underfull \hbox (badness 10000) detected at line 1190 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1198 [][][] Underfull \hbox (badness 10000) detected at line 1226 [][][] [262] Underfull \hbox (badness 10000) detected at line 1252 [][][] Underfull \hbox (badness 10000) detected at line 1280 [][][] Underfull \hbox (badness 10000) detected at line 1283 [][][] [263] Underfull \hbox (badness 10000) detected at line 1303 [][][] Underfull \hbox (badness 10000) detected at line 1343 [][][] Underfull \hbox (badness 10000) detected at line 1346 [][][] Underfull \hbox (badness 10000) detected at line 1349 [][][] [264] Underfull \hbox (badness 10000) detected at line 1373 [][][] Underfull \hbox (badness 10000) detected at line 1401 [][][] Underfull \hbox (badness 10000) detected at line 1404 [][][] [265] Underfull \hbox (badness 10000) detected at line 1426 [][][] Underfull \hbox (badness 10000) detected at line 1429 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] ) (./group___vpmgp.tex [266] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] [267] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 130 [][][] Underfull \hbox (badness 10000) detected at line 152 [][][] [268] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] ) (./group___p_m_g_c.tex [269] [270] [271] [272] [273] Underfull \hbox (badness 10000) detected at line 155 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 170--170 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [274] Underfull \hbox (badness 10000) detected at line 217 [][][] Underfull \hbox (badness 10000) detected at line 220 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 232--232 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [275] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 313 [][][] Underfull \hbox (badness 10000) detected at line 316 [][][] [276] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [277] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 400 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 409--409 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 444 [][][] [278] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] [279] Overfull \hbox (304.08286pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 561 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 573--573 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [280] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 611 [][][] [281] Underfull \hbox (badness 10000) detected at line 651 [][][] Underfull \hbox (badness 10000) detected at line 654 [][][] [282] Underfull \hbox (badness 10000) detected at line 724 [][][] Underfull \hbox (badness 10000) detected at line 727 [][][] [283] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 780 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 793--793 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [284] Underfull \hbox (badness 10000) detected at line 830 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 842--842 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [285] [286] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 915 [][][] [287] [288] [289] Underfull \hbox (badness 10000) detected at line 1055 [][][] Underfull \hbox (badness 10000) detected at line 1058 [][][] [290] [291] [292] Underfull \hbox (badness 10000) detected at line 1234 [][][] Underfull \hbox (badness 10000) detected at line 1237 [][][] [293] [294] Underfull \hbox (badness 10000) detected at line 1387 [][][] Underfull \hbox (badness 10000) detected at line 1390 [][][] Underfull \hbox (badness 10000) detected at line 1393 [][][] [295] Underfull \hbox (badness 10000) detected at line 1451 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1467--1467 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [296] Underfull \hbox (badness 10000) detected at line 1504 [][][] Underfull \hbox (badness 10000) detected at line 1507 [][][] [297] Underfull \hbox (badness 10000) detected at line 1587 [][][] Underfull \hbox (badness 10000) detected at line 1590 [][][] Underfull \hbox (badness 10000) detected at line 1593 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1603--1603 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [298] Underfull \hbox (badness 10000) detected at line 1640 [][][] Underfull \hbox (badness 10000) detected at line 1643 [][][] Underfull \hbox (badness 10000) detected at line 1646 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1655--1655 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [299] Underfull \hbox (badness 10000) detected at line 1733 [][][] Underfull \hbox (badness 10000) detected at line 1738 [][][] Underfull \hbox (badness 10000) detected at line 1741 [][][] [300] Underfull \hbox (badness 10000) detected at line 1771 [][][] Underfull \hbox (badness 10000) detected at line 1774 [][][] [301] Underfull \hbox (badness 10000) detected at line 1808 [][][] Underfull \hbox (badness 10000) detected at line 1811 [][][] Underfull \hbox (badness 10000) detected at line 1845 [][][] Underfull \hbox (badness 10000) detected at line 1848 [][][] [302] Underfull \hbox (badness 10000) detected at line 1882 [][][] Underfull \hbox (badness 10000) detected at line 1885 [][][] Underfull \hbox (badness 10000) detected at line 1888 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1898--1898 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [303] Underfull \hbox (badness 10000) detected at line 1935 [][][] Underfull \hbox (badness 10000) detected at line 1938 [][][] Underfull \hbox (badness 10000) detected at line 1941 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1950--1950 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [304] Underfull \hbox (badness 10000) detected at line 2036 [][][] Underfull \hbox (badness 10000) detected at line 2039 [][][] [305] Underfull \hbox (badness 10000) detected at line 2073 [][][] Underfull \hbox (badness 10000) detected at line 2076 [][][] Underfull \hbox (badness 10000) detected at line 2079 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2089--2089 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [306] Underfull \hbox (badness 10000) detected at line 2126 [][][] Underfull \hbox (badness 10000) detected at line 2129 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2138--2138 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 2173 [][][] Underfull \hbox (badness 10000) detected at line 2176 [][][] [307] Underfull \hbox (badness 10000) detected at line 2208 [][][] Underfull \hbox (badness 10000) detected at line 2211 [][][] [308] Underfull \hbox (badness 10000) detected at line 2247 [][][] Underfull \hbox (badness 10000) detected at line 2250 [][][] Underfull \hbox (badness 10000) detected at line 2286 [][][] Underfull \hbox (badness 10000) detected at line 2289 [][][] [309] Underfull \hbox (badness 10000) detected at line 2317 [][][] Underfull \hbox (badness 10000) detected at line 2320 [][][] Underfull \hbox (badness 10000) detected at line 2323 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2333--2333 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [310] Underfull \hbox (badness 10000) detected at line 2370 [][][] Underfull \hbox (badness 10000) detected at line 2373 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2382--2382 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [311] Underfull \hbox (badness 10000) detected at line 2417 [][][] Underfull \hbox (badness 10000) detected at line 2420 [][][] [312] Underfull \hbox (badness 10000) detected at line 2506 [][][] Underfull \hbox (badness 10000) detected at line 2509 [][][] Underfull \hbox (badness 10000) detected at line 2512 [][][] [313] Underfull \hbox (badness 10000) detected at line 2560 [][][] Underfull \hbox (badness 10000) detected at line 2563 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2572--2572 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [314] Underfull \hbox (badness 10000) detected at line 2607 [][][] Underfull \hbox (badness 10000) detected at line 2610 [][][] [315] Underfull \hbox (badness 10000) detected at line 2700 [][][] Underfull \hbox (badness 10000) detected at line 2703 [][][] [316] Underfull \hbox (badness 10000) detected at line 2749 [][][] Underfull \hbox (badness 10000) detected at line 2752 [][][] Underfull \hbox (badness 10000) detected at line 2755 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2765--2765 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [317] Underfull \hbox (badness 10000) detected at line 2802 [][][] Underfull \hbox (badness 10000) detected at line 2805 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2814--2814 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [318] Underfull \hbox (badness 10000) detected at line 2849 [][][] Underfull \hbox (badness 10000) detected at line 2852 [][][] [319] Underfull \hbox (badness 10000) detected at line 2908 [][][] Underfull \hbox (badness 10000) detected at line 2911 [][][] [320] Underfull \hbox (badness 10000) detected at line 2949 [][][] Underfull \hbox (badness 10000) detected at line 2960 [][][] Underfull \hbox (badness 10000) detected at line 2963 [][][] [321] Underfull \hbox (badness 10000) detected at line 3049 [][][] Underfull \hbox (badness 10000) detected at line 3052 [][][] Underfull \hbox (badness 10000) detected at line 3055 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [322] Underfull \hbox (badness 10000) detected at line 3102 [][][] Underfull \hbox (badness 10000) detected at line 3105 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3114--3114 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [323] Underfull \hbox (badness 10000) detected at line 3149 [][][] Underfull \hbox (badness 10000) detected at line 3152 [][][] Underfull \hbox (badness 10000) detected at line 3190 [][][] [324] Underfull \hbox (badness 10000) detected at line 3193 [][][] Underfull \hbox (badness 10000) detected at line 3196 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3206--3206 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3243 [][][] Underfull \hbox (badness 10000) detected at line 3246 [][][] Underfull \hbox (badness 10000) detected at line 3249 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3258--3258 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [325] Underfull \hbox (badness 10000) detected at line 3291 [][][] [326] Underfull \hbox (badness 10000) detected at line 3345 [][][] [327] [328] [329] Underfull \hbox (badness 10000) detected at line 3501 [][][] [330] Underfull \hbox (badness 10000) detected at line 3559 [][][] Underfull \hbox (badness 10000) detected at line 3562 [][][] [331] Underfull \hbox (badness 10000) detected at line 3602 [][][] Underfull \hbox (badness 10000) detected at line 3605 [][][] Underfull \hbox (badness 10000) detected at line 3608 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3618--3618 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [332] Underfull \hbox (badness 10000) detected at line 3655 [][][] Underfull \hbox (badness 10000) detected at line 3658 [][][] Underfull \hbox (badness 10000) detected at line 3661 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3670--3670 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [333] Underfull \hbox (badness 10000) detected at line 3719 [][][] Underfull \hbox (badness 10000) detected at line 3722 [][][] [334] Underfull \hbox (badness 10000) detected at line 3806 [][][] Underfull \hbox (badness 10000) detected at line 3809 [][][] [335] Underfull \hbox (badness 10000) detected at line 3907 [][][] [336] Underfull \hbox (badness 10000) detected at line 3910 [][][] Underfull \hbox (badness 10000) detected at line 3913 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3923--3923 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3960 [][][] Underfull \hbox (badness 10000) detected at line 3963 [][][] [337] Underfull \hbox (badness 10000) detected at line 3989 [][][] Underfull \hbox (badness 10000) detected at line 3992 [][][] Underfull \hbox (badness 10000) detected at line 4018 [][][] Underfull \hbox (badness 10000) detected at line 4021 [][][] [338] Underfull \hbox (badness 10000) detected at line 4051 [][][] Underfull \hbox (badness 10000) detected at line 4054 [][][] Underfull \hbox (badness 10000) detected at line 4057 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4067--4067 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [339] Underfull \hbox (badness 10000) detected at line 4104 [][][] Underfull \hbox (badness 10000) detected at line 4107 [][][] Underfull \hbox (badness 10000) detected at line 4110 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4119--4119 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [340] Underfull \hbox (badness 10000) detected at line 4154 [][][] Underfull \hbox (badness 10000) detected at line 4157 [][][] [341] Underfull \hbox (badness 10000) detected at line 4211 [][][] Underfull \hbox (badness 10000) detected at line 4239 [][][] [342] [343] Underfull \hbox (badness 10000) detected at line 4313 [][][] Underfull \hbox (badness 10000) detected at line 4316 [][][] [344] Underfull \hbox (badness 10000) detected at line 4406 [][][] Underfull \hbox (badness 10000) detected at line 4409 [][][] [345] Underfull \hbox (badness 10000) detected at line 4449 [][][] Underfull \hbox (badness 10000) detected at line 4452 [][][] [346] Underfull \hbox (badness 10000) detected at line 4494 [][][] Underfull \hbox (badness 10000) detected at line 4497 [][][] [347] Underfull \hbox (badness 10000) detected at line 4555 [][][] Underfull \hbox (badness 10000) detected at line 4558 [][][] Underfull \hbox (badness 10000) detected at line 4561 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4571--4571 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [348] Underfull \hbox (badness 10000) detected at line 4608 [][][] Underfull \hbox (badness 10000) detected at line 4611 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4620--4620 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4653 [][][] Underfull \hbox (badness 10000) detected at line 4656 [][][] Underfull \hbox (badness 10000) detected at line 4659 [][][] [349] Underfull \hbox (badness 10000) detected at line 4715 [][][] Underfull \hbox (badness 10000) detected at line 4718 [][][] [350] Underfull \hbox (badness 10000) detected at line 4750 [][][] Underfull \hbox (badness 10000) detected at line 4753 [][][] [351] Underfull \hbox (badness 10000) detected at line 4791 [][][] Underfull \hbox (badness 10000) detected at line 4794 [][][] Underfull \hbox (badness 10000) detected at line 4797 [][][] Overfull \hbox (20.88268pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute,[] Underfull \hbox (badness 10000) detected at line 4845 [][][] [352] Underfull \hbox (badness 10000) detected at line 4848 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4892 [][][] Underfull \hbox (badness 10000) detected at line 4895 [][][] [353] Underfull \hbox (badness 10000) detected at line 4953 [][][] Underfull \hbox (badness 10000) detected at line 4956 [][][] [354] Underfull \hbox (badness 10000) detected at line 4988 [][][] Underfull \hbox (badness 10000) detected at line 4991 [][][] Underfull \hbox (badness 10000) detected at line 4994 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 5004--5004 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 5041 [][][] Underfull \hbox (badness 10000) detected at line 5044 [][][] Underfull \hbox (badness 10000) detected at line 5047 [][][] [355] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 5056--5056 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 5091 [][][] Underfull \hbox (badness 10000) detected at line 5094 [][][] [356] Underfull \hbox (badness 10000) detected at line 5124 [][][] Underfull \hbox (badness 10000) detected at line 5127 [][][] Underfull \hbox (badness 10000) detected at line 5130 [][][] Underfull \hbox (badness 10000) detected at line 5160 [][][] Underfull \hbox (badness 10000) detected at line 5163 [][][] [357] Underfull \hbox (badness 10000) detected at line 5193 [][][] Underfull \hbox (badness 10000) detected at line 5196 [][][] Underfull \hbox (badness 10000) detected at line 5226 [][][] Underfull \hbox (badness 10000) detected at line 5229 [][][] [358] Underfull \hbox (badness 10000) detected at line 5257 [][][] Underfull \hbox (badness 10000) detected at line 5260 [][][] Underfull \hbox (badness 10000) detected at line 5288 [][][] Underfull \hbox (badness 10000) detected at line 5291 [][][] [359]) (./group___frontend.tex Underfull \hbox (badness 2495) in paragraph at lines 32--33 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Overfull \hbox (16.65858pt too wide) in paragraph at lines 40--41 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 42--43 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], [360] Underfull \hbox (badness 1910) in paragraph at lines 60--61 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 60--61 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 5817) in paragraph at lines 78--79 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 80--81 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [361] [362] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] [363] Underfull \hbox (badness 10000) detected at line 211 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] [364] Underfull \hbox (badness 10000) detected at line 275 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] [365] Underfull \hbox (badness 10000) detected at line 314 [][][] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 351 [][][] [366] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 393 [][][] [367] Underfull \hbox (badness 10000) detected at line 495 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [368] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] [369] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] [370] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 720 [][][] [371] Underfull \hbox (badness 10000) detected at line 748 [][][] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 792 [][][] [372] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 842 [][][] Underfull \hbox (badness 10000) detected at line 866 [][][] Underfull \hbox (badness 10000) detected at line 876 [][][] [373] Underfull \hbox (badness 10000) detected at line 895 [][][] Underfull \hbox (badness 10000) detected at line 909 [][][] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] Underfull \hbox (badness 10000) detected at line 939 [][][] [374] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 961 [][][] Underfull \hbox (badness 10000) detected at line 981 [][][] Underfull \hbox (badness 10000) detected at line 984 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] Underfull \hbox (badness 10000) detected at line 1013 [][][] [375] Underfull \hbox (badness 10000) detected at line 1035 [][][] Underfull \hbox (badness 10000) detected at line 1045 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1067 [][][] [376] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1105 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] Underfull \hbox (badness 10000) in paragraph at lines 1135--1136 Underfull \hbox (badness 10000) detected at line 1138 [][][] [377] Underfull \hbox (badness 10000) detected at line 1166 [][][] Underfull \hbox (badness 10000) detected at line 1180 [][][] Underfull \hbox (badness 10000) detected at line 1201 [][][] Underfull \hbox (badness 10000) detected at line 1204 [][][] [378] Underfull \hbox (badness 10000) detected at line 1228 [][][] Underfull \hbox (badness 10000) detected at line 1231 [][][] Underfull \hbox (badness 10000) detected at line 1259 [][][] Underfull \hbox (badness 10000) detected at line 1262 [][][] [379] Underfull \hbox (badness 10000) detected at line 1288 [][][] Underfull \hbox (badness 10000) detected at line 1291 [][][] Underfull \hbox (badness 10000) detected at line 1319 [][][] Underfull \hbox (badness 10000) detected at line 1322 [][][] [380] Underfull \hbox (badness 10000) detected at line 1348 [][][] Underfull \hbox (badness 10000) detected at line 1377 [][][] Underfull \hbox (badness 10000) detected at line 1380 [][][] [381] Underfull \hbox (badness 10000) detected at line 1408 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1468 [][][] [382] Underfull \hbox (badness 10000) detected at line 1485 [][][] Underfull \hbox (badness 10000) detected at line 1497 [][][] Underfull \hbox (badness 10000) detected at line 1514 [][][] Underfull \hbox (badness 10000) detected at line 1528 [][][] [383] Underfull \hbox (badness 10000) detected at line 1562 [][][] Underfull \hbox (badness 10000) detected at line 1574 [][][] Underfull \hbox (badness 10000) detected at line 1591 [][][] Underfull \hbox (badness 10000) detected at line 1608 [][][] [384] Underfull \hbox (badness 10000) detected at line 1636 [][][] Underfull \hbox (badness 10000) detected at line 1650 [][][] [385] Underfull \hbox (badness 10000) detected at line 1688 [][][] Underfull \hbox (badness 10000) detected at line 1716 [][][] Underfull \hbox (badness 10000) detected at line 1733 [][][] [386] Underfull \hbox (badness 10000) detected at line 1747 [][][] Underfull \hbox (badness 10000) detected at line 1764 [][][] Underfull \hbox (badness 10000) detected at line 1792 [][][] [387] Underfull \hbox (badness 10000) detected at line 1809 [][][] Underfull \hbox (badness 10000) detected at line 1823 [][][] ) [388] Chapter 8. (./struct_atom_force.tex Underfull \hbox (badness 10000) detected at line 32 [][][] [389]) (./structs_a_p_o_lparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/apolparm.[] [390] Underfull \hbox (badness 10000) detected at line 88 [][][] [391] Underfull \hbox (badness 10000) detected at line 224 [][][] [392] Underfull \hbox (badness 10000) detected at line 237 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 263 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] Underfull \hbox (badness 10000) detected at line 289 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] [393] Underfull \hbox (badness 10000) detected at line 315 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 354 [][][] Underfull \hbox (badness 10000) detected at line 367 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [394]) (./structs_b_e_mparm.tex [395] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/bemparm.[] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [396] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 155 [][][] [397] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] ) (./structs_f_e_mparm.tex Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/femparm.[] [398] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) in paragraph at lines 84--85 [399] [400] [401]) (./structs_g_e_o_f_l_o_wparm.tex Overfull \hbox (42.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/geoflowparm.[] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [402]) (./structs_m_gparm.tex [403] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] [404] Underfull \hbox (badness 10000) in paragraph at lines 149--150 Underfull \hbox (badness 10000) in paragraph at lines 180--181 [405] Underfull \hbox (badness 10000) in paragraph at lines 261--262 [406] [407] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 460 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [408] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] [409] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [410] Underfull \hbox (badness 10000) detected at line 642 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] ) (./structs_n_osh.tex [411] Underfull \hbox (badness 10000) detected at line 108 [][][] [412] [413] [414] [415] [416] [417]) (./structs_n_osh__calc.tex Underfull \hbox (badness 10000) detected at line 38 [][][] [418]) (./structs_p_b_a_mparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbamparm.[] [419] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] [420] [421] [422] [423]) (./structs_p_b_eparm.tex [424] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbeparm.[] [425] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] [426] [427] [428] Underfull \hbox (badness 10000) detected at line 391 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Underfull \hbox (badness 10000) detected at line 430 [][][] [429] Underfull \hbox (badness 10000) detected at line 473 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] [430] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] [431] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [432] [433]) (./structs_p_b_s_a_mparm.tex Overfull \hbox (30.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbsamparm.[] [434] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [435]) (./structs_vacc.tex [436] Underfull \hbox (badness 10000) detected at line 36 [][][] [437]) (./structs_vacc_surf.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [438]) (./structs_valist.tex [439] Underfull \hbox (badness 10000) detected at line 36 [][][] [440]) (./structs_vatom.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [441] Underfull \hbox (badness 10000) in paragraph at lines 62--63 Underfull \hbox (badness 10000) in paragraph at lines 93--94 Underfull \hbox (badness 10000) in paragraph at lines 114--115 ) (./structs_vclist.tex [442] Underfull \hbox (badness 10000) detected at line 40 [][][] [443]) (./structs_vclist_cell.tex [444] Underfull \hbox (badness 10000) detected at line 24 [][][] ) (./structs_vcsm.tex Underfull \hbox (badness 10000) detected at line 42 [][][] [445] [446]) (./structs_vfetk.tex Underfull \hbox (badness 10000) detected at line 60 [][][] [447] Underfull \hbox (badness 10000) in paragraph at lines 116--117 [448] [449]) (./structs_vfetk___local_var.tex [450] Underfull \hbox (badness 10000) detected at line 86 [][][] [451] [452] [453]) (./structs_vgreen.tex [454] Underfull \hbox (badness 10000) detected at line 34 [][][] [455]) (./structs_vgrid.tex Underfull \hbox (badness 10000) detected at line 52 [][][] [456] [457]) (./structs_vmgrid.tex Underfull \hbox (badness 10000) detected at line 24 [][][] [458]) (./structs_vopot.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [459]) (./structs_vparam___atom_data.tex Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [460]) (./structs_vpbe.tex [461] Underfull \hbox (badness 10000) detected at line 86 [][][] [462] [463] [464]) (./structs_vpee.tex [465] Underfull \hbox (badness 10000) detected at line 34 [][][] [466]) (./structs_vpmg.tex [467] Underfull \hbox (badness 10000) detected at line 116 [][][] [468] [469] [470] [471] [472]) (./structs_vpmgp.tex [473] [474] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) in paragraph at lines 164--165 Underfull \hbox (badness 10000) in paragraph at lines 175--176 Underfull \hbox (badness 10000) in paragraph at lines 186--187 [475] Underfull \hbox (badness 10000) in paragraph at lines 234--235 [476] [477] [478] [479] Underfull \hbox (badness 10000) in paragraph at lines 506--507 [480] Underfull \hbox (badness 10000) in paragraph at lines 527--528 Underfull \hbox (badness 10000) in paragraph at lines 548--549 Underfull \hbox (badness 10000) in paragraph at lines 589--590 [481] Underfull \hbox (badness 10000) in paragraph at lines 630--631 Underfull \hbox (badness 10000) in paragraph at lines 671--672 [482]) (./struct_vparam.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [483]) (./struct_vparam___res_data.tex Underfull \hbox (badness 10000) detected at line 28 [][][] [484]) [485] [486] Chapter 9. (./mainpage_8h_source.tex) (./apbs_8h.tex <./apbs_8h__incl.pdf> <./apbs_8h__dep __incl.pdf> [487] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] [488]) (./apbs_8h_source.tex) (./vcsm_8c.tex [489] <./vcsm_8c__incl.pdf> [490] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [491]) (./vcsm_8c_source.tex [492] [493] [494] [495] [496] [497]) (./vcsm_8h.tex <./vcsm_8h__incl.pdf> <./vcsm_8h__dep__incl.pdf> [498] [499] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 81 [][][] [500]) (./vcsm_8h_source.tex [501]) (./vfetk_8c.tex [502] <./vfetk_8c__incl.pdf > [503] [504] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 165 [][][] [505] Underfull \hbox (badness 10000) detected at line 168 [][][] [506] [507] [508] [509]) (./vfetk_8c_source.tex [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539]) (./vfetk_8h.tex [540] <./vfetk_8h__incl.pdf> <./vfetk_8h__dep__inc l.pdf> [541] [542] [543] Underfull \hbox (badness 10000) detected at line 187 [][][] [544] Underfull \hbox (badness 10000) detected at line 190 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] ) (./vfetk_8h_source.tex [545] [546] [547] [548] [549] [550]) (./vpee_8c.tex <. /vpee_8c__incl.pdf> [551] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [552]) (./vpee_8c_source.tex [553] [554] [555] [556] [557] [558]) (./vpee_8h.tex <./vpee_8h__incl.pdf> [559] <./vpee_8h__dep__incl.pdf> [560] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] [561]) (./vpee_8h_source.tex [562]) (./apolparm_8c.tex <./apolparm_8c__incl.pdf > [563] Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [564] [565]) (./apolparm_8c_source.tex [566] [567] [568] [569] [570] [571] [572] [573]) (./apolparm_8h_source.tex [574]) (./bemparm_8c.tex <./bemparm_8c__ incl.pdf> [575] [576] Underfull \hbox (badness 10000) detected at line 48 [][][] Underfull \hbox (badness 10000) detected at line 51 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] [577] Underfull \hbox (badness 10000) detected at line 120 [][][] ) (./bemparm_8c_source.tex [578] [579] [580] [581]) (./bemparm_8h_source.tex [582]) (./femparm_8c.tex <./femparm_8c__incl.pdf> [583] [584] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] Underfull \hbox (badness 10000) detected at line 64 [][][] [585] [586]) (./femparm_8c_source.tex [587] [588] [589] [590] [591]) (./femparm_8h.tex <./femparm_8h__incl.pdf> [592] <./femparm_8h__dep__incl.pdf> [593] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [594] Underfull \hbox (badness 10000) detected at line 93 [][][] ) (./femparm_8h_source.tex [595]) (./geoflowparm_8c.tex <./geoflowparm_8c__incl .pdf> [596] [597] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] [598]) (./geoflowparm_8c_source.tex [599] [600]) (./geoflowparm_8h.tex <./geofl owparm_8h__incl.pdf> [601] <./geoflowparm_8h__dep__incl.pdf> [602] [603] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [604]) (./geoflowparm_8h_source.tex [605]) (./mgparm_8c.tex <./mgparm_8c__incl. pdf> [606] [607] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] [608] [609]) (./mgparm_8c_source.tex [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621]) (./mgparm_8h.tex <./mgparm_8h__incl.pdf> [622] <./mgparm_8h__dep__incl.pdf> [623] [624] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 108 [][][] [625]) (./mgparm_8h_source.tex [626]) (./nosh_8c.tex <./nosh_8c__incl.pdf> [627] [628] [629] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] [630] [631] [632] [633] [634]) (./nosh_8c_source.tex [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] [666] [667] [668] [669] [670] [671] [672] [673] [674]) (./nosh_8h.tex <./nosh_8h__incl.pdf> [675] <./nosh_8h__dep__incl.pdf> [676] [677] [678] Underfull \hbox (badness 10000) detected at line 169 [][][] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] ) (./nosh_8h_source.tex [679] [680] [681]) (./pbamparm_8c.tex <./pbamparm_8c__i ncl.pdf> [682] [683] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] [684]) (./pbamparm_8c_source.tex [685] [686] [687] [688] [689] [690] [691] [692] [693]) (./pbamparm_8h.tex <./pbamparm_8h__incl.pdf> <./pbamparm_8h__dep__ incl.pdf> [694] [695] Underfull \hbox (badness 10000) detected at line 100 [][][] [696] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [697]) (./pbamparm_8h_source.tex [698]) (./pbeparm_8c.tex [699] <./pbeparm_8c__ incl.pdf> [700] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [701] [702] [703] [704] [705]) (./pbeparm_8c_source.tex [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720]) (./pbeparm_8h.tex <./pbeparm_8h__incl.pdf> [721] <./pbeparm_8h__dep__incl.pdf> [722] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [723]) (./pbeparm_8h_source.tex [724] [725]) (./pbsamparm_8c.tex <./pbsamparm_8 c__incl.pdf> [726] [727] Underfull \hbox (badness 10000) detected at line 48 [][][] Underfull \hbox (badness 10000) detected at line 51 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] [728]) (./pbsamparm_8c_source.tex [729] [730]) (./pbsamparm_8h.tex [731] <./pbs amparm_8h__incl.pdf> <./pbsamparm_8h__dep__incl.pdf> [732] [733] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [734]) (./pbsamparm_8h_source.tex [735]) (./vacc_8c.tex <./vacc_8c__incl.pdf> [736] [737] [738] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] Underfull \hbox (badness 10000) detected at line 112 [][][] [739] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] [740] [741]) (./vacc_8c_source.tex [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764]) (./vacc_8h.tex <./vacc_8h__incl.pdf> <./vacc_8h__dep__ incl.pdf> [765] [766] [767] Underfull \hbox (badness 10000) detected at line 121 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 127 [][][] [768]) (./vacc_8h_source.tex [769] [770] [771]) (./valist_8c.tex <./valist_8c__ incl.pdf> [772] [773] Underfull \hbox (badness 2293) in paragraph at lines 53--55 []\T1/phv/m/n/10 VPRIVATE Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/ m/n/10 thee, Vio $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 sock, int $\OMS/cmsy/m/n/ 10 ^^C$\T1/phv/m/n/10 serial, char atom[] Underfull \hbox (badness 10000) detected at line 81 [][][] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] [774] [775] [776]) (./valist_8c_source.tex [777] [778] [779] [780] [781] [782] [783] [784] [785] [786]) (./valist_8h.tex [787] <./valist_8h__incl.pdf> < ./valist_8h__dep__incl.pdf> [788] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 81 [][][] [789]) (./valist_8h_source.tex [790] [791]) (./vatom_8c.tex <./vatom_8c__incl.p df> [792] Underfull \hbox (badness 10000) detected at line 70 [][][] Underfull \hbox (badness 10000) detected at line 73 [][][] Underfull \hbox (badness 10000) detected at line 76 [][][] [793]) (./vatom_8c_source.tex [794] [795] [796]) (./vatom_8h.tex <./vatom_8h__i ncl.pdf> [797] <./vatom_8h__dep__incl.pdf> [798] [799] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] ) (./vatom_8h_source.tex [800] [801]) (./vcap_8c.tex <./vcap_8c__incl.pdf> [802] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] Underfull \hbox (badness 10000) detected at line 36 [][][] [803]) (./vcap_8c_source.tex [804]) (./vcap_8h.tex <./vcap_8h__incl.pdf> <./vca p_8h__dep__incl.pdf> [805] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 48 [][][] [806] Underfull \hbox (badness 10000) detected at line 51 [][][] ) (./vcap_8h_source.tex [807]) (./vclist_8c.tex <./vclist_8c__incl.pdf> Underfull \hbox (badness 4060) in paragraph at lines 31--33 []\T1/phv/m/n/10 VPRIVATE void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 thee , dou-ble lower[]_[]corner[][][], dou-ble upper[]_[] [808] Underfull \hbox (badness 1297) in paragraph at lines 43--44 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m /n/10 thee, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 alist, dou-ble max[]_[]radi us, int npts[][][], Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [809] [810]) (./vclist_8c_source.tex [811] [812] [813] [814] [815]) (./vclist_8h.tex [816] <./vclist_8h__incl.pdf> <./vclist_8h__dep__incl.pdf> [817] [818] Underfull \hbox (badness 10000) detected at line 82 [][][] Underfull \hbox (badness 10000) detected at line 85 [][][] Underfull \hbox (badness 10000) detected at line 88 [][][] [819]) (./vclist_8h_source.tex [820]) (./vgreen_8c.tex <./vgreen_8c__incl.pdf> [821] [822] Underfull \hbox (badness 10000) detected at line 54 [][][] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [823]) (./vgreen_8c_source.tex [824] [825] [826] [827] [828] [829]) (./vgreen_8h.tex <./vgreen_8h__incl.pdf> [830] <./vgreen_8h__dep__incl.pdf> [831] Underfull \hbox (badness 10000) detected at line 70 [][][] Underfull \hbox (badness 10000) detected at line 73 [][][] ) (./vgreen_8h_source.tex [832]) (./vhal_8h.tex [833] <./vhal_8h__incl.pdf> <./ vhal_8h__dep__incl.pdf> [834] [835] [836] [837] Underfull \hbox (badness 10000) detected at line 301 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 316--316 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [838] [839] [840] [841] [842] [843] [844]) (./vhal_8h_source.tex [845] [846] [847] [848] [849] [850] [851] [852]) (./vmatrix_8h.tex <./vmatrix_8h__dep__incl .pdf> [853] Underfull \hbox (badness 10000) detected at line 35 [][][] Underfull \hbox (badness 10000) detected at line 38 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] [854] [855]) (./vmatrix_8h_source.tex [856]) (./vparam_8c.tex <./vparam_8c__inc l.pdf> [857] Underfull \hbox (badness 10000) detected at line 77 [][][] [858] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] ) (./vparam_8c_source.tex [859] [860] [861] [862] [863] [864] [865] [866]) (./vparam_8h.tex [867] <./vparam_8h__incl.pdf> <./vparam_8h__dep__incl.pdf> [868] [869] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] [870]) (./vparam_8h_source.tex [871]) (./vpbe_8c.tex <./vpbe_8c__incl.pdf> [872] [873] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] Underfull \hbox (badness 10000) detected at line 95 [][][] [874]) (./vpbe_8c_source.tex [875] [876] [877] [878] [879] [880]) (./vpbe_8h.tex <./vpbe_8h__incl.pdf> [881] <./vpbe_8h__dep__incl.pdf> [882] [883] Underfull \hbox (badness 10000) detected at line 109 [][][] Underfull \hbox (badness 10000) detected at line 112 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] [884]) (./vpbe_8h_source.tex [885] [886]) (./vstring_8c.tex <./vstring_8c__incl .pdf> [887] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] Underfull \hbox (badness 10000) detected at line 36 [][][] [888]) (./vstring_8c_source.tex [889] [890]) (./vstring_8h.tex <./vstring_8h__i ncl.pdf> [891] <./vstring_8h__dep__incl.pdf> Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] [892] Underfull \hbox (badness 10000) detected at line 45 [][][] ) (./vstring_8h_source.tex [893]) (./vunit_8h.tex <./vunit_8h__dep__incl.pdf> [894] LaTeX Warning: Command \r invalid in math mode on input line 41. Missing character: There is no Å in font cmr9! Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] Underfull \hbox (badness 10000) detected at line 57 [][][] [895]) (./vunit_8h_source.tex) (./main_8c.tex <./main_8c__incl.pdf> [896] Underfull \hbox (badness 10000) detected at line 27 [][][] Underfull \hbox (badness 10000) detected at line 40 [][][] Underfull \hbox (badness 10000) detected at line 43 [][][] [897]) (./main_8c_source.tex [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908]) (./vgrid_8c.tex <./vgrid_8c__incl.pdf> [909] [910] Underfull \hbox (badness 10000) detected at line 83 [][][] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] [911] Underfull \hbox (badness 10000) detected at line 173 [][][] [912]) (./vgrid_8c_source.tex [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935]) (./vgrid_8h.tex <./vgrid_8h__incl.pdf> [936] <./vgrid_ 8h__dep__incl.pdf> [937] [938] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] [939] Underfull \hbox (badness 10000) detected at line 163 [][][] ) (./vgrid_8h_source.tex [940] [941]) (./vmgrid_8c.tex <./vmgrid_8c__incl.pdf> [942] [943] Underfull \hbox (badness 10000) detected at line 40 [][][] Underfull \hbox (badness 10000) detected at line 43 [][][] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] Overfull \hbox (1024.08331pt too wide) in paragraph at lines 58--58 []\T1/pcr/m/n/8 * Copyright (c) 2010, Pacific Northwest National Laboratory. Portions Copyright (c) 2002-2020, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2020, T he Regents of the University of California. Portions Copyright (c) 1995, Michae l Holst.[] ) (./vmgrid_8c_source.tex [944] [945] [946]) (./vmgrid_8h.tex <./vmgrid_8h__inc l.pdf> <./vmgrid_8h__dep__incl.pdf> [947] [948] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [949]) (./vmgrid_8h_source.tex) (./vopot_8c.tex [950] <./vopot_8c__incl.pdf> Underfull \hbox (badness 10000) detected at line 43 [][][] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] [951]) (./vopot_8c_source.tex [952] [953] [954] [955] [956]) (./vopot_8h.tex <. /vopot_8h__incl.pdf> <./vopot_8h__dep__incl.pdf> [957] [958] Underfull \hbox (badness 10000) detected at line 63 [][][] Underfull \hbox (badness 10000) detected at line 66 [][][] Underfull \hbox (badness 10000) detected at line 69 [][][] ) (./vopot_8h_source.tex [959]) (./vpmg_8c.tex <./vpmg_8c__incl.pdf> [960] [961] [962] [963] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] Underfull \hbox (badness 10000) detected at line 178 [][][] [964] Underfull \hbox (badness 10000) detected at line 260 [][][] [965] Underfull \hbox (badness 10000) detected at line 287 [][][] [966] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 386 [][][] Underfull \hbox (badness 10000) detected at line 408 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] [967] Underfull \hbox (badness 10000) detected at line 433 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] [968] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 553 [][][] Underfull \hbox (badness 10000) detected at line 556 [][][] [969] Underfull \hbox (badness 10000) detected at line 573 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 641 [][][] [970] Underfull \hbox (badness 10000) detected at line 658 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 696 [][][] Underfull \hbox (badness 10000) detected at line 699 [][][] Underfull \hbox (badness 10000) detected at line 716 [][][] [971] Underfull \hbox (badness 10000) detected at line 733 [][][] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] Underfull \hbox (badness 10000) detected at line 794 [][][] [972] Underfull \hbox (badness 10000) detected at line 831 [][][] [973] Underfull \hbox (badness 10000) detected at line 875 [][][] [974] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 947 [][][] [975] Underfull \hbox (badness 10000) detected at line 969 [][][] Underfull \hbox (badness 10000) detected at line 991 [][][] Underfull \hbox (badness 10000) detected at line 994 [][][] Underfull \hbox (badness 10000) detected at line 1011 [][][] Underfull \hbox (badness 10000) detected at line 1014 [][][] Underfull \hbox (badness 10000) detected at line 1036 [][][] Underfull \hbox (badness 10000) detected at line 1039 [][][] [976] Underfull \hbox (badness 10000) detected at line 1061 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] [977] Underfull \hbox (badness 10000) detected at line 1113 [][][] Underfull \hbox (badness 10000) detected at line 1145 [][][] Underfull \hbox (badness 10000) detected at line 1148 [][][] ) (./vpmg_8c_source.tex [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113]) (./vpmg_8h.tex <./vpmg_8h__incl.pdf> [1114] <./vpmg_8h__dep__incl.pdf> [1115] [1116] [1117] [1118] [1119] Underfull \hbox (badness 10000) detected at line 233 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] [1120] [1121] Underfull \hbox (badness 10000) detected at line 439 [][][] [1122] Underfull \hbox (badness 10000) detected at line 456 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [1123] Underfull \hbox (badness 10000) detected at line 505 [][][] Underfull \hbox (badness 10000) detected at line 527 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 552 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] [1124] Underfull \hbox (badness 10000) detected at line 580 [][][] Underfull \hbox (badness 10000) detected at line 602 [][][] Underfull \hbox (badness 10000) detected at line 605 [][][] Underfull \hbox (badness 10000) detected at line 627 [][][] Underfull \hbox (badness 10000) detected at line 630 [][][] [1125] Underfull \hbox (badness 10000) detected at line 652 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 709 [][][] [1126] Underfull \hbox (badness 10000) detected at line 726 [][][] Underfull \hbox (badness 10000) detected at line 743 [][][] Underfull \hbox (badness 10000) detected at line 760 [][][] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 794 [][][] [1127] Underfull \hbox (badness 10000) detected at line 815 [][][] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 835 [][][] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 869 [][][] [1128] Underfull \hbox (badness 10000) detected at line 886 [][][] Underfull \hbox (badness 10000) detected at line 903 [][][] Underfull \hbox (badness 10000) detected at line 916 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] [1129] Underfull \hbox (badness 10000) detected at line 946 [][][] Underfull \hbox (badness 10000) detected at line 990 [][][] [1130] Underfull \hbox (badness 10000) detected at line 1020 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] [1131] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1131 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] [1132] Underfull \hbox (badness 10000) detected at line 1156 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1191 [][][] Underfull \hbox (badness 10000) detected at line 1208 [][][] [1133] Underfull \hbox (badness 10000) detected at line 1240 [][][] Underfull \hbox (badness 10000) detected at line 1243 [][][] ) (./vpmg_8h_source.tex [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142]) (./vpmgp_8c.tex <./vpmgp_8c__incl.pdf> [1143] Underfull \hbox (badness 10000) detected at line 38 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [1144]) (./vpmgp_8c_source.tex [1145] [1146] [1147]) (./vpmgp_8h.tex [1148] <./ vpmgp_8h__incl.pdf> <./vpmgp_8h__dep__incl.pdf> [1149] [1150] Underfull \hbox (badness 10000) detected at line 56 [][][] Underfull \hbox (badness 10000) detected at line 59 [][][] Underfull \hbox (badness 10000) detected at line 62 [][][] Underfull \hbox (badness 10000) detected at line 65 [][][] [1151]) (./vpmgp_8h_source.tex [1152]) (./build_ad_8c_source.tex [1153] [1154] [1155]) (./build_ad_8h_source.tex [1156]) (./build_bd_8c_source.tex [1157] [1158] [1159] [1160]) (./build_bd_8h_source.tex [1161]) (./build_gd_8c_source.tex [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199]) (./build_gd_8h_source.tex [1200] [1201]) (./build_pd_8c_source.tex [1202] [1203] [1204] [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220]) (./build_pd_8h_source.tex [1221] [1222] [1223]) (./cgd_8c_source.tex) (./cgd_8h_source.tex [1224]) (./gsd_8c_source.tex [1225] [1226] [1227] [1228]) (./gsd_8h_source.tex [1229]) (./matvecd_8c_source.tex [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242]) (./matvecd_8h_source.tex [1243] [1244] [1245] [1246] [1247] [1248]) (./mgcsd_8c_source.tex [1249] [1250] [1251] [1252] [1253] [1254]) (./mgcsd_8h_source.tex [1255]) (./mgdrvd_8c_source.tex [1256] [1257] [1258] [1259] [1260] [1261] [1262]) (./mgdrvd_8h_source.tex [1263] [1264]) (./mgfasd_8c_source.tex [1265] [1266] [1267] [1268] [1269] [1270]) (./mgfasd_8h_source.tex [1271] [1272]) (./mgsubd_8c_source.tex [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283]) (./mgsubd_8h_source.tex [1284] [1285] [1286] [1287]) (./mikpckd_8c_source.tex [1288] [1289] [1290] [1291]) (./mikpckd_8h_source.tex [1292] [1293] [1294]) (./mlinpckd_8c_source.tex [1295] [1296]) (./mlinpckd_8h_source.tex) (./mypdec_8c_source.tex [1297] [1298] [1299] [1300] [1301] [1302] [1303]) (./mypdec_8h_source.tex [1304]) (./newdrvd_8c_source.tex [1305] [1306] [1307] [1308]) (./newdrvd_8h_source.tex [1309]) (./newtond_8c_source.tex [1310] [1311] [1312] [1313] [1314] [1315] [1316]) (./newtond_8h_source.tex [1317]) (./powerd_8c_source.tex [1318] [1319] [1320] [1321] [1322]) (./powerd_8h_source.tex [1323]) (./smoothd_8c_source.tex [1324]) (./smoothd_8h_source.tex [1325]) (./routines_8c.tex <./routines_8c__incl.pdf> [1326] Underfull \hbox (badness 776) in paragraph at lines 47--48 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv /m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[] Underfull \hbox (badness 2856) in paragraph at lines 47--48 \T1/phv/m/n/10 YMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]ZMap[] [][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 kappa[]Map[][][], [] Underfull \hbox (badness 1237) in paragraph at lines 47--48 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 905) in paragraph at lines 61--62 []\T1/phv/m/n/10 VPUBLIC void [] (Vmem $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 mem , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy /m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 5817) in paragraph at lines 67--68 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 69--70 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1327] Underfull \hbox (badness 1442) in paragraph at lines 81--82 []\T1/phv/m/n/10 VPUBLIC int [] (Vcom $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 com, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy/ m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 931) in paragraph at lines 87--88 []\T1/phv/m/n/10 VPUBLIC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T 1/phv/m/n/10 fetk[][][], Gem Underfull \hbox (badness 2495) in paragraph at lines 89--90 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] [1328] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] Underfull \hbox (badness 10000) detected at line 122 [][][] ) (./routines_8c_source.tex [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] 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LaTeX Warning: Label `group___vhal_ga068e237d419d537df01fc0fad01e24e8' multiply defined. ) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (./refman.out) (./refman.out) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texlive/texmf-dist/tex/latex/wasysym/uwasy.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}{/usr/share/texlive/texmf-dist/fonts/enc/dvips /base/8r.enc}] [2] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] (./index.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1phv.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [1] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [2]) (./bug.tex [3] [4] Chapter 2. Underfull \hbox (badness 10000) in paragraph at lines 5--9 Underfull \hbox (badness 10000) in paragraph at lines 9--13 Underfull \hbox (badness 10000) in paragraph at lines 13--17 Underfull \hbox (badness 10000) in paragraph at lines 25--29 Underfull \hbox (badness 10000) in paragraph at lines 29--33 Underfull \hbox (badness 10000) in paragraph at lines 33--37 Underfull \hbox (badness 10000) in paragraph at lines 37--41 Underfull \hbox (badness 10000) in paragraph at lines 41--45 Underfull \hbox (badness 10000) in paragraph at lines 45--49 Underfull \hbox (badness 10000) in paragraph at lines 49--53 Underfull \hbox (badness 10000) in paragraph at lines 53--57 [5] Underfull \hbox (badness 10000) in paragraph at lines 57--61 Underfull \hbox (badness 10000) in paragraph at lines 61--65 Underfull \hbox (badness 10000) in paragraph at lines 65--69 Underfull \hbox (badness 10000) in paragraph at lines 73--77 Underfull \hbox (badness 10000) in paragraph at lines 77--81 Underfull \hbox (badness 10000) in paragraph at lines 81--85 Underfull \hbox (badness 10000) in paragraph at lines 85--89 Underfull \hbox (badness 10000) in paragraph at lines 93--97 Underfull \hbox (badness 10000) in paragraph at lines 97--101 Underfull \hbox (badness 10000) in paragraph at lines 101--105 Underfull \hbox (badness 10000) in paragraph at lines 109--113 Underfull \hbox (badness 10000) in paragraph at lines 113--117 Underfull \hbox (badness 10000) in paragraph at lines 117--121 Underfull \hbox (badness 10000) in paragraph at lines 121--125 [6] Underfull \hbox (badness 10000) in paragraph at lines 125--129 Underfull \hbox (badness 10000) in paragraph at lines 129--133 Underfull \hbox (badness 10000) in paragraph at lines 133--137 Underfull \hbox (badness 10000) in paragraph at lines 137--141 Underfull \hbox (badness 10000) in paragraph at lines 141--145 Underfull \hbox (badness 10000) in paragraph at lines 145--149 ) (./deprecated.tex [7] [8] Chapter 3. Underfull \hbox (badness 10000) in paragraph at lines 5--9 ) [9] [10] Chapter 4. (./topics.tex) [11] [12] Chapter 5. (./annotated.tex [13]) [14] Chapter 6. (./files.tex [15] [16] [17]) [18] Chapter 7. (./group___header.tex) (./group___vcsm.tex [19] Underfull \hbox (badness 10000) detected at line 93 [][][] [20] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 121 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] Underfull \hbox (badness 10000) detected at line 148 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] [21] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] [22] Underfull \hbox (badness 10000) detected at line 252 [][][] Underfull \hbox (badness 10000) detected at line 255 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 284 [][][] Underfull \hbox (badness 10000) 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10000) detected at line 677 [][][] [35] Underfull \hbox (badness 10000) detected at line 707 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] Underfull \hbox (badness 10000) detected at line 736 [][][] Underfull \hbox (badness 10000) detected at line 741 [][][] [36] Underfull \hbox (badness 10000) detected at line 767 [][][] Underfull \hbox (badness 10000) detected at line 795 [][][] Underfull \hbox (badness 10000) detected at line 798 [][][] [37] Underfull \hbox (badness 10000) detected at line 820 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 826 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 853 [][][] Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 878 [][][] [38] Underfull \hbox (badness 10000) detected at line 881 [][][] Underfull \hbox (badness 10000) detected at line 905 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 930 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] [39] Underfull \hbox (badness 10000) detected at line 955 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1005 [][][] Underfull \hbox (badness 10000) detected at line 1008 [][][] [40] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] Underfull \hbox (badness 10000) detected at line 1062 [][][] [41] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Underfull \hbox (badness 10000) detected at line 1115 [][][] [42] Underfull \hbox (badness 10000) detected at line 1152 [][][] Underfull \hbox (badness 10000) detected at line 1155 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1813 [][][] Underfull \hbox (badness 10000) detected at line 1816 [][][] Underfull \hbox (badness 10000) detected at line 1819 [][][] Underfull \hbox (badness 10000) detected at line 1841 [][][] [54] Underfull \hbox (badness 10000) detected at line 1867 [][][] Underfull \hbox (badness 10000) detected at line 1887 [][][] Underfull \hbox (badness 10000) detected at line 1892 [][][] ) (./group___vpee.tex [55] Underfull \hbox (badness 849) in paragraph at lines 45--46 \T1/phv/m/n/10 Holst par-al-lel re-fine-ment rou-tine es-sen-tially re-duces th e er-ror out-side the \T1/pcr/m/n/10 local" partition to zero. Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 However, this leads to the need for a few final overlapping Schw arz solves to Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 smooth out the errors near partition boundaries. Supposedly, if the region in Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 which we allow error-based refinement includes the$\OML/cmm/m/it /10 <$\T1/pcr/m/n/10 /tt$\OML/cmm/m/it/10 >$\T1/pcr/m/n/10 local" partition and an Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 external buffer zone approximately equal in size to the local re gion, then the Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 solution will asymptotically approach the solution obtained via more typical Underfull \hbox (badness 10000) in paragraph at lines 45--46 \T1/pcr/m/n/10 methods. This is essentially a more flexible parallel implementa tion of MC\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s [56] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [57] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 171 [][][] [58] Underfull \hbox (badness 10000) detected at line 195 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 201 [][][] [59] Underfull \hbox (badness 10000) detected at line 241 [][][] Underfull \hbox (badness 10000) detected at line 244 [][][] ) (./group___a_p_o_lparm.tex [60] [61] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] [62] Underfull \hbox (badness 10000) detected at line 253 [][][] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 280 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] [63] Underfull \hbox (badness 10000) detected at line 322 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] ) (./group___b_e_mparm.tex [64] Underfull \hbox (badness 10000) detected at line 65 [][][] Underfull \hbox (badness 10000) detected at line 68 [][][] [65] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 133 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] [66] Underfull \hbox (badness 10000) detected at line 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detected at line 348 [][][] Underfull \hbox (badness 10000) detected at line 370 [][][] ) (./group___g_e_o_f_l_o_wparm.tex [72] [73] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] [74] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 173 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 198 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] [75] Underfull \hbox (badness 10000) detected at line 225 [][][] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] ) (./group___m_gparm.tex [76] [77] [78] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 233 [][][] [79] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 262 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] [80] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 336 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [81] Underfull \hbox (badness 10000) detected at line 402 [][][] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] Underfull \hbox (badness 10000) detected at line 457 [][][] [82] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 482 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 507 [][][] Underfull \hbox (badness 10000) detected at line 524 [][][] Underfull \hbox (badness 10000) detected at line 532 [][][] [83] Underfull \hbox (badness 10000) detected at line 549 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 574 [][][] Underfull \hbox (badness 10000) detected at line 582 [][][] Underfull \hbox (badness 10000) detected at line 599 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] [84] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 632 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] Underfull \hbox (badness 10000) detected at line 661 [][][] Underfull \hbox (badness 10000) detected at line 678 [][][] [85] Underfull \hbox (badness 10000) detected at line 702 [][][] Underfull \hbox (badness 10000) detected at line 726 [][][] ) (./group___n_osh.tex [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) detected at line 447 [][][] [91] Underfull \hbox (badness 10000) detected at line 457 [][][] Underfull \hbox (badness 10000) detected at line 474 [][][] Underfull \hbox (badness 10000) detected at line 498 [][][] Underfull \hbox (badness 10000) detected at line 506 [][][] Underfull \hbox (badness 10000) detected at line 523 [][][] [92] Underfull \hbox (badness 10000) detected at line 545 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 584 [][][] [93] Underfull \hbox (badness 10000) detected at line 601 [][][] Underfull \hbox (badness 10000) detected at line 623 [][][] Underfull \hbox (badness 10000) detected at line 645 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] [94] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 685 [][][] Underfull \hbox (badness 10000) detected at line 688 [][][] Underfull \hbox (badness 10000) detected at line 705 [][][] Underfull \hbox (badness 10000) detected at line 715 [][][] [95] Underfull \hbox (badness 10000) detected at line 732 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 759 [][][] Underfull \hbox (badness 10000) detected at line 769 [][][] Underfull \hbox (badness 10000) detected at line 786 [][][] [96] Underfull \hbox (badness 10000) detected at line 796 [][][] Underfull \hbox (badness 10000) detected at line 813 [][][] Underfull \hbox (badness 10000) detected at line 823 [][][] Underfull \hbox (badness 10000) detected at line 840 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] [97] Underfull \hbox (badness 10000) detected at line 867 [][][] Underfull \hbox (badness 10000) detected at line 877 [][][] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 904 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] [98] Underfull \hbox (badness 10000) detected at line 931 [][][] Underfull \hbox (badness 10000) detected at line 948 [][][] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 985 [][][] [99] Underfull \hbox (badness 10000) detected at line 1002 [][][] Underfull \hbox (badness 10000) detected at line 1012 [][][] Underfull \hbox (badness 10000) detected at line 1029 [][][] Underfull \hbox (badness 10000) detected at line 1032 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1059 [][][] [100] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1074 [][][] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1094 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] [101] Underfull \hbox (badness 10000) detected at line 1126 [][][] Underfull \hbox (badness 10000) detected at line 1129 [][][] Underfull \hbox (badness 10000) detected at line 1139 [][][] Underfull \hbox (badness 10000) detected at line 1142 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1162 [][][] Underfull \hbox (badness 10000) detected at line 1174 [][][] Underfull \hbox (badness 10000) detected at line 1177 [][][] [102] Underfull \hbox (badness 10000) detected at line 1194 [][][] Underfull \hbox (badness 10000) detected at line 1197 [][][] Underfull \hbox (badness 10000) detected at line 1207 [][][] Underfull \hbox (badness 10000) detected at line 1210 [][][] Underfull \hbox (badness 10000) detected at line 1227 [][][] Underfull \hbox (badness 10000) detected at line 1230 [][][] Underfull \hbox (badness 10000) detected at line 1240 [][][] [103] Underfull \hbox (badness 10000) detected at line 1264 [][][] Underfull \hbox (badness 10000) detected at line 1267 [][][] Underfull \hbox (badness 10000) detected at line 1277 [][][] ) (./group___p_b_a_mparm.tex [104] [105] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] [106] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 197 [][][] Underfull \hbox (badness 10000) detected at line 221 [][][] Underfull \hbox (badness 10000) detected at line 229 [][][] [107] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 256 [][][] Underfull \hbox (badness 10000) detected at line 273 [][][] Underfull \hbox (badness 10000) detected at line 295 [][][] [108] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [109] Underfull \hbox (badness 10000) detected at line 389 [][][] Underfull \hbox (badness 10000) detected at line 413 [][][] Underfull \hbox (badness 10000) detected at line 437 [][][] [110] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 485 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] [111] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 557 [][][] Underfull \hbox (badness 10000) detected at line 581 [][][] Underfull \hbox (badness 10000) detected at line 593 [][][] [112] Underfull \hbox (badness 10000) detected at line 610 [][][] Underfull \hbox (badness 10000) detected at line 634 [][][] ) (./group___p_b_eparm.tex [113] [114] [115] Underfull \hbox (badness 10000) detected at line 209 [][][] Underfull \hbox (badness 10000) detected at line 212 [][][] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] Underfull \hbox (badness 10000) detected at line 261 [][][] [116] Underfull \hbox (badness 10000) detected at line 278 [][][] Underfull \hbox (badness 10000) detected at line 281 [][][] Underfull \hbox (badness 10000) detected at line 303 [][][] Underfull \hbox (badness 10000) detected at line 325 [][][] [117] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] [118] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 431 [][][] ) (./group___p_b_s_a_mparm.tex [119] [120] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] [121] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 205 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 240 [][][] [122] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] Underfull \hbox (badness 10000) detected at line 301 [][][] [123] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] [124] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] Underfull \hbox (badness 10000) detected at line 426 [][][] ) (./group___vacc.tex [125] [126] [127] Underfull \hbox (badness 10000) detected at line 149 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] [128] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 242 [][][] [129] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 283 [][][] Underfull \hbox (badness 10000) detected at line 305 [][][] Underfull \hbox (badness 10000) detected at line 308 [][][] [130] Underfull \hbox (badness 10000) detected at line 334 [][][] Underfull \hbox (badness 10000) detected at line 337 [][][] Underfull \hbox (badness 10000) detected at line 365 [][][] [131] Underfull \hbox (badness 10000) detected at line 387 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] Underfull \hbox (badness 10000) detected at line 414 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] [132] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 472 [][][] Underfull \hbox (badness 10000) detected at line 475 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] [133] Underfull \hbox (badness 10000) detected at line 502 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 562 [][][] [134] Underfull \hbox (badness 10000) detected at line 565 [][][] Underfull \hbox (badness 10000) detected at line 595 [][][] Underfull \hbox (badness 10000) detected at line 598 [][][] [135] Underfull \hbox (badness 10000) detected at line 628 [][][] Underfull \hbox (badness 10000) detected at line 660 [][][] [136] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 724 [][][] [137] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 790 [][][] Underfull \hbox (badness 10000) detected at line 820 [][][] [138] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 855 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] Underfull \hbox (badness 10000) detected at line 882 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] Underfull \hbox (badness 10000) detected at line 888 [][][] [139] Underfull \hbox (badness 10000) detected at line 918 [][][] Underfull \hbox (badness 10000) detected at line 921 [][][] Underfull \hbox (badness 10000) detected at line 941 [][][] Underfull \hbox (badness 10000) detected at line 944 [][][] [140] Underfull \hbox (badness 10000) detected at line 972 [][][] Underfull \hbox (badness 10000) detected at line 975 [][][] Underfull \hbox (badness 10000) detected at line 1007 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] [141] Underfull \hbox (badness 10000) detected at line 1040 [][][] Underfull \hbox (badness 10000) detected at line 1043 [][][] Underfull \hbox (badness 10000) detected at line 1069 [][][] Underfull \hbox (badness 10000) detected at line 1072 [][][] [142] Underfull \hbox (badness 10000) detected at line 1100 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1146 [][][] Underfull \hbox (badness 10000) detected at line 1149 [][][] Underfull \hbox (badness 10000) detected at line 1152 [][][] [143]) (./group___valist.tex [144] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 111 [][][] Underfull \hbox (badness 10000) detected at line 114 [][][] [145] Underfull \hbox (badness 10000) detected at line 136 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 180 [][][] Underfull \hbox (badness 10000) detected at line 183 [][][] [146] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 260 [][][] [147] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 310 [][][] Underfull \hbox (badness 10000) detected at line 332 [][][] Underfull \hbox (badness 10000) detected at line 335 [][][] [148] Underfull \hbox (badness 10000) detected at line 352 [][][] Underfull \hbox (badness 10000) detected at line 355 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 409 [][][] [149] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 415 [][][] Underfull \hbox (badness 10000) detected at line 443 [][][] Underfull \hbox (badness 10000) detected at line 446 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] ) (./group___vatom.tex [150] [151] Underfull \hbox (badness 10000) detected at line 97 [][][] [152] Underfull \hbox (badness 10000) detected at line 134 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 182 [][][] Underfull \hbox (badness 10000) detected at line 185 [][][] Underfull \hbox (badness 10000) detected at line 202 [][][] [153] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 227 [][][] Underfull \hbox (badness 10000) detected at line 249 [][][] Underfull \hbox (badness 10000) detected at line 271 [][][] Underfull \hbox (badness 10000) detected at line 279 [][][] [154] Underfull \hbox (badness 10000) detected at line 296 [][][] Underfull \hbox (badness 10000) detected at line 320 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 345 [][][] Underfull \hbox (badness 10000) detected at line 353 [][][] [155] Underfull \hbox (badness 10000) detected at line 370 [][][] Underfull \hbox (badness 10000) detected at line 378 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] Underfull \hbox (badness 10000) detected at line 428 [][][] [156] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 469 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 494 [][][] [157] Underfull \hbox (badness 10000) detected at line 518 [][][] Underfull \hbox (badness 10000) detected at line 542 [][][] Underfull \hbox (badness 10000) detected at line 566 [][][] [158] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 614 [][][] Underfull \hbox (badness 10000) detected at line 638 [][][] [159] Underfull \hbox (badness 10000) detected at line 662 [][][] ) (./group___vcap.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [160] Underfull \hbox (badness 10000) detected at line 88 [][][] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] [161] Underfull \hbox (badness 10000) detected at line 123 [][][] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Underfull \hbox (badness 10000) detected at line 164 [][][] ) (./group___vclist.tex [162] [163] Underfull \hbox (badness 10000) detected at line 126 [][][] [164] Underfull \hbox (badness 10000) detected at line 156 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] Underfull \hbox (badness 10000) detected at line 191 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] [165] Underfull \hbox (badness 10000) detected at line 228 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 272 [][][] Underfull \hbox (badness 10000) detected at line 275 [][][] [166] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 349 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [167] Underfull \hbox (badness 10000) detected at line 374 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 401 [][][] Underfull \hbox (badness 10000) detected at line 423 [][][] [168]) (./group___vgreen.tex [169] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [170] Underfull \hbox (badness 10000) detected at line 141 [][][] Underfull \hbox (badness 10000) detected at line 159 [][][] [171] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] [172] Underfull \hbox (badness 10000) detected at line 215 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] Underfull \hbox (badness 10000) detected at line 258 [][][] [173] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Underfull \hbox (badness 10000) detected at line 324 [][][] Underfull \hbox (badness 10000) detected at line 334 [][][] [174] Underfull \hbox (badness 10000) detected at line 351 [][][] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] [175] Underfull \hbox (badness 10000) detected at line 424 [][][] Underfull \hbox (badness 10000) detected at line 429 [][][] Underfull \hbox (badness 10000) detected at line 449 [][][] [176] Underfull \hbox (badness 10000) detected at line 471 [][][] Underfull \hbox (badness 10000) detected at line 476 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] Underfull \hbox (badness 10000) detected at line 517 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] ) (./group___vhal.tex [177] [178] [179] [180] [181] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 421 [][][] Underfull \hbox (badness 10000) detected at line 438 [][][] Underfull \hbox (badness 10000) detected at line 455 [][][] [182] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] Underfull \hbox (badness 10000) detected at line 526 [][][] Underfull \hbox (badness 10000) detected at line 567 [][][] [183] [184] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 819 [][][] [185] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 885 [][][] [186] Underfull \hbox (badness 10000) detected at line 932 [][][] Missing character: There is no Å in font cmr10! Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 58. Missing character: There is no Å in font cmr10! [187] [188] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1112 [][][] Underfull \hbox (badness 10000) detected at line 1140 [][][] Underfull \hbox (badness 10000) detected at line 1143 [][][] [189] Underfull \hbox (badness 10000) detected at line 1160 [][][] ) (./group___vmatrix.tex) (./group___vparam.tex [190] [191] [192] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 179 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] Underfull \hbox (badness 10000) detected at line 206 [][][] [193] Underfull \hbox (badness 10000) detected at line 230 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 257 [][][] Underfull \hbox (badness 10000) detected at line 274 [][][] Underfull \hbox (badness 10000) detected at line 282 [][][] [194] Underfull \hbox (badness 10000) detected at line 299 [][][] Underfull \hbox (badness 10000) detected at line 321 [][][] Underfull \hbox (badness 10000) detected at line 343 [][][] Underfull \hbox (badness 10000) detected at line 346 [][][] Underfull \hbox (badness 10000) detected at line 363 [][][] [195] Underfull \hbox (badness 10000) detected at line 371 [][][] Underfull \hbox (badness 10000) detected at line 388 [][][] Underfull \hbox (badness 10000) detected at line 410 [][][] Underfull \hbox (badness 10000) detected at line 432 [][][] [196] Underfull \hbox (badness 10000) detected at line 444 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 450 [][][] Underfull \hbox (badness 10000) detected at line 467 [][][] Underfull \hbox (badness 10000) detected at line 477 [][][] Underfull \hbox (badness 10000) detected at line 480 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 500 [][][] [197] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 541 [][][] Underfull \hbox (badness 10000) detected at line 544 [][][] [198] Underfull \hbox (badness 10000) detected at line 571 [][][] Underfull \hbox (badness 10000) detected at line 587 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 628 [][][] [199] Underfull \hbox (badness 10000) detected at line 636 [][][] Underfull \hbox (badness 10000) detected at line 653 [][][] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 680 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] [200]) (./group___vpbe.tex [201] [202] [203] Underfull \hbox (badness 10000) detected at line 128 [][][] Underfull \hbox (badness 10000) detected at line 131 [][][] LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 133. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 136 [][][] [204] Underfull \hbox (badness 10000) detected at line 186 [][][] Underfull \hbox (badness 10000) detected at line 189 [][][] LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! LaTeX Warning: Command \r invalid in math mode on input line 190. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 195 [][][] [205] Underfull \hbox (badness 10000) detected at line 247 [][][] Underfull \hbox (badness 10000) detected at line 269 [][][] Underfull \hbox (badness 10000) detected at line 291 [][][] [206] Underfull \hbox (badness 10000) detected at line 299 [][][] Overfull \hbox (151.96916pt too wide) in paragraph at lines 318--318 [] \T1/p cr/m/n/8 permittivity equal to the protein interior) and zero ionic[] Underfull \hbox (badness 10000) detected at line 325 [][][] Underfull \hbox (badness 10000) detected at line 333 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Underfull \hbox (badness 10000) detected at line 358 [][][] Underfull \hbox (badness 10000) detected at line 375 [][][] [207] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 396 [][][] Underfull \hbox (badness 10000) detected at line 412 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] [208] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 478 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 503 [][][] [209] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 550 [][][] Underfull \hbox (badness 10000) detected at line 558 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] [210] Underfull \hbox (badness 10000) detected at line 600 [][][] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 633 [][][] Underfull \hbox (badness 10000) detected at line 650 [][][] Underfull \hbox (badness 10000) detected at line 658 [][][] [211] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 683 [][][] Underfull \hbox (badness 10000) detected at line 700 [][][] Underfull \hbox (badness 10000) detected at line 708 [][][] Underfull \hbox (badness 10000) detected at line 725 [][][] Underfull \hbox (badness 10000) detected at line 733 [][][] [212] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 758 [][][] Underfull \hbox (badness 10000) detected at line 775 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Underfull \hbox (badness 10000) detected at line 800 [][][] Underfull \hbox (badness 10000) detected at line 808 [][][] [213] Underfull \hbox (badness 10000) detected at line 825 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Underfull \hbox (badness 10000) detected at line 850 [][][] Underfull \hbox (badness 10000) detected at line 858 [][][] LaTeX Warning: Command \r invalid in math mode on input line 859. Missing character: There is no Å in font cmr10! Underfull \hbox (badness 10000) detected at line 875 [][][] Underfull \hbox (badness 10000) detected at line 883 [][][] [214] Underfull \hbox (badness 10000) detected at line 900 [][][] Underfull \hbox (badness 10000) detected at line 908 [][][] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 933 [][][] ) (./group___vstring.tex [215] Underfull \hbox (badness 10000) detected at line 42 [][][] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [216] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 93 [][][] Underfull \hbox (badness 10000) detected at line 96 [][][] Underfull \hbox (badness 10000) detected at line 99 [][][] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] ) (./group___vunit.tex [217] LaTeX Warning: Command \r invalid in math mode on input line 39. Missing character: There is no Å in font cmr9! [218] LaTeX Warning: Command \r invalid in math mode on input line 142. Missing character: There is no Å in font cmr10! [219]) (./group___vgrid.tex [220] [221] Underfull \hbox (badness 10000) detected at line 125 [][][] Underfull \hbox (badness 10000) detected at line 151 [][][] [222] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 196 [][][] Underfull \hbox (badness 10000) detected at line 213 [][][] [223] Underfull \hbox (badness 10000) detected at line 229 [][][] Underfull \hbox (badness 10000) detected at line 246 [][][] Underfull \hbox (badness 10000) detected at line 268 [][][] Underfull \hbox (badness 10000) detected at line 290 [][][] [224] Underfull \hbox (badness 10000) detected at line 302 [][][] Underfull \hbox (badness 10000) detected at line 319 [][][] Underfull \hbox (badness 10000) detected at line 327 [][][] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 352 [][][] [225] Underfull \hbox (badness 10000) detected at line 369 [][][] Underfull \hbox (badness 10000) detected at line 377 [][][] Underfull \hbox (badness 10000) detected at line 395 [][][] Underfull \hbox (badness 10000) detected at line 403 [][][] Underfull \hbox (badness 10000) detected at line 420 [][][] [226] Underfull \hbox (badness 10000) detected at line 428 [][][] Underfull \hbox (badness 10000) detected at line 445 [][][] Underfull \hbox (badness 10000) detected at line 453 [][][] Underfull \hbox (badness 10000) detected at line 470 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [227] Underfull \hbox (badness 10000) detected at line 489 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] Underfull \hbox (badness 10000) detected at line 509 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 528 [][][] Underfull \hbox (badness 10000) detected at line 531 [][][] [228] Underfull \hbox (badness 10000) detected at line 548 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] Underfull \hbox (badness 10000) detected at line 583 [][][] Underfull \hbox (badness 10000) detected at line 600 [][][] [229] Underfull \hbox (badness 10000) detected at line 612 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [230] Underfull \hbox (badness 10000) detected at line 663 [][][] Underfull \hbox (badness 10000) detected at line 697 [][][] Underfull \hbox (badness 10000) detected at line 702 [][][] ) (./group___vmgrid.tex [231] [232] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] Underfull \hbox (badness 10000) detected at line 132 [][][] Underfull \hbox (badness 10000) detected at line 135 [][][] [233] Underfull \hbox (badness 10000) detected at line 152 [][][] Underfull \hbox (badness 10000) detected at line 160 [][][] Underfull \hbox (badness 10000) detected at line 177 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] [234] Underfull \hbox (badness 10000) detected at line 210 [][][] Underfull \hbox (badness 10000) detected at line 232 [][][] Underfull \hbox (badness 10000) detected at line 254 [][][] Underfull \hbox (badness 10000) detected at line 264 [][][] [235] Underfull \hbox (badness 10000) detected at line 277 [][][] Underfull \hbox (badness 10000) detected at line 287 [][][] Underfull \hbox (badness 10000) detected at line 300 [][][] Underfull \hbox (badness 10000) detected at line 312 [][][] Underfull \hbox (badness 10000) detected at line 329 [][][] [236] Underfull \hbox (badness 10000) detected at line 341 [][][] ) (./group___vopot.tex [237] Underfull \hbox (badness 10000) detected at line 77 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [238] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 137 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 170 [][][] [239] Underfull \hbox (badness 10000) detected at line 192 [][][] Underfull \hbox (badness 10000) detected at line 214 [][][] Underfull \hbox (badness 10000) detected at line 226 [][][] Underfull \hbox (badness 10000) detected at line 243 [][][] [240] Underfull \hbox (badness 10000) detected at line 255 [][][] ) (./group___vpmg.tex [241] [242] [243] Underfull \hbox (badness 10000) detected at line 117 [][][] Underfull \hbox (badness 10000) detected at line 150 [][][] [244] Underfull \hbox (badness 10000) detected at line 186 [][][] [245] Underfull \hbox (badness 10000) detected at line 234 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] [246] Underfull \hbox (badness 10000) detected at line 324 [][][] [247] Underfull \hbox (badness 10000) detected at line 362 [][][] Underfull \hbox (badness 10000) detected at line 381 [][][] Underfull \hbox (badness 10000) detected at line 384 [][][] [248] Underfull \hbox (badness 10000) detected at line 416 [][][] Underfull \hbox (badness 10000) detected at line 419 [][][] Underfull \hbox (badness 10000) detected at line 422 [][][] [249] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 484 [][][] Underfull \hbox (badness 10000) detected at line 487 [][][] Underfull \hbox (badness 10000) detected at line 492 [][][] [250] Underfull \hbox (badness 10000) detected at line 520 [][][] Underfull \hbox (badness 10000) detected at line 546 [][][] [251] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 604 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 610 [][][] [252] Underfull \hbox (badness 10000) detected at line 643 [][][] Underfull \hbox (badness 10000) detected at line 646 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] Underfull \hbox (badness 10000) detected at line 690 [][][] Underfull \hbox (badness 10000) detected at line 712 [][][] [253] Underfull \hbox (badness 10000) detected at line 715 [][][] Underfull \hbox (badness 10000) detected at line 718 [][][] Underfull \hbox (badness 10000) detected at line 742 [][][] Underfull \hbox (badness 10000) detected at line 764 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] [254] Underfull \hbox (badness 10000) detected at line 799 [][][] Underfull \hbox (badness 10000) detected at line 802 [][][] [255] Underfull \hbox (badness 10000) detected at line 856 [][][] Underfull \hbox (badness 10000) detected at line 859 [][][] Underfull \hbox (badness 10000) detected at line 864 [][][] [256] Underfull \hbox (badness 10000) detected at line 894 [][][] Underfull \hbox (badness 10000) detected at line 920 [][][] Underfull \hbox (badness 10000) detected at line 923 [][][] Underfull \hbox (badness 10000) detected at line 928 [][][] [257] Underfull \hbox (badness 10000) detected at line 956 [][][] Underfull \hbox (badness 10000) detected at line 982 [][][] [258] Underfull \hbox (badness 10000) detected at line 1008 [][][] Underfull \hbox (badness 10000) detected at line 1030 [][][] Underfull \hbox (badness 10000) detected at line 1033 [][][] Underfull \hbox (badness 10000) detected at line 1055 [][][] [259] Underfull \hbox (badness 10000) detected at line 1093 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] Underfull \hbox (badness 10000) detected at line 1099 [][][] [260] Underfull \hbox (badness 10000) detected at line 1123 [][][] Underfull \hbox (badness 10000) detected at line 1160 [][][] Underfull \hbox (badness 10000) detected at line 1163 [][][] Underfull \hbox (badness 10000) detected at line 1166 [][][] [261] Underfull \hbox (badness 10000) detected at line 1190 [][][] Underfull \hbox (badness 10000) detected at line 1193 [][][] Underfull \hbox (badness 10000) detected at line 1198 [][][] Underfull \hbox (badness 10000) detected at line 1226 [][][] [262] Underfull \hbox (badness 10000) detected at line 1252 [][][] Underfull \hbox (badness 10000) detected at line 1280 [][][] Underfull \hbox (badness 10000) detected at line 1283 [][][] [263] Underfull \hbox (badness 10000) detected at line 1303 [][][] Underfull \hbox (badness 10000) detected at line 1343 [][][] Underfull \hbox (badness 10000) detected at line 1346 [][][] Underfull \hbox (badness 10000) detected at line 1349 [][][] [264] Underfull \hbox (badness 10000) detected at line 1373 [][][] Underfull \hbox (badness 10000) detected at line 1401 [][][] Underfull \hbox (badness 10000) detected at line 1404 [][][] [265] Underfull \hbox (badness 10000) detected at line 1426 [][][] Underfull \hbox (badness 10000) detected at line 1429 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] ) (./group___vpmgp.tex [266] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] [267] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 113 [][][] Underfull \hbox (badness 10000) detected at line 130 [][][] Underfull \hbox (badness 10000) detected at line 152 [][][] [268] Underfull \hbox (badness 10000) detected at line 174 [][][] Underfull \hbox (badness 10000) detected at line 208 [][][] ) (./group___p_m_g_c.tex [269] [270] [271] [272] [273] Underfull \hbox (badness 10000) detected at line 155 [][][] Underfull \hbox (badness 10000) detected at line 158 [][][] Underfull \hbox (badness 10000) detected at line 161 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 170--170 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [274] Underfull \hbox (badness 10000) detected at line 217 [][][] Underfull \hbox (badness 10000) detected at line 220 [][][] Underfull \hbox (badness 10000) detected at line 223 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 232--232 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [275] Underfull \hbox (badness 10000) detected at line 282 [][][] Underfull \hbox (badness 10000) detected at line 285 [][][] Underfull \hbox (badness 10000) detected at line 313 [][][] Underfull \hbox (badness 10000) detected at line 316 [][][] [276] Underfull \hbox (badness 10000) detected at line 344 [][][] Underfull \hbox (badness 10000) detected at line 347 [][][] Underfull \hbox (badness 10000) detected at line 350 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [277] Underfull \hbox (badness 10000) detected at line 397 [][][] Underfull \hbox (badness 10000) detected at line 400 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 409--409 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 444 [][][] [278] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 514 [][][] [279] Overfull \hbox (304.08286pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 561 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 573--573 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [280] Underfull \hbox (badness 10000) detected at line 608 [][][] Underfull \hbox (badness 10000) detected at line 611 [][][] [281] Underfull \hbox (badness 10000) detected at line 651 [][][] Underfull \hbox (badness 10000) detected at line 654 [][][] [282] Underfull \hbox (badness 10000) detected at line 724 [][][] Underfull \hbox (badness 10000) detected at line 727 [][][] [283] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 780 [][][] Underfull \hbox (badness 10000) detected at line 783 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 793--793 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [284] Underfull \hbox (badness 10000) detected at line 830 [][][] Underfull \hbox (badness 10000) detected at line 833 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 842--842 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [285] [286] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 915 [][][] [287] [288] [289] Underfull \hbox (badness 10000) detected at line 1055 [][][] Underfull \hbox (badness 10000) detected at line 1058 [][][] [290] [291] [292] Underfull \hbox (badness 10000) detected at line 1234 [][][] Underfull \hbox (badness 10000) detected at line 1237 [][][] [293] [294] Underfull \hbox (badness 10000) detected at line 1387 [][][] Underfull \hbox (badness 10000) detected at line 1390 [][][] Underfull \hbox (badness 10000) detected at line 1393 [][][] [295] Underfull \hbox (badness 10000) detected at line 1451 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1457 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1467--1467 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [296] Underfull \hbox (badness 10000) detected at line 1504 [][][] Underfull \hbox (badness 10000) detected at line 1507 [][][] [297] Underfull \hbox (badness 10000) detected at line 1587 [][][] Underfull \hbox (badness 10000) detected at line 1590 [][][] Underfull \hbox (badness 10000) detected at line 1593 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1603--1603 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [298] Underfull \hbox (badness 10000) detected at line 1640 [][][] Underfull \hbox (badness 10000) detected at line 1643 [][][] Underfull \hbox (badness 10000) detected at line 1646 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1655--1655 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [299] Underfull \hbox (badness 10000) detected at line 1733 [][][] Underfull \hbox (badness 10000) detected at line 1738 [][][] Underfull \hbox (badness 10000) detected at line 1741 [][][] [300] Underfull \hbox (badness 10000) detected at line 1771 [][][] Underfull \hbox (badness 10000) detected at line 1774 [][][] [301] Underfull \hbox (badness 10000) detected at line 1808 [][][] Underfull \hbox (badness 10000) detected at line 1811 [][][] Underfull \hbox (badness 10000) detected at line 1845 [][][] Underfull \hbox (badness 10000) detected at line 1848 [][][] [302] Underfull \hbox (badness 10000) detected at line 1882 [][][] Underfull \hbox (badness 10000) detected at line 1885 [][][] Underfull \hbox (badness 10000) detected at line 1888 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 1898--1898 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [303] Underfull \hbox (badness 10000) detected at line 1935 [][][] Underfull \hbox (badness 10000) detected at line 1938 [][][] Underfull \hbox (badness 10000) detected at line 1941 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 1950--1950 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [304] Underfull \hbox (badness 10000) detected at line 2036 [][][] Underfull \hbox (badness 10000) detected at line 2039 [][][] [305] Underfull \hbox (badness 10000) detected at line 2073 [][][] Underfull \hbox (badness 10000) detected at line 2076 [][][] Underfull \hbox (badness 10000) detected at line 2079 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2089--2089 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [306] Underfull \hbox (badness 10000) detected at line 2126 [][][] Underfull \hbox (badness 10000) detected at line 2129 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2138--2138 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 2173 [][][] Underfull \hbox (badness 10000) detected at line 2176 [][][] [307] Underfull \hbox (badness 10000) detected at line 2208 [][][] Underfull \hbox (badness 10000) detected at line 2211 [][][] [308] Underfull \hbox (badness 10000) detected at line 2247 [][][] Underfull \hbox (badness 10000) detected at line 2250 [][][] Underfull \hbox (badness 10000) detected at line 2286 [][][] Underfull \hbox (badness 10000) detected at line 2289 [][][] [309] Underfull \hbox (badness 10000) detected at line 2317 [][][] Underfull \hbox (badness 10000) detected at line 2320 [][][] Underfull \hbox (badness 10000) detected at line 2323 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2333--2333 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [310] Underfull \hbox (badness 10000) detected at line 2370 [][][] Underfull \hbox (badness 10000) detected at line 2373 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2382--2382 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [311] Underfull \hbox (badness 10000) detected at line 2417 [][][] Underfull \hbox (badness 10000) detected at line 2420 [][][] [312] Underfull \hbox (badness 10000) detected at line 2506 [][][] Underfull \hbox (badness 10000) detected at line 2509 [][][] Underfull \hbox (badness 10000) detected at line 2512 [][][] [313] Underfull \hbox (badness 10000) detected at line 2560 [][][] Underfull \hbox (badness 10000) detected at line 2563 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2572--2572 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [314] Underfull \hbox (badness 10000) detected at line 2607 [][][] Underfull \hbox (badness 10000) detected at line 2610 [][][] [315] Underfull \hbox (badness 10000) detected at line 2700 [][][] Underfull \hbox (badness 10000) detected at line 2703 [][][] [316] Underfull \hbox (badness 10000) detected at line 2749 [][][] Underfull \hbox (badness 10000) detected at line 2752 [][][] Underfull \hbox (badness 10000) detected at line 2755 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 2765--2765 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [317] Underfull \hbox (badness 10000) detected at line 2802 [][][] Underfull \hbox (badness 10000) detected at line 2805 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 2814--2814 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [318] Underfull \hbox (badness 10000) detected at line 2849 [][][] Underfull \hbox (badness 10000) detected at line 2852 [][][] [319] Underfull \hbox (badness 10000) detected at line 2908 [][][] Underfull \hbox (badness 10000) detected at line 2911 [][][] [320] Underfull \hbox (badness 10000) detected at line 2949 [][][] Underfull \hbox (badness 10000) detected at line 2960 [][][] Underfull \hbox (badness 10000) detected at line 2963 [][][] [321] Underfull \hbox (badness 10000) detected at line 3049 [][][] Underfull \hbox (badness 10000) detected at line 3052 [][][] Underfull \hbox (badness 10000) detected at line 3055 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [322] Underfull \hbox (badness 10000) detected at line 3102 [][][] Underfull \hbox (badness 10000) detected at line 3105 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3114--3114 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [323] Underfull \hbox (badness 10000) detected at line 3149 [][][] Underfull \hbox (badness 10000) detected at line 3152 [][][] Underfull \hbox (badness 10000) detected at line 3190 [][][] [324] Underfull \hbox (badness 10000) detected at line 3193 [][][] Underfull \hbox (badness 10000) detected at line 3196 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3206--3206 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3243 [][][] Underfull \hbox (badness 10000) detected at line 3246 [][][] Underfull \hbox (badness 10000) detected at line 3249 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3258--3258 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [325] Underfull \hbox (badness 10000) detected at line 3291 [][][] [326] Underfull \hbox (badness 10000) detected at line 3345 [][][] [327] [328] [329] Underfull \hbox (badness 10000) detected at line 3501 [][][] [330] Underfull \hbox (badness 10000) detected at line 3559 [][][] Underfull \hbox (badness 10000) detected at line 3562 [][][] [331] Underfull \hbox (badness 10000) detected at line 3602 [][][] Underfull \hbox (badness 10000) detected at line 3605 [][][] Underfull \hbox (badness 10000) detected at line 3608 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3618--3618 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [332] Underfull \hbox (badness 10000) detected at line 3655 [][][] Underfull \hbox (badness 10000) detected at line 3658 [][][] Underfull \hbox (badness 10000) detected at line 3661 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 3670--3670 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [333] Underfull \hbox (badness 10000) detected at line 3719 [][][] Underfull \hbox (badness 10000) detected at line 3722 [][][] [334] Underfull \hbox (badness 10000) detected at line 3806 [][][] Underfull \hbox (badness 10000) detected at line 3809 [][][] [335] Underfull \hbox (badness 10000) detected at line 3907 [][][] [336] Underfull \hbox (badness 10000) detected at line 3910 [][][] Underfull \hbox (badness 10000) detected at line 3913 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 3923--3923 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 3960 [][][] Underfull \hbox (badness 10000) detected at line 3963 [][][] [337] Underfull \hbox (badness 10000) detected at line 3989 [][][] Underfull \hbox (badness 10000) detected at line 3992 [][][] Underfull \hbox (badness 10000) detected at line 4018 [][][] Underfull \hbox (badness 10000) detected at line 4021 [][][] [338] Underfull \hbox (badness 10000) detected at line 4051 [][][] Underfull \hbox (badness 10000) detected at line 4054 [][][] Underfull \hbox (badness 10000) detected at line 4057 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4067--4067 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [339] Underfull \hbox (badness 10000) detected at line 4104 [][][] Underfull \hbox (badness 10000) detected at line 4107 [][][] Underfull \hbox (badness 10000) detected at line 4110 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4119--4119 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [340] Underfull \hbox (badness 10000) detected at line 4154 [][][] Underfull \hbox (badness 10000) detected at line 4157 [][][] [341] Underfull \hbox (badness 10000) detected at line 4211 [][][] Underfull \hbox (badness 10000) detected at line 4239 [][][] [342] [343] Underfull \hbox (badness 10000) detected at line 4313 [][][] Underfull \hbox (badness 10000) detected at line 4316 [][][] [344] Underfull \hbox (badness 10000) detected at line 4406 [][][] Underfull \hbox (badness 10000) detected at line 4409 [][][] [345] Underfull \hbox (badness 10000) detected at line 4449 [][][] Underfull \hbox (badness 10000) detected at line 4452 [][][] [346] Underfull \hbox (badness 10000) detected at line 4494 [][][] Underfull \hbox (badness 10000) detected at line 4497 [][][] [347] Underfull \hbox (badness 10000) detected at line 4555 [][][] Underfull \hbox (badness 10000) detected at line 4558 [][][] Underfull \hbox (badness 10000) detected at line 4561 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 4571--4571 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] [348] Underfull \hbox (badness 10000) detected at line 4608 [][][] Underfull \hbox (badness 10000) detected at line 4611 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4620--4620 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4653 [][][] Underfull \hbox (badness 10000) detected at line 4656 [][][] Underfull \hbox (badness 10000) detected at line 4659 [][][] [349] Underfull \hbox (badness 10000) detected at line 4715 [][][] Underfull \hbox (badness 10000) detected at line 4718 [][][] [350] Underfull \hbox (badness 10000) detected at line 4750 [][][] Underfull \hbox (badness 10000) detected at line 4753 [][][] [351] Underfull \hbox (badness 10000) detected at line 4791 [][][] Underfull \hbox (badness 10000) detected at line 4794 [][][] Underfull \hbox (badness 10000) detected at line 4797 [][][] Overfull \hbox (20.88268pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute,[] Underfull \hbox (badness 10000) detected at line 4845 [][][] [352] Underfull \hbox (badness 10000) detected at line 4848 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 4892 [][][] Underfull \hbox (badness 10000) detected at line 4895 [][][] [353] Underfull \hbox (badness 10000) detected at line 4953 [][][] Underfull \hbox (badness 10000) detected at line 4956 [][][] [354] Underfull \hbox (badness 10000) detected at line 4988 [][][] Underfull \hbox (badness 10000) detected at line 4991 [][][] Underfull \hbox (badness 10000) detected at line 4994 [][][] Overfull \hbox (304.08286pt too wide) in paragraph at lines 5004--5004 []\T1/pcr/m/n/8 * Developed at the Pacific Northwest National Laboratory, oper ated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. De partment Energy.[] Underfull \hbox (badness 10000) detected at line 5041 [][][] Underfull \hbox (badness 10000) detected at line 5044 [][][] Underfull \hbox (badness 10000) detected at line 5047 [][][] [355] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 5056--5056 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] Underfull \hbox (badness 10000) detected at line 5091 [][][] Underfull \hbox (badness 10000) detected at line 5094 [][][] [356] Underfull \hbox (badness 10000) detected at line 5124 [][][] Underfull \hbox (badness 10000) detected at line 5127 [][][] Underfull \hbox (badness 10000) detected at line 5130 [][][] Underfull \hbox (badness 10000) detected at line 5160 [][][] Underfull \hbox (badness 10000) detected at line 5163 [][][] [357] Underfull \hbox (badness 10000) detected at line 5193 [][][] Underfull \hbox (badness 10000) detected at line 5196 [][][] Underfull \hbox (badness 10000) detected at line 5226 [][][] Underfull \hbox (badness 10000) detected at line 5229 [][][] [358] Underfull \hbox (badness 10000) detected at line 5257 [][][] Underfull \hbox (badness 10000) detected at line 5260 [][][] Underfull \hbox (badness 10000) detected at line 5288 [][][] Underfull \hbox (badness 10000) detected at line 5291 [][][] [359]) (./group___frontend.tex Underfull \hbox (badness 2495) in paragraph at lines 32--33 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Overfull \hbox (16.65858pt too wide) in paragraph at lines 40--41 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 42--43 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], [360] Underfull \hbox (badness 1910) in paragraph at lines 60--61 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 60--61 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 5817) in paragraph at lines 78--79 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 80--81 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [361] [362] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] [363] Underfull \hbox (badness 10000) detected at line 211 [][][] Underfull \hbox (badness 10000) detected at line 235 [][][] [364] Underfull \hbox (badness 10000) detected at line 275 [][][] Underfull \hbox (badness 10000) detected at line 297 [][][] [365] Underfull \hbox (badness 10000) detected at line 314 [][][] Underfull \hbox (badness 10000) detected at line 317 [][][] Underfull \hbox (badness 10000) detected at line 351 [][][] [366] Underfull \hbox (badness 10000) detected at line 373 [][][] Underfull \hbox (badness 10000) detected at line 390 [][][] Underfull \hbox (badness 10000) detected at line 393 [][][] [367] Underfull \hbox (badness 10000) detected at line 495 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [368] Underfull \hbox (badness 10000) detected at line 572 [][][] Underfull \hbox (badness 10000) detected at line 575 [][][] [369] Underfull \hbox (badness 10000) detected at line 625 [][][] Underfull \hbox (badness 10000) detected at line 649 [][][] [370] Underfull \hbox (badness 10000) detected at line 677 [][][] Underfull \hbox (badness 10000) detected at line 694 [][][] Underfull \hbox (badness 10000) detected at line 720 [][][] [371] Underfull \hbox (badness 10000) detected at line 748 [][][] Underfull \hbox (badness 10000) detected at line 772 [][][] Underfull \hbox (badness 10000) detected at line 792 [][][] [372] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 842 [][][] Underfull \hbox (badness 10000) detected at line 866 [][][] Underfull \hbox (badness 10000) detected at line 876 [][][] [373] Underfull \hbox (badness 10000) detected at line 895 [][][] Underfull \hbox (badness 10000) detected at line 909 [][][] Underfull \hbox (badness 10000) detected at line 912 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] Underfull \hbox (badness 10000) detected at line 939 [][][] [374] Underfull \hbox (badness 10000) detected at line 958 [][][] Underfull \hbox (badness 10000) detected at line 961 [][][] Underfull \hbox (badness 10000) detected at line 981 [][][] Underfull \hbox (badness 10000) detected at line 984 [][][] Underfull \hbox (badness 10000) detected at line 1010 [][][] Underfull \hbox (badness 10000) detected at line 1013 [][][] [375] Underfull \hbox (badness 10000) detected at line 1035 [][][] Underfull \hbox (badness 10000) detected at line 1045 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1067 [][][] [376] Underfull \hbox (badness 10000) detected at line 1091 [][][] Underfull \hbox (badness 10000) detected at line 1105 [][][] Underfull \hbox (badness 10000) detected at line 1122 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] Underfull \hbox (badness 10000) in paragraph at lines 1135--1136 Underfull \hbox (badness 10000) detected at line 1138 [][][] [377] Underfull \hbox (badness 10000) detected at line 1166 [][][] Underfull \hbox (badness 10000) detected at line 1180 [][][] Underfull \hbox (badness 10000) detected at line 1201 [][][] Underfull \hbox (badness 10000) detected at line 1204 [][][] [378] Underfull \hbox (badness 10000) detected at line 1228 [][][] Underfull \hbox (badness 10000) detected at line 1231 [][][] Underfull \hbox (badness 10000) detected at line 1259 [][][] Underfull \hbox (badness 10000) detected at line 1262 [][][] [379] Underfull \hbox (badness 10000) detected at line 1288 [][][] Underfull \hbox (badness 10000) detected at line 1291 [][][] Underfull \hbox (badness 10000) detected at line 1319 [][][] Underfull \hbox (badness 10000) detected at line 1322 [][][] [380] Underfull \hbox (badness 10000) detected at line 1348 [][][] Underfull \hbox (badness 10000) detected at line 1377 [][][] Underfull \hbox (badness 10000) detected at line 1380 [][][] [381] Underfull \hbox (badness 10000) detected at line 1408 [][][] Underfull \hbox (badness 10000) detected at line 1432 [][][] Underfull \hbox (badness 10000) detected at line 1454 [][][] Underfull \hbox (badness 10000) detected at line 1468 [][][] [382] Underfull \hbox (badness 10000) detected at line 1485 [][][] Underfull \hbox (badness 10000) detected at line 1497 [][][] Underfull \hbox (badness 10000) detected at line 1514 [][][] Underfull \hbox (badness 10000) detected at line 1528 [][][] [383] Underfull \hbox (badness 10000) detected at line 1562 [][][] Underfull \hbox (badness 10000) detected at line 1574 [][][] Underfull \hbox (badness 10000) detected at line 1591 [][][] Underfull \hbox (badness 10000) detected at line 1608 [][][] [384] Underfull \hbox (badness 10000) detected at line 1636 [][][] Underfull \hbox (badness 10000) detected at line 1650 [][][] [385] Underfull \hbox (badness 10000) detected at line 1688 [][][] Underfull \hbox (badness 10000) detected at line 1716 [][][] Underfull \hbox (badness 10000) detected at line 1733 [][][] [386] Underfull \hbox (badness 10000) detected at line 1747 [][][] Underfull \hbox (badness 10000) detected at line 1764 [][][] Underfull \hbox (badness 10000) detected at line 1792 [][][] [387] Underfull \hbox (badness 10000) detected at line 1809 [][][] Underfull \hbox (badness 10000) detected at line 1823 [][][] ) [388] Chapter 8. (./struct_atom_force.tex Underfull \hbox (badness 10000) detected at line 32 [][][] [389]) (./structs_a_p_o_lparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/apolparm.[] [390] Underfull \hbox (badness 10000) detected at line 88 [][][] [391] Underfull \hbox (badness 10000) detected at line 224 [][][] [392] Underfull \hbox (badness 10000) detected at line 237 [][][] Underfull \hbox (badness 10000) detected at line 250 [][][] Underfull \hbox (badness 10000) detected at line 263 [][][] Underfull \hbox (badness 10000) detected at line 276 [][][] Underfull \hbox (badness 10000) detected at line 289 [][][] Underfull \hbox (badness 10000) detected at line 302 [][][] [393] Underfull \hbox (badness 10000) detected at line 315 [][][] Underfull \hbox (badness 10000) detected at line 328 [][][] Underfull \hbox (badness 10000) detected at line 341 [][][] Underfull \hbox (badness 10000) detected at line 354 [][][] Underfull \hbox (badness 10000) detected at line 367 [][][] Underfull \hbox (badness 10000) detected at line 380 [][][] [394]) (./structs_b_e_mparm.tex [395] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/bemparm.[] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] [396] Underfull \hbox (badness 10000) detected at line 129 [][][] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 155 [][][] [397] Underfull \hbox (badness 10000) detected at line 168 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 194 [][][] ) (./structs_f_e_mparm.tex Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/femparm.[] [398] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) in paragraph at lines 84--85 [399] [400] [401]) (./structs_g_e_o_f_l_o_wparm.tex Overfull \hbox (42.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/geoflowparm.[] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [402]) (./structs_m_gparm.tex [403] Underfull \hbox (badness 10000) detected at line 120 [][][] Underfull \hbox (badness 10000) detected at line 123 [][][] [404] Underfull \hbox (badness 10000) in paragraph at lines 149--150 Underfull \hbox (badness 10000) in paragraph at lines 180--181 [405] Underfull \hbox (badness 10000) in paragraph at lines 261--262 [406] [407] Underfull \hbox (badness 10000) detected at line 434 [][][] Underfull \hbox (badness 10000) detected at line 447 [][][] Underfull \hbox (badness 10000) detected at line 460 [][][] Underfull \hbox (badness 10000) detected at line 473 [][][] [408] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] [409] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [410] Underfull \hbox (badness 10000) detected at line 642 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 668 [][][] ) (./structs_n_osh.tex [411] Underfull \hbox (badness 10000) detected at line 108 [][][] [412] [413] [414] [415] [416] [417]) (./structs_n_osh__calc.tex Underfull \hbox (badness 10000) detected at line 38 [][][] [418]) (./structs_p_b_a_mparm.tex Overfull \hbox (24.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbamparm.[] [419] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] [420] [421] [422] [423]) (./structs_p_b_eparm.tex [424] Overfull \hbox (18.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbeparm.[] [425] Underfull \hbox (badness 10000) detected at line 142 [][][] Underfull \hbox (badness 10000) detected at line 145 [][][] [426] [427] [428] Underfull \hbox (badness 10000) detected at line 391 [][][] Underfull \hbox (badness 10000) detected at line 404 [][][] Underfull \hbox (badness 10000) detected at line 417 [][][] Underfull \hbox (badness 10000) detected at line 430 [][][] [429] Underfull \hbox (badness 10000) detected at line 473 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] Underfull \hbox (badness 10000) detected at line 499 [][][] Underfull \hbox (badness 10000) detected at line 512 [][][] [430] Underfull \hbox (badness 10000) detected at line 525 [][][] Underfull \hbox (badness 10000) detected at line 538 [][][] Underfull \hbox (badness 10000) detected at line 551 [][][] Underfull \hbox (badness 10000) detected at line 564 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] [431] Underfull \hbox (badness 10000) detected at line 603 [][][] Underfull \hbox (badness 10000) detected at line 616 [][][] Underfull \hbox (badness 10000) detected at line 629 [][][] [432] [433]) (./structs_p_b_s_a_mparm.tex Overfull \hbox (30.72807pt too wide) in paragraph at lines 10--11 []\T1/pcr/m/n/10 #include $\OML/cmm/m/it/10 <$\T1/pcr/m/n/10 /builddir/build/[] BUILD/apbs-3.[]0.[]0-build/apbs-3.[]0.[]0/src/generic/pbsamparm.[] [434] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [435]) (./structs_vacc.tex [436] Underfull \hbox (badness 10000) detected at line 36 [][][] [437]) (./structs_vacc_surf.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [438]) (./structs_valist.tex [439] Underfull \hbox (badness 10000) detected at line 36 [][][] [440]) (./structs_vatom.tex Underfull \hbox (badness 10000) detected at line 36 [][][] [441] Underfull \hbox (badness 10000) in paragraph at lines 62--63 Underfull \hbox (badness 10000) in paragraph at lines 93--94 Underfull \hbox (badness 10000) in paragraph at lines 114--115 ) (./structs_vclist.tex [442] Underfull \hbox (badness 10000) detected at line 40 [][][] [443]) (./structs_vclist_cell.tex [444] Underfull \hbox (badness 10000) detected at line 24 [][][] ) (./structs_vcsm.tex Underfull \hbox (badness 10000) detected at line 42 [][][] [445] [446]) (./structs_vfetk.tex Underfull \hbox (badness 10000) detected at line 60 [][][] [447] Underfull \hbox (badness 10000) in paragraph at lines 116--117 [448] [449]) (./structs_vfetk___local_var.tex [450] Underfull \hbox (badness 10000) detected at line 86 [][][] [451] [452] [453]) (./structs_vgreen.tex [454] Underfull \hbox (badness 10000) detected at line 34 [][][] [455]) (./structs_vgrid.tex Underfull \hbox (badness 10000) detected at line 52 [][][] [456] [457]) (./structs_vmgrid.tex Underfull \hbox (badness 10000) detected at line 24 [][][] [458]) (./structs_vopot.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [459]) (./structs_vparam___atom_data.tex Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] [460]) (./structs_vpbe.tex [461] Underfull \hbox (badness 10000) detected at line 86 [][][] [462] [463] [464]) (./structs_vpee.tex [465] Underfull \hbox (badness 10000) detected at line 34 [][][] [466]) (./structs_vpmg.tex [467] Underfull \hbox (badness 10000) detected at line 116 [][][] [468] [469] [470] [471] [472]) (./structs_vpmgp.tex [473] [474] Underfull \hbox (badness 10000) detected at line 126 [][][] Underfull \hbox (badness 10000) in paragraph at lines 164--165 Underfull \hbox (badness 10000) in paragraph at lines 175--176 Underfull \hbox (badness 10000) in paragraph at lines 186--187 [475] Underfull \hbox (badness 10000) in paragraph at lines 234--235 [476] [477] [478] [479] Underfull \hbox (badness 10000) in paragraph at lines 506--507 [480] Underfull \hbox (badness 10000) in paragraph at lines 527--528 Underfull \hbox (badness 10000) in paragraph at lines 548--549 Underfull \hbox (badness 10000) in paragraph at lines 589--590 [481] Underfull \hbox (badness 10000) in paragraph at lines 630--631 Underfull \hbox (badness 10000) in paragraph at lines 671--672 [482]) (./struct_vparam.tex Underfull \hbox (badness 10000) detected at line 26 [][][] [483]) (./struct_vparam___res_data.tex Underfull \hbox (badness 10000) detected at line 28 [][][] [484]) [485] [486] Chapter 9. (./mainpage_8h_source.tex) (./apbs_8h.tex <./apbs_8h__incl.pdf> <./apbs_8h__dep __incl.pdf> [487] Underfull \hbox (badness 10000) detected at line 50 [][][] Underfull \hbox (badness 10000) detected at line 53 [][][] Underfull \hbox (badness 10000) detected at line 56 [][][] [488]) (./apbs_8h_source.tex) (./vcsm_8c.tex [489] <./vcsm_8c__incl.pdf> [490] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] [491]) (./vcsm_8c_source.tex [492] [493] [494] [495] [496] [497]) (./vcsm_8h.tex <./vcsm_8h__incl.pdf> <./vcsm_8h__dep__incl.pdf> [498] [499] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 81 [][][] [500]) (./vcsm_8h_source.tex [501]) (./vfetk_8c.tex [502] <./vfetk_8c__incl.pdf > [503] [504] Underfull \hbox (badness 10000) detected at line 162 [][][] Underfull \hbox (badness 10000) detected at line 165 [][][] [505] Underfull \hbox (badness 10000) detected at line 168 [][][] [506] [507] [508] [509]) (./vfetk_8c_source.tex [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539]) (./vfetk_8h.tex [540] <./vfetk_8h__incl.pdf> <./vfetk_8h__dep__inc l.pdf> [541] [542] [543] Underfull \hbox (badness 10000) detected at line 187 [][][] [544] Underfull \hbox (badness 10000) detected at line 190 [][][] Underfull \hbox (badness 10000) detected at line 193 [][][] ) (./vfetk_8h_source.tex [545] [546] [547] [548] [549] [550]) (./vpee_8c.tex <. /vpee_8c__incl.pdf> [551] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] Underfull \hbox (badness 10000) detected at line 55 [][][] [552]) (./vpee_8c_source.tex [553] [554] [555] [556] [557] [558]) (./vpee_8h.tex <./vpee_8h__incl.pdf> [559] <./vpee_8h__dep__incl.pdf> [560] Underfull \hbox (badness 10000) detected at line 55 [][][] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] [561]) (./vpee_8h_source.tex [562]) (./apolparm_8c.tex <./apolparm_8c__incl.pdf > [563] Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [564] [565]) (./apolparm_8c_source.tex [566] [567] [568] [569] [570] [571] [572] [573]) (./apolparm_8h_source.tex [574]) (./bemparm_8c.tex <./bemparm_8c__ incl.pdf> [575] [576] Underfull \hbox (badness 10000) detected at line 48 [][][] Underfull \hbox (badness 10000) detected at line 51 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] [577] Underfull \hbox (badness 10000) detected at line 120 [][][] ) (./bemparm_8c_source.tex [578] [579] [580] [581]) (./bemparm_8h_source.tex [582]) (./femparm_8c.tex <./femparm_8c__incl.pdf> [583] [584] Underfull \hbox (badness 10000) detected at line 58 [][][] Underfull \hbox (badness 10000) detected at line 61 [][][] Underfull \hbox (badness 10000) detected at line 64 [][][] [585] [586]) (./femparm_8c_source.tex [587] [588] [589] [590] [591]) (./femparm_8h.tex <./femparm_8h__incl.pdf> [592] <./femparm_8h__dep__incl.pdf> [593] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [594] Underfull \hbox (badness 10000) detected at line 93 [][][] ) (./femparm_8h_source.tex [595]) (./geoflowparm_8c.tex <./geoflowparm_8c__incl .pdf> [596] [597] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 52 [][][] [598]) (./geoflowparm_8c_source.tex [599] [600]) (./geoflowparm_8h.tex <./geofl owparm_8h__incl.pdf> [601] <./geoflowparm_8h__dep__incl.pdf> [602] [603] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [604]) (./geoflowparm_8h_source.tex [605]) (./mgparm_8c.tex <./mgparm_8c__incl. pdf> [606] [607] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] [608] [609]) (./mgparm_8c_source.tex [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621]) (./mgparm_8h.tex <./mgparm_8h__incl.pdf> [622] <./mgparm_8h__dep__incl.pdf> [623] [624] Underfull \hbox (badness 10000) detected at line 102 [][][] Underfull \hbox (badness 10000) detected at line 105 [][][] Underfull \hbox (badness 10000) detected at line 108 [][][] [625]) (./mgparm_8h_source.tex [626]) (./nosh_8c.tex <./nosh_8c__incl.pdf> [627] [628] [629] Underfull \hbox (badness 10000) detected at line 150 [][][] Underfull \hbox (badness 10000) detected at line 153 [][][] Underfull \hbox (badness 10000) detected at line 156 [][][] [630] [631] [632] [633] [634]) (./nosh_8c_source.tex [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] [666] [667] [668] [669] [670] [671] [672] [673] [674]) (./nosh_8h.tex <./nosh_8h__incl.pdf> [675] <./nosh_8h__dep__incl.pdf> [676] [677] [678] Underfull \hbox (badness 10000) detected at line 169 [][][] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] ) (./nosh_8h_source.tex [679] [680] [681]) (./pbamparm_8c.tex <./pbamparm_8c__i ncl.pdf> [682] [683] Underfull \hbox (badness 10000) detected at line 68 [][][] Underfull \hbox (badness 10000) detected at line 71 [][][] Underfull \hbox (badness 10000) detected at line 74 [][][] [684]) (./pbamparm_8c_source.tex [685] [686] [687] [688] [689] [690] [691] [692] [693]) (./pbamparm_8h.tex <./pbamparm_8h__incl.pdf> <./pbamparm_8h__dep__ incl.pdf> [694] [695] Underfull \hbox (badness 10000) detected at line 100 [][][] [696] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [697]) (./pbamparm_8h_source.tex [698]) (./pbeparm_8c.tex [699] <./pbeparm_8c__ incl.pdf> [700] Underfull \hbox (badness 10000) detected at line 100 [][][] Underfull \hbox (badness 10000) detected at line 103 [][][] Underfull \hbox (badness 10000) detected at line 106 [][][] [701] [702] [703] [704] [705]) (./pbeparm_8c_source.tex [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720]) (./pbeparm_8h.tex <./pbeparm_8h__incl.pdf> [721] <./pbeparm_8h__dep__incl.pdf> [722] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] [723]) (./pbeparm_8h_source.tex [724] [725]) (./pbsamparm_8c.tex <./pbsamparm_8 c__incl.pdf> [726] [727] Underfull \hbox (badness 10000) detected at line 48 [][][] Underfull \hbox (badness 10000) detected at line 51 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] [728]) (./pbsamparm_8c_source.tex [729] [730]) (./pbsamparm_8h.tex [731] <./pbs amparm_8h__incl.pdf> <./pbsamparm_8h__dep__incl.pdf> [732] [733] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] Underfull \hbox (badness 10000) detected at line 90 [][][] [734]) (./pbsamparm_8h_source.tex [735]) (./vacc_8c.tex <./vacc_8c__incl.pdf> [736] [737] [738] Underfull \hbox (badness 10000) detected at line 106 [][][] Underfull \hbox (badness 10000) detected at line 109 [][][] Underfull \hbox (badness 10000) detected at line 112 [][][] [739] Underfull \hbox (badness 10000) detected at line 178 [][][] Underfull \hbox (badness 10000) detected at line 181 [][][] Underfull \hbox (badness 10000) detected at line 207 [][][] Underfull \hbox (badness 10000) detected at line 210 [][][] [740] [741]) (./vacc_8c_source.tex [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764]) (./vacc_8h.tex <./vacc_8h__incl.pdf> <./vacc_8h__dep__ incl.pdf> [765] [766] [767] Underfull \hbox (badness 10000) detected at line 121 [][][] Underfull \hbox (badness 10000) detected at line 124 [][][] Underfull \hbox (badness 10000) detected at line 127 [][][] [768]) (./vacc_8h_source.tex [769] [770] [771]) (./valist_8c.tex <./valist_8c__ incl.pdf> [772] [773] Underfull \hbox (badness 2293) in paragraph at lines 53--55 []\T1/phv/m/n/10 VPRIVATE Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/ m/n/10 thee, Vio $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 sock, int $\OMS/cmsy/m/n/ 10 ^^C$\T1/phv/m/n/10 serial, char atom[] Underfull \hbox (badness 10000) detected at line 81 [][][] Underfull \hbox (badness 10000) detected at line 84 [][][] Underfull \hbox (badness 10000) detected at line 87 [][][] [774] [775] [776]) (./valist_8c_source.tex [777] [778] [779] [780] [781] [782] [783] [784] [785] [786]) (./valist_8h.tex [787] <./valist_8h__incl.pdf> < ./valist_8h__dep__incl.pdf> [788] Underfull \hbox (badness 10000) detected at line 75 [][][] Underfull \hbox (badness 10000) detected at line 78 [][][] Underfull \hbox (badness 10000) detected at line 81 [][][] [789]) (./valist_8h_source.tex [790] [791]) (./vatom_8c.tex <./vatom_8c__incl.p df> [792] Underfull \hbox (badness 10000) detected at line 70 [][][] Underfull \hbox (badness 10000) detected at line 73 [][][] Underfull \hbox (badness 10000) detected at line 76 [][][] [793]) (./vatom_8c_source.tex [794] [795] [796]) (./vatom_8h.tex <./vatom_8h__i ncl.pdf> [797] <./vatom_8h__dep__incl.pdf> [798] [799] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] ) (./vatom_8h_source.tex [800] [801]) (./vcap_8c.tex <./vcap_8c__incl.pdf> [802] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] Underfull \hbox (badness 10000) detected at line 36 [][][] [803]) (./vcap_8c_source.tex [804]) (./vcap_8h.tex <./vcap_8h__incl.pdf> <./vca p_8h__dep__incl.pdf> [805] Underfull \hbox (badness 10000) detected at line 45 [][][] Underfull \hbox (badness 10000) detected at line 48 [][][] [806] Underfull \hbox (badness 10000) detected at line 51 [][][] ) (./vcap_8h_source.tex [807]) (./vclist_8c.tex <./vclist_8c__incl.pdf> Underfull \hbox (badness 4060) in paragraph at lines 31--33 []\T1/phv/m/n/10 VPRIVATE void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 thee , dou-ble lower[]_[]corner[][][], dou-ble upper[]_[] [808] Underfull \hbox (badness 1297) in paragraph at lines 43--44 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m /n/10 thee, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 alist, dou-ble max[]_[]radi us, int npts[][][], Underfull \hbox (badness 10000) detected at line 64 [][][] Underfull \hbox (badness 10000) detected at line 67 [][][] Underfull \hbox (badness 10000) detected at line 70 [][][] [809] [810]) (./vclist_8c_source.tex [811] [812] [813] [814] [815]) (./vclist_8h.tex [816] <./vclist_8h__incl.pdf> <./vclist_8h__dep__incl.pdf> [817] [818] Underfull \hbox (badness 10000) detected at line 82 [][][] Underfull \hbox (badness 10000) detected at line 85 [][][] Underfull \hbox (badness 10000) detected at line 88 [][][] [819]) (./vclist_8h_source.tex [820]) (./vgreen_8c.tex <./vgreen_8c__incl.pdf> [821] [822] Underfull \hbox (badness 10000) detected at line 54 [][][] Underfull \hbox (badness 10000) detected at line 57 [][][] Underfull \hbox (badness 10000) detected at line 60 [][][] [823]) (./vgreen_8c_source.tex [824] [825] [826] [827] [828] [829]) (./vgreen_8h.tex <./vgreen_8h__incl.pdf> [830] <./vgreen_8h__dep__incl.pdf> [831] Underfull \hbox (badness 10000) detected at line 70 [][][] Underfull \hbox (badness 10000) detected at line 73 [][][] ) (./vgreen_8h_source.tex [832]) (./vhal_8h.tex [833] <./vhal_8h__incl.pdf> <./ vhal_8h__dep__incl.pdf> [834] [835] [836] [837] Underfull \hbox (badness 10000) detected at line 301 [][][] Underfull \hbox (badness 10000) detected at line 304 [][][] Underfull \hbox (badness 10000) detected at line 307 [][][] Overfull \hbox (1744.08377pt too wide) in paragraph at lines 316--316 []\T1/pcr/m/n/8 * Copyright (c) 2010-2020 Battelle Memorial Institute. Develop ed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyrig ht (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regen ts of the University of California. Portions Copyright (c) 1995, Michael Holst. [] [838] [839] [840] [841] [842] [843] [844]) (./vhal_8h_source.tex [845] [846] [847] [848] [849] [850] [851] [852]) (./vmatrix_8h.tex <./vmatrix_8h__dep__incl .pdf> [853] Underfull \hbox (badness 10000) detected at line 35 [][][] Underfull \hbox (badness 10000) detected at line 38 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] [854] [855]) (./vmatrix_8h_source.tex [856]) (./vparam_8c.tex <./vparam_8c__inc l.pdf> [857] Underfull \hbox (badness 10000) detected at line 77 [][][] [858] Underfull \hbox (badness 10000) detected at line 80 [][][] Underfull \hbox (badness 10000) detected at line 83 [][][] ) (./vparam_8c_source.tex [859] [860] [861] [862] [863] [864] [865] [866]) (./vparam_8h.tex [867] <./vparam_8h__incl.pdf> <./vparam_8h__dep__incl.pdf> [868] [869] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] Underfull \hbox (badness 10000) detected at line 100 [][][] [870]) (./vparam_8h_source.tex [871]) (./vpbe_8c.tex <./vpbe_8c__incl.pdf> [872] [873] Underfull \hbox (badness 10000) detected at line 89 [][][] Underfull \hbox (badness 10000) detected at line 92 [][][] Underfull \hbox (badness 10000) detected at line 95 [][][] [874]) (./vpbe_8c_source.tex [875] [876] [877] [878] [879] [880]) (./vpbe_8h.tex <./vpbe_8h__incl.pdf> [881] <./vpbe_8h__dep__incl.pdf> [882] [883] Underfull \hbox (badness 10000) detected at line 109 [][][] Underfull \hbox (badness 10000) detected at line 112 [][][] Underfull \hbox (badness 10000) detected at line 115 [][][] [884]) (./vpbe_8h_source.tex [885] [886]) (./vstring_8c.tex <./vstring_8c__incl .pdf> [887] Underfull \hbox (badness 10000) detected at line 30 [][][] Underfull \hbox (badness 10000) detected at line 33 [][][] Underfull \hbox (badness 10000) detected at line 36 [][][] [888]) (./vstring_8c_source.tex [889] [890]) (./vstring_8h.tex <./vstring_8h__i ncl.pdf> [891] <./vstring_8h__dep__incl.pdf> Underfull \hbox (badness 10000) detected at line 39 [][][] Underfull \hbox (badness 10000) detected at line 42 [][][] [892] Underfull \hbox (badness 10000) detected at line 45 [][][] ) (./vstring_8h_source.tex [893]) (./vunit_8h.tex <./vunit_8h__dep__incl.pdf> [894] LaTeX Warning: Command \r invalid in math mode on input line 41. Missing character: There is no Å in font cmr9! Underfull \hbox (badness 10000) detected at line 49 [][][] Underfull \hbox (badness 10000) detected at line 54 [][][] Underfull \hbox (badness 10000) detected at line 57 [][][] [895]) (./vunit_8h_source.tex) (./main_8c.tex <./main_8c__incl.pdf> [896] Underfull \hbox (badness 10000) detected at line 27 [][][] Underfull \hbox (badness 10000) detected at line 40 [][][] Underfull \hbox (badness 10000) detected at line 43 [][][] [897]) (./main_8c_source.tex [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908]) (./vgrid_8c.tex <./vgrid_8c__incl.pdf> [909] [910] Underfull \hbox (badness 10000) detected at line 83 [][][] Underfull \hbox (badness 10000) detected at line 86 [][][] Underfull \hbox (badness 10000) detected at line 89 [][][] [911] Underfull \hbox (badness 10000) detected at line 173 [][][] [912]) (./vgrid_8c_source.tex [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935]) (./vgrid_8h.tex <./vgrid_8h__incl.pdf> [936] <./vgrid_ 8h__dep__incl.pdf> [937] [938] Underfull \hbox (badness 10000) detected at line 91 [][][] Underfull \hbox (badness 10000) detected at line 94 [][][] Underfull \hbox (badness 10000) detected at line 97 [][][] [939] Underfull \hbox (badness 10000) detected at line 163 [][][] ) (./vgrid_8h_source.tex [940] [941]) (./vmgrid_8c.tex <./vmgrid_8c__incl.pdf> [942] [943] Underfull \hbox (badness 10000) detected at line 40 [][][] Underfull \hbox (badness 10000) detected at line 43 [][][] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] Overfull \hbox (1024.08331pt too wide) in paragraph at lines 58--58 []\T1/pcr/m/n/8 * Copyright (c) 2010, Pacific Northwest National Laboratory. Portions Copyright (c) 2002-2020, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2020, T he Regents of the University of California. Portions Copyright (c) 1995, Michae l Holst.[] ) (./vmgrid_8c_source.tex [944] [945] [946]) (./vmgrid_8h.tex <./vmgrid_8h__inc l.pdf> <./vmgrid_8h__dep__incl.pdf> [947] [948] Underfull \hbox (badness 10000) detected at line 69 [][][] Underfull \hbox (badness 10000) detected at line 72 [][][] Underfull \hbox (badness 10000) detected at line 75 [][][] [949]) (./vmgrid_8h_source.tex) (./vopot_8c.tex [950] <./vopot_8c__incl.pdf> Underfull \hbox (badness 10000) detected at line 43 [][][] Underfull \hbox (badness 10000) detected at line 46 [][][] Underfull \hbox (badness 10000) detected at line 49 [][][] [951]) (./vopot_8c_source.tex [952] [953] [954] [955] [956]) (./vopot_8h.tex <. /vopot_8h__incl.pdf> <./vopot_8h__dep__incl.pdf> [957] [958] Underfull \hbox (badness 10000) detected at line 63 [][][] Underfull \hbox (badness 10000) detected at line 66 [][][] Underfull \hbox (badness 10000) detected at line 69 [][][] ) (./vopot_8h_source.tex [959]) (./vpmg_8c.tex <./vpmg_8c__incl.pdf> [960] [961] [962] [963] Underfull \hbox (badness 10000) detected at line 172 [][][] Underfull \hbox (badness 10000) detected at line 175 [][][] Underfull \hbox (badness 10000) detected at line 178 [][][] [964] Underfull \hbox (badness 10000) detected at line 260 [][][] [965] Underfull \hbox (badness 10000) detected at line 287 [][][] [966] Underfull \hbox (badness 10000) detected at line 383 [][][] Underfull \hbox (badness 10000) detected at line 386 [][][] Underfull \hbox (badness 10000) detected at line 408 [][][] Underfull \hbox (badness 10000) detected at line 411 [][][] [967] Underfull \hbox (badness 10000) detected at line 433 [][][] Underfull \hbox (badness 10000) detected at line 436 [][][] Underfull \hbox (badness 10000) detected at line 458 [][][] Underfull \hbox (badness 10000) detected at line 461 [][][] Underfull \hbox (badness 10000) detected at line 483 [][][] Underfull \hbox (badness 10000) detected at line 486 [][][] [968] Underfull \hbox (badness 10000) detected at line 508 [][][] Underfull \hbox (badness 10000) detected at line 511 [][][] Underfull \hbox (badness 10000) detected at line 533 [][][] Underfull \hbox (badness 10000) detected at line 536 [][][] Underfull \hbox (badness 10000) detected at line 553 [][][] Underfull \hbox (badness 10000) detected at line 556 [][][] [969] Underfull \hbox (badness 10000) detected at line 573 [][][] Underfull \hbox (badness 10000) detected at line 590 [][][] Underfull \hbox (badness 10000) detected at line 607 [][][] Underfull \hbox (badness 10000) detected at line 624 [][][] Underfull \hbox (badness 10000) detected at line 641 [][][] [970] Underfull \hbox (badness 10000) detected at line 658 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 696 [][][] Underfull \hbox (badness 10000) detected at line 699 [][][] Underfull \hbox (badness 10000) detected at line 716 [][][] [971] Underfull \hbox (badness 10000) detected at line 733 [][][] Underfull \hbox (badness 10000) detected at line 750 [][][] Underfull \hbox (badness 10000) detected at line 767 [][][] Underfull \hbox (badness 10000) detected at line 794 [][][] [972] Underfull \hbox (badness 10000) detected at line 831 [][][] [973] Underfull \hbox (badness 10000) detected at line 875 [][][] [974] Underfull \hbox (badness 10000) detected at line 925 [][][] Underfull \hbox (badness 10000) detected at line 947 [][][] [975] Underfull \hbox (badness 10000) detected at line 969 [][][] Underfull \hbox (badness 10000) detected at line 991 [][][] Underfull \hbox (badness 10000) detected at line 994 [][][] Underfull \hbox (badness 10000) detected at line 1011 [][][] Underfull \hbox (badness 10000) detected at line 1014 [][][] Underfull \hbox (badness 10000) detected at line 1036 [][][] Underfull \hbox (badness 10000) detected at line 1039 [][][] [976] Underfull \hbox (badness 10000) detected at line 1061 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] Underfull \hbox (badness 10000) detected at line 1096 [][][] [977] Underfull \hbox (badness 10000) detected at line 1113 [][][] Underfull \hbox (badness 10000) detected at line 1145 [][][] Underfull \hbox (badness 10000) detected at line 1148 [][][] ) (./vpmg_8c_source.tex [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113]) (./vpmg_8h.tex <./vpmg_8h__incl.pdf> [1114] <./vpmg_8h__dep__incl.pdf> [1115] [1116] [1117] [1118] [1119] Underfull \hbox (badness 10000) detected at line 233 [][][] Underfull \hbox (badness 10000) detected at line 236 [][][] Underfull \hbox (badness 10000) detected at line 239 [][][] [1120] [1121] Underfull \hbox (badness 10000) detected at line 439 [][][] [1122] Underfull \hbox (badness 10000) detected at line 456 [][][] Underfull \hbox (badness 10000) detected at line 502 [][][] [1123] Underfull \hbox (badness 10000) detected at line 505 [][][] Underfull \hbox (badness 10000) detected at line 527 [][][] Underfull \hbox (badness 10000) detected at line 530 [][][] Underfull \hbox (badness 10000) detected at line 552 [][][] Underfull \hbox (badness 10000) detected at line 555 [][][] Underfull \hbox (badness 10000) detected at line 577 [][][] [1124] Underfull \hbox (badness 10000) detected at line 580 [][][] Underfull \hbox (badness 10000) detected at line 602 [][][] Underfull \hbox (badness 10000) detected at line 605 [][][] Underfull \hbox (badness 10000) detected at line 627 [][][] Underfull \hbox (badness 10000) detected at line 630 [][][] [1125] Underfull \hbox (badness 10000) detected at line 652 [][][] Underfull \hbox (badness 10000) detected at line 655 [][][] Underfull \hbox (badness 10000) detected at line 672 [][][] Underfull \hbox (badness 10000) detected at line 675 [][][] Underfull \hbox (badness 10000) detected at line 692 [][][] Underfull \hbox (badness 10000) detected at line 709 [][][] [1126] Underfull \hbox (badness 10000) detected at line 726 [][][] Underfull \hbox (badness 10000) detected at line 743 [][][] Underfull \hbox (badness 10000) detected at line 760 [][][] Underfull \hbox (badness 10000) detected at line 777 [][][] Underfull \hbox (badness 10000) detected at line 794 [][][] [1127] Underfull \hbox (badness 10000) detected at line 815 [][][] Underfull \hbox (badness 10000) detected at line 818 [][][] Underfull \hbox (badness 10000) detected at line 835 [][][] Underfull \hbox (badness 10000) detected at line 852 [][][] Underfull \hbox (badness 10000) detected at line 869 [][][] [1128] Underfull \hbox (badness 10000) detected at line 886 [][][] Underfull \hbox (badness 10000) detected at line 903 [][][] Underfull \hbox (badness 10000) detected at line 916 [][][] Underfull \hbox (badness 10000) detected at line 929 [][][] [1129] Underfull \hbox (badness 10000) detected at line 946 [][][] Underfull \hbox (badness 10000) detected at line 990 [][][] [1130] Underfull \hbox (badness 10000) detected at line 1020 [][][] Underfull \hbox (badness 10000) detected at line 1042 [][][] Underfull \hbox (badness 10000) detected at line 1064 [][][] [1131] Underfull \hbox (badness 10000) detected at line 1086 [][][] Underfull \hbox (badness 10000) detected at line 1089 [][][] Underfull \hbox (badness 10000) detected at line 1106 [][][] Underfull \hbox (badness 10000) detected at line 1109 [][][] Underfull \hbox (badness 10000) detected at line 1131 [][][] Underfull \hbox (badness 10000) detected at line 1134 [][][] [1132] Underfull \hbox (badness 10000) detected at line 1156 [][][] Underfull \hbox (badness 10000) detected at line 1159 [][][] Underfull \hbox (badness 10000) detected at line 1191 [][][] Underfull \hbox (badness 10000) detected at line 1208 [][][] [1133] Underfull \hbox (badness 10000) detected at line 1240 [][][] Underfull \hbox (badness 10000) detected at line 1243 [][][] ) (./vpmg_8h_source.tex [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142]) (./vpmgp_8c.tex <./vpmgp_8c__incl.pdf> [1143] Underfull \hbox (badness 10000) detected at line 38 [][][] Underfull \hbox (badness 10000) detected at line 41 [][][] Underfull \hbox (badness 10000) detected at line 44 [][][] [1144]) (./vpmgp_8c_source.tex [1145] [1146] [1147]) (./vpmgp_8h.tex [1148] <./ vpmgp_8h__incl.pdf> <./vpmgp_8h__dep__incl.pdf> [1149] [1150] Underfull \hbox (badness 10000) detected at line 56 [][][] Underfull \hbox (badness 10000) detected at line 59 [][][] Underfull \hbox (badness 10000) detected at line 62 [][][] Underfull \hbox (badness 10000) detected at line 65 [][][] [1151]) (./vpmgp_8h_source.tex [1152]) (./build_ad_8c_source.tex [1153] [1154] [1155]) (./build_ad_8h_source.tex [1156]) (./build_bd_8c_source.tex [1157] [1158] [1159] [1160]) (./build_bd_8h_source.tex [1161]) (./build_gd_8c_source.tex [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199]) (./build_gd_8h_source.tex [1200] [1201]) (./build_pd_8c_source.tex [1202] [1203] [1204] [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220]) (./build_pd_8h_source.tex [1221] [1222] [1223]) (./cgd_8c_source.tex) (./cgd_8h_source.tex [1224]) (./gsd_8c_source.tex [1225] [1226] [1227] [1228]) (./gsd_8h_source.tex [1229]) (./matvecd_8c_source.tex [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242]) (./matvecd_8h_source.tex [1243] [1244] [1245] [1246] [1247] [1248]) (./mgcsd_8c_source.tex [1249] [1250] [1251] [1252] [1253] [1254]) (./mgcsd_8h_source.tex [1255]) (./mgdrvd_8c_source.tex [1256] [1257] [1258] [1259] [1260] [1261] [1262]) (./mgdrvd_8h_source.tex [1263] [1264]) (./mgfasd_8c_source.tex [1265] [1266] [1267] [1268] [1269] [1270]) (./mgfasd_8h_source.tex [1271] [1272]) (./mgsubd_8c_source.tex [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283]) (./mgsubd_8h_source.tex [1284] [1285] [1286] [1287]) (./mikpckd_8c_source.tex [1288] [1289] [1290] [1291]) (./mikpckd_8h_source.tex [1292] [1293] [1294]) (./mlinpckd_8c_source.tex [1295] [1296]) (./mlinpckd_8h_source.tex) (./mypdec_8c_source.tex [1297] [1298] [1299] [1300] [1301] [1302] [1303]) (./mypdec_8h_source.tex [1304]) (./newdrvd_8c_source.tex [1305] [1306] [1307] [1308]) (./newdrvd_8h_source.tex [1309]) (./newtond_8c_source.tex [1310] [1311] [1312] [1313] [1314] [1315] [1316]) (./newtond_8h_source.tex [1317]) (./powerd_8c_source.tex [1318] [1319] [1320] [1321] [1322]) (./powerd_8h_source.tex [1323]) (./smoothd_8c_source.tex [1324]) (./smoothd_8h_source.tex [1325]) (./routines_8c.tex <./routines_8c__incl.pdf> [1326] Underfull \hbox (badness 776) in paragraph at lines 47--48 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv /m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[] Underfull \hbox (badness 2856) in paragraph at lines 47--48 \T1/phv/m/n/10 YMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]ZMap[] [][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 kappa[]Map[][][], [] Underfull \hbox (badness 1237) in paragraph at lines 47--48 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] Underfull \hbox (badness 905) in paragraph at lines 61--62 []\T1/phv/m/n/10 VPUBLIC void [] (Vmem $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 mem , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy /m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 5817) in paragraph at lines 67--68 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 69--70 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1327] Underfull \hbox (badness 1442) in paragraph at lines 81--82 []\T1/phv/m/n/10 VPUBLIC int [] (Vcom $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 com, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, int nforce[][][], [] $\OMS/cmsy/ m/n/10 ^^C$\T1/phv/m/n/10 atom[] Underfull \hbox (badness 931) in paragraph at lines 87--88 []\T1/phv/m/n/10 VPUBLIC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T 1/phv/m/n/10 fetk[][][], Gem Underfull \hbox (badness 2495) in paragraph at lines 89--90 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] [1328] Underfull \hbox (badness 10000) detected at line 116 [][][] Underfull \hbox (badness 10000) detected at line 119 [][][] Underfull \hbox (badness 10000) detected at line 122 [][][] ) (./routines_8c_source.tex [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397]) (./routines_8h.tex <./routine s_8h__incl.pdf> <./routines_8h__dep__incl.pdf> [1398] Overfull \hbox (16.65858pt too wide) in paragraph at lines 50--51 []\T1/phv/m/n/10 VEXTERNC int [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Overfull \hbox (16.91972pt too wide) in paragraph at lines 52--53 []\T1/phv/m/n/10 VEXTERNC void [] ([] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 nosh , [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][][], [] $\OMS/cmsy/m/n/1 0 ^^C$\T1/phv/m/n/10 diel[]YMap[][][], Underfull \hbox (badness 1910) in paragraph at lines 70--71 [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbe[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1 /phv/m/n/10 alist[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 diel[]XMap[][] [], [] Underfull \hbox (badness 1237) in paragraph at lines 70--71 \OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 charge[]Map[][][], [] $\OMS/cmsy/m/n/10 ^^C $\T1/phv/m/n/10 pmgp[][][], [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pmg[][][], [] [1399] Underfull \hbox (badness 5817) in paragraph at lines 88--89 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], Underfull \hbox (badness 5817) in paragraph at lines 90--91 \T1/phv/m/n/10 int nenergy[][][], dou-ble $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 atom[]Energy[][][], int nforce[][][], [1400] Underfull \hbox (badness 2495) in paragraph at lines 122--123 []\T1/phv/m/n/10 VPUBLIC Vrc[]_[][]Codes [] (int icalc, [] $\OMS/cmsy/m/n/10 ^^ C$\T1/phv/m/n/10 nosh, [] $\OMS/cmsy/m/n/10 ^^C$\T1/phv/m/n/10 feparm, [] $\OMS /cmsy/m/n/10 ^^C$\T1/phv/m/n/10 pbeparm, [] Underfull \hbox (badness 10000) detected at line 145 [][][] Underfull \hbox (badness 10000) detected at line 148 [][][] Underfull \hbox (badness 10000) detected at line 151 [][][] [1401]) (./routines_8h_source.tex [1402] [1403] [1404] [1405] [1406]) [1407] [1408] (./refman.ind [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457]) (./refman.aux) LaTeX Warning: There were multiply-defined labels. ) (see the transcript file for additional information)< /usr/share/texlive/texmf-dist/fonts/type1/urw/courier/ucrro8a.pfb> Output written on refman.pdf (1515 pages, 6341876 bytes). Transcript written on refman.log. [ 55%] Built target doc-pdf [ 57%] Built target mgmesh [ 59%] Built target smooth [ 62%] Built target dxmath [ 64%] Built target mergedx [ 66%] Built target mergedx2 [ 68%] Built target value [ 71%] Built target multivalue [ 73%] Built target benchmark [ 75%] Built target similarity [ 78%] Built target analysis [ 80%] Built target dx2mol [ 82%] Built target dx2uhbd [ 85%] Built target del2dx [ 87%] Built target tensor2dx [ 89%] Built target uhbd_asc2bin [ 91%] Built target coulomb [ 94%] Built target born [ 95%] Built target apbslib_swig_compilation [ 97%] Built target _apbslib [100%] Built target iapbs Install the project... -- Install configuration: "Release" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/doc/programmer -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/doc/programmer/programmer.html -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/doc/programmer/html -- Installing: 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Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/mgmesh -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/smooth -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/dxmath -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/mergedx -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/mergedx2 -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/value -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/multivalue -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/benchmark -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/similarity -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs/tools/bin/analysis -- Installing: 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/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/pbeparm.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/bemparm.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/geoflowparm.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/apolparm.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vacc.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/valist.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vatom.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vpbe.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vcap.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vclist.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vstring.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vparam.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vgreen.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vmatrix.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vhal.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/generic/vunit.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/buildAd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/buildBd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/buildGd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/buildPd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/cgd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/gsd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/matvecd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/mgcsd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/mgdrvd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/mgsubd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/mikpckd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/mlinpckd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/mypdec.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/newtond.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/newdrvd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/powerd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/smoothd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/pmgc/mgfasd.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/mg/vgrid.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/mg/vmgrid.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/mg/vopot.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/mg/vpmg.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/apbs/mg/vpmgp.h -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mgmesh -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mgmesh" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/smooth -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/smooth" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dxmath -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dxmath" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx2 -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx2" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/value -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/value" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/multivalue -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/multivalue" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/benchmark -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/benchmark" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/similarity -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/similarity" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/analysis -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/analysis" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2mol -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2mol" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2uhbd -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2uhbd" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/del2dx -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/del2dx" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/tensor2dx -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/tensor2dx" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/uhbd_asc2bin -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/uhbd_asc2bin" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/coulomb -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/coulomb" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/born -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/born" to "/usr/lib" -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/libiapbs.a -- Installing: /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/include/iapbs/apbs_driver.h make: Leaving directory '/builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build' + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/coulomb + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/coulomb /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-coulomb + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/coulomb + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/born + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/born /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-born + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/born + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mgmesh + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mgmesh /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-mgmesh + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mgmesh + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dxmath + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dxmath /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-dxmath + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dxmath + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx2 + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx2 /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-mergedx2 + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx2 + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-mergedx + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/mergedx + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/value + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/value /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-value + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/value + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/uhbd_asc2bin + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/uhbd_asc2bin /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-uhbd_asc2bin + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/uhbd_asc2bin + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/smooth + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/smooth /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-smooth + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/smooth + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2mol + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2mol /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-dx2mol + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2mol + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2uhbd + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2uhbd /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-dx2uhbd + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/dx2uhbd + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/similarity + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/similarity /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-similarity + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/similarity + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/multivalue + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/multivalue /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-multivalue + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/multivalue + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/benchmark + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/benchmark /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-benchmark + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/benchmark + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/analysis + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/analysis /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-analysis + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/analysis + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/del2dx + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/del2dx /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-del2dx + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/del2dx + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} ++ basename /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/tensor2dx + cp -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/tensor2dx /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-tensor2dx + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/tensor2dx + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-coulomb + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-born + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-mgmesh + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-dxmath + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-mergedx2 + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-mergedx + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-value + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-uhbd_asc2bin + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-smooth + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-dx2mol + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-dx2uhbd + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-similarity + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-multivalue + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-benchmark + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-analysis + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-del2dx + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + for bin in /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-{coulomb,born,mgmesh,dxmath,mergedx2,mergedx,value,uhbd_asc2bin,smooth,dx2mol,dx2uhbd,similarity,multivalue,benchmark,analysis,del2dx,tensor2dx} + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-tensor2dx + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs + chrpath -d /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/libapbs.so.1 + mkdir -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/python3.13/site-packages/apbs + install -pm 755 tools/manip/psize.py /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/python3.13/site-packages/apbs/ + /usr/bin/python3 /usr/lib/rpm/redhat/pathfix.py -pn -i /usr/bin/python3 /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/python3.13/site-packages/apbs/psize.py /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/python3.13/site-packages/apbs/psize.py: updating + ln -s /usr/lib/python3.13/site-packages/apbs/psize.py /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/bin/apbs-psize.py + install -pm 755 build/lib/_apbslib.so /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/python3.13/site-packages/apbs/ + rm -rf /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/apbs ++ find /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT -type f '(' -name '*.a' ')' + for i in `find /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT -type f \( -name "*.a" \)` + rm -f /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/libiapbs.a + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 3.0.0-25.fc41 --unique-debug-suffix -3.0.0-25.fc41.i386 --unique-debug-src-base apbs-3.0.0-25.fc41.i386 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0 find-debuginfo: starting Extracting debug info from 20 files DWARF-compressing 20 files sepdebugcrcfix: Updated 20 CRC32s, 0 CRC32s did match. Creating .debug symlinks for symlinks to ELF files Copying sources found by 'debugedit -l' to /usr/src/debug/apbs-3.0.0-25.fc41.i386 5169 blocks find-debuginfo: done + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs + /usr/lib/rpm/brp-remove-la-files + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j2 Bytecompiling .py files below /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/python3.13 using python3.13 Bytecompiling .py files below /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/debug/usr/lib/python3.13 using python3.13 + /usr/lib/rpm/redhat/brp-python-hardlink + /usr/bin/add-determinism --brp -j2 /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib/python3.13/site-packages/apbs/__pycache__/psize.cpython-313.pyc: rewriting with normalized contents Scanned 44 directories and 198 files, processed 1 inodes, 1 modified (0 replaced + 1 rewritten), 0 unsupported format, 0 errors Reading /builddir/build/BUILD/apbs-3.0.0-build/SPECPARTS/rpm-debuginfo.specpart Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.dvCA6i ~/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/tests ~/build/BUILD/apbs-3.0.0-build/apbs-3.0.0 + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fcommon -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd apbs-3.0.0 + pushd tests + export LD_LIBRARY_PATH=/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib + LD_LIBRARY_PATH=/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/lib + /usr/bin/python3 ./apbs_tester.py Testing all sections The following sections will be tested: born, actin-dimer-auto, actin-dimer-parallel, alkanes, FKBP, hca-bind, ionize, ion-pmf, ion-protein, pka-lig, point-pmf, solv ================================================================================ Running tests for born section -------------------------------------------------------------------------------- Testing forces from apbs-forces.in Checking forces for input file apbs-forces.inChecking Polar ForcesChecking Apolar ForcesElapsed time: 0.000823 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-auto.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-auto.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-auto.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.607073836227E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.383 x 0.383 x 0.383 Grid lengths: 24.495 x 24.495 x 24.495 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.200266567971E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to potential.dx.gz Total electrostatic energy = 4.732245131587E+03 kJ/mol Calculating forces... Writing potential to potential.dx.gz ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.190871482831E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.383 x 0.383 x 0.383 Grid lengths: 24.495 x 24.495 x 24.495 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.430874049735E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.962018684215E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -2.297735526282E+02 kJ/mol Global net ELEC energy = -2.297735526282E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-auto.out RESULT 960.7073836227 RESULT 2200.266567971 RESULT 4732.245131587 RESULT 1190.871482831 RESULT 2430.874049735 RESULT 4962.018684215 RESULT -229.7735526282 Testing computed result 9.607073836227E+02 against expected result 9.607074E+02 *** PASSED *** Testing computed result 2.200266567971E+03 against expected result 2.200267E+03 *** PASSED *** Testing computed result 4.732245131587E+03 against expected result 4.732245E+03 *** PASSED *** Testing computed result 1.190871482831E+03 against expected result 1.190871E+03 *** PASSED *** Testing computed result 2.430874049735E+03 against expected result 2.430874E+03 *** PASSED *** Testing computed result 4.962018684215E+03 against expected result 4.962019E+03 *** PASSED *** Testing computed result -2.297735526282E+02 against expected result -2.297735E+02 *** PASSED *** Elapsed time: 1.125366 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-auto.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-auto.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-auto.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.532928767450E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.383 x 0.383 x 0.383 Grid lengths: 24.495 x 24.495 x 24.495 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.201243880085E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.733006258977E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.190871482831E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.383 x 0.383 x 0.383 Grid lengths: 24.495 x 24.495 x 24.495 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.430874049735E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.962018684215E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -2.290124252387E+02 kJ/mol Global net ELEC energy = -2.290124252387E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-auto.out RESULT 953.292876745 RESULT 2201.243880085 RESULT 4733.006258977 RESULT 1190.871482831 RESULT 2430.874049735 RESULT 4962.018684215 RESULT -229.0124252387 Testing computed result 9.532928767450E+02 against expected result 9.532929E+02 *** PASSED *** Testing computed result 2.201243880085E+03 against expected result 2.201244E+03 *** PASSED *** Testing computed result 4.733006258977E+03 against expected result 4.733006E+03 *** PASSED *** Testing computed result 1.190871482831E+03 against expected result 1.190871E+03 *** PASSED *** Testing computed result 2.430874049735E+03 against expected result 2.430874E+03 *** PASSED *** Testing computed result 4.962018684215E+03 against expected result 4.962019E+03 *** PASSED *** Testing computed result -2.290124252387E+02 against expected result -2.290124E+02 *** PASSED *** Elapsed time: 1.050408 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-parallel.in Splitting the input file into 4 separate files using the inputgen utility BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE0.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE0.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.401768459022E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (-2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.142935592471E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (-2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.485255308186E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977178707009E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (-2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.799304557588E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (-2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.542873949131E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -5.761864094552E+01 kJ/mol Global net ELEC energy = -5.761864094552E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE0.out Processor 0 results: 2.401768459022E+02 8.142935592471E+02 1.485255308186E+03 2.977178707009E+02 8.799304557588E+02 1.542873949131E+03 -5.761864094552E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE1.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE1.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.401768459022E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.142778312125E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.485246667424E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977178707009E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.799304557588E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.542873949131E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -5.762728170718E+01 kJ/mol Global net ELEC energy = -5.762728170718E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE1.out Processor 1 results: 2.401768459022E+02 8.142778312125E+02 1.485246667424E+03 2.977178707009E+02 8.799304557588E+02 1.542873949131E+03 -5.762728170718E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE2.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE2.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.401768459091E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (-2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.142935605696E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (-2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.485255306569E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977178707146E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (-2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.799304557596E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (-2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.542873949141E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -5.761864257239E+01 kJ/mol Global net ELEC energy = -5.761864257239E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE2.out Processor 2 results: 2.401768459091E+02 8.142935605696E+02 1.485255306569E+03 2.977178707146E+02 8.799304557596E+02 1.542873949141E+03 -5.761864257239E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE3.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE3.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.401768459091E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.142778325440E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.485246665692E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977178707146E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.799304557596E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.542873949141E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -5.762728344954E+01 kJ/mol Global net ELEC energy = -5.762728344954E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE3.out Processor 3 results: 2.401768459091E+02 8.142778325440E+02 1.485246665692E+03 2.977178707146E+02 8.799304557596E+02 1.542873949141E+03 -5.762728344954E+01 RESULT 960.7073836226 RESULT 3257.1427835731997 RESULT 5941.0039478710005 RESULT 1190.8714828309999 RESULT 3519.7218230368003 RESULT 6171.495796544 RESULT -230.49184867463003 Testing computed result 9.607073836226E+02 against expected result 9.607074E+02 *** PASSED *** Testing computed result 3.257142783573E+03 against expected result 3.257143E+03 *** PASSED *** Testing computed result 5.941003947871E+03 against expected result 5.941004E+03 *** PASSED *** Testing computed result 1.190871482831E+03 against expected result 1.190871E+03 *** PASSED *** Testing computed result 3.519721823037E+03 against expected result 3.519722E+03 *** PASSED *** Testing computed result 6.171495796544E+03 against expected result 6.171496E+03 *** PASSED *** Testing computed result -2.304918486746E+02 against expected result -2.304918E+02 *** PASSED *** Elapsed time: 4.819446 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-parallel.in Splitting the input file into 4 separate files using the inputgen utility BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE0.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE0.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.383232191816E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (-2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.145369591602E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (-2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.485524998001E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977178707009E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (-2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.799304557588E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (-2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.542873949131E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -5.734895113069E+01 kJ/mol Global net ELEC energy = -5.734895113069E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE0.out Processor 0 results: 2.383232191816E+02 8.145369591602E+02 1.485524998001E+03 2.977178707009E+02 8.799304557588E+02 1.542873949131E+03 -5.734895113069E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE1.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE1.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.383232191816E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.145419898332E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.485529328612E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977178707009E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.799304557588E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (2.411, -2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.542873949131E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -5.734462051928E+01 kJ/mol Global net ELEC energy = -5.734462051928E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE1.out Processor 1 results: 2.383232191816E+02 8.145419898332E+02 1.485529328612E+03 2.977178707009E+02 8.799304557588E+02 1.542873949131E+03 -5.734462051928E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE2.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE2.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.383232191909E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (-2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.145369593489E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (-2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.485524997676E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977178707146E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (-2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.799304557596E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (-2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.542873949141E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -5.734895146550E+01 kJ/mol Global net ELEC energy = -5.734895146550E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE2.out Processor 2 results: 2.383232191909E+02 8.145369593489E+02 1.485524997676E+03 2.977178707146E+02 8.799304557596E+02 1.542873949141E+03 -5.734895146550E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE3.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE3.in... rank 0 size 1... Parsed input file. Got paths for 1 molecules Reading XML-format atom data from ion.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 61.261 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.383232191909E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.145419900310E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #3 (solvated): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.261 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.485529328301E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.781 x 0.781 x 0.781 Grid lengths: 50.000 x 50.000 x 50.000 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977178707146E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.296 x 0.296 x 0.383 Grid lengths: 18.944 x 18.944 x 24.495 Grid center: (2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.799304557596E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (reference): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.188 MB total, 122.066 MB high water Using cubic spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 1 Grid dimensions: 65 x 65 x 65 Grid spacings: 0.112 x 0.112 x 0.188 Grid lengths: 7.178 x 7.178 x 12.000 Grid center: (2.411, 2.411, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.542873949141E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (solvated) - 2 (reference) end Local net energy (PE 0) = -5.734462084052E+01 kJ/mol Global net ELEC energy = -5.734462084052E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 0.001 MB total, 122.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE3.out Processor 3 results: 2.383232191909E+02 8.145419900310E+02 1.485529328301E+03 2.977178707146E+02 8.799304557596E+02 1.542873949141E+03 -5.734462084052E+01 RESULT 953.292876745 RESULT 3258.1578983732998 RESULT 5942.108652589999 RESULT 1190.8714828309999 RESULT 3519.7218230368003 RESULT 6171.495796544 RESULT -229.38714395599 Testing computed result 9.532928767450E+02 against expected result 9.532929E+02 *** PASSED *** Testing computed result 3.258157898373E+03 against expected result 3.258158E+03 *** PASSED *** Testing computed result 5.942108652590E+03 against expected result 5.942109E+03 *** PASSED *** Testing computed result 1.190871482831E+03 against expected result 1.190871E+03 *** PASSED *** Testing computed result 3.519721823037E+03 against expected result 3.519722E+03 *** PASSED *** Testing computed result 6.171495796544E+03 against expected result 6.171496E+03 *** PASSED *** Testing computed result -2.293871439560E+02 against expected result -2.293871E+02 *** PASSED *** Elapsed time: 4.722525 seconds -------------------------------------------------------------------------------- Total elapsed time: 11.718568 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for actin-dimer-auto section -------------------------------------------------------------------------------- Testing input file apbs-mol-auto.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-auto.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-auto.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1004.805 MB total, 1004.805 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.975 x 0.756 x 1.012 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.527617850342E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1004.805 MB total, 1995.193 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.700 x 0.569 x 0.725 Grid lengths: 112.000 x 91.000 x 116.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.919510754196E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1005.791 MB total, 1995.193 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.975 x 0.756 x 1.012 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.527671844880E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1005.791 MB total, 1997.162 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.700 x 0.569 x 0.725 Grid lengths: 112.000 x 91.000 x 116.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.915468859278E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1018.290 MB total, 1997.162 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.975 x 0.756 x 1.012 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.056317807611E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1018.290 MB total, 2013.317 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.700 x 0.569 x 0.725 Grid lengths: 112.000 x 91.000 x 116.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 5.836028296532E+05 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 2 (mol2) - 1 (mol1) end Local net energy (PE 0) = 1.048683058624E+02 kJ/mol Global net ELEC energy = 1.048683058624E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 2013.317 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-auto.out RESULT 152761.7850342 RESULT 291951.0754196 RESULT 152767.184488 RESULT 291546.8859278 RESULT 305631.7807611 RESULT 583602.8296532 RESULT 104.8683058624 Testing computed result 1.527617850342E+05 against expected result 1.527618E+05 *** PASSED *** Testing computed result 2.919510754196E+05 against expected result 2.919511E+05 *** PASSED *** Testing computed result 1.527671844880E+05 against expected result 1.527672E+05 *** PASSED *** Testing computed result 2.915468859278E+05 against expected result 2.915469E+05 *** PASSED *** Testing computed result 3.056317807611E+05 against expected result 3.056318E+05 *** PASSED *** Testing computed result 5.836028296532E+05 against expected result 5.836028E+05 *** PASSED *** Testing computed result 1.048683058624E+02 against expected result 1.048683E+02 *** PASSED *** Elapsed time: 199.345193 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-auto.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-auto.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-auto.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1004.805 MB total, 1004.805 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.975 x 0.756 x 1.012 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.528632421825E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1004.805 MB total, 1995.193 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.700 x 0.569 x 0.725 Grid lengths: 112.000 x 91.000 x 116.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.920618662320E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1005.791 MB total, 1995.193 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.975 x 0.756 x 1.012 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.529297900572E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1005.791 MB total, 1997.162 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.700 x 0.569 x 0.725 Grid lengths: 112.000 x 91.000 x 116.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.916592202835E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1018.290 MB total, 1997.162 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.975 x 0.756 x 1.012 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.059244262535E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 1018.290 MB total, 2013.317 MB high water Using linear spline charge discretization. Grid dimensions: 161 x 161 x 161 Grid spacings: 0.700 x 0.569 x 0.725 Grid lengths: 112.000 x 91.000 x 116.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 5.838306706232E+05 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 2 (mol2) - 1 (mol1) end Local net energy (PE 0) = 1.095841077690E+02 kJ/mol Global net ELEC energy = 1.095841077690E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 2013.317 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-auto.out RESULT 152863.2421825 RESULT 292061.866232 RESULT 152929.7900572 RESULT 291659.2202835 RESULT 305924.4262535 RESULT 583830.6706232 RESULT 109.584107769 Testing computed result 1.528632421825E+05 against expected result 1.528632E+05 *** PASSED *** Testing computed result 2.920618662320E+05 against expected result 2.920619E+05 *** PASSED *** Testing computed result 1.529297900572E+05 against expected result 1.529298E+05 *** PASSED *** Testing computed result 2.916592202835E+05 against expected result 2.916592E+05 *** PASSED *** Testing computed result 3.059244262535E+05 against expected result 3.059244E+05 *** PASSED *** Testing computed result 5.838306706232E+05 against expected result 5.838307E+05 *** PASSED *** Testing computed result 1.095841077690E+02 against expected result 1.095841E+02 *** PASSED *** Elapsed time: 139.855244 seconds -------------------------------------------------------------------------------- Total elapsed time: 339.200437 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for actin-dimer-parallel section -------------------------------------------------------------------------------- Testing input file apbs-mol-parallel.in Splitting the input file into 8 separate files using the inputgen utility BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE0.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE0.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.335181353180E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.307364282738E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.892640552270E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.287357981689E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.237489755360E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 3.595556713401E+04 kJ/mol Calculating forces... Writing potential to pot-PE0.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 8.344489735005E+00 kJ/mol Global net ELEC energy = 8.344489735005E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE0.out Processor 0 results: 1.335181353180E+03 1.307364282738E+04 2.892640552270E+03 2.287357981689E+04 4.237489755360E+03 3.595556713401E+04 8.344489735005E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE1.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE1.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.161150884899E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.271349239954E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -1.084559511557E-01 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -9.159185455929E-02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.161009682231E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 9.271249973273E+04 kJ/mol Calculating forces... Writing potential to pot-PE1.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = -9.010749548820E-01 kJ/mol Global net ELEC energy = -9.010749548820E-01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE1.out Processor 1 results: 1.161150884899E+04 9.271349239954E+04 1.084559511557E-01 9.159185455929E-02 1.161009682231E+04 9.271249973273E+04 -9.010749548820E-01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE2.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE2.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -1.533327920982E+01 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.349327483109E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.753646268927E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.716901575464E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.760706267384E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 3.753396861378E+04 kJ/mol Calculating forces... Writing potential to pot-PE2.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 3.002011083291E+01 kJ/mol Global net ELEC energy = 3.002011083291E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE2.out Processor 2 results: 1.533327920982E+01 3.349327483109E+02 4.753646268927E+03 3.716901575464E+04 4.760706267384E+03 3.753396861378E+04 3.002011083291E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE3.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE3.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.803290534287E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.400275505449E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -8.150603559111E-01 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -8.573366340513E-01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.804039178218E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 1.400354034488E+05 kJ/mol Calculating forces... Writing potential to pot-PE3.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 8.710240552211E+00 kJ/mol Global net ELEC energy = 8.710240552211E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE3.out Processor 3 results: 1.803290534287E+04 1.400275505449E+05 8.150603559111E-01 8.573366340513E-01 1.804039178218E+04 1.400354034488E+05 8.710240552211E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE4.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE4.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.015087619451E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.216054441666E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.620207421716E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.273875050379E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.666622027749E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 1.306246439444E+05 kJ/mol Calculating forces... Writing potential to pot-PE4.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 2.108446480104E+01 kJ/mol Global net ELEC energy = 2.108446480104E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE4.out Processor 4 results: 4.015087619451E+02 3.216054441666E+03 1.620207421716E+04 1.273875050379E+05 1.666622027749E+04 1.306246439444E+05 2.108446480104E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE5.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE5.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.100112513614E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.662571883858E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -4.370921758038E-01 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -4.013366922344E-01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.115105077953E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 1.662768924081E+04 kJ/mol Calculating forces... Writing potential to pot-PE5.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 2.371738924682E+00 kJ/mol Global net ELEC energy = 2.371738924682E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE5.out Processor 5 results: 2.100112513614E+03 1.662571883858E+04 4.370921758038E-01 4.013366922344E-01 2.115105077953E+03 1.662768924081E+04 2.371738924682E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE6.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE6.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -2.817378781616E+00 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -1.959534462269E+00 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.176793266728E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.643533578081E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.176229449467E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 9.643148330287E+04 kJ/mol Calculating forces... Writing potential to pot-PE6.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = -1.892943480809E+00 kJ/mol Global net ELEC energy = -1.892943480809E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE6.out Processor 6 results: 2.817378781616E+00 1.959534462269E+00 1.176793266728E+04 9.643533578081E+04 1.176229449467E+04 9.643148330287E+04 -1.892943480809E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-parallel-PE7.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-parallel-PE7.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.428230292158E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.199832997920E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.881300088062E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.152799174875E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.847712854852E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 2.618156668929E+04 kJ/mol Calculating forces... Writing potential to pot-PE7.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 3.043753521010E+01 kJ/mol Global net ELEC energy = 3.043753521010E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-parallel-PE7.out Processor 7 results: 2.428230292158E+03 2.199832997920E+04 3.881300088062E+02 4.152799174875E+03 2.847712854852E+03 2.618156668929E+04 3.043753521010E+01 RESULT 35927.59777074854 RESULT 287991.6813140391 RESULT 36005.78432292607 RESULT 288019.58583029587 RESULT 72040.017332199 RESULT 576102.8221066899 RESULT 98.17456162025701 Testing computed result 3.592759777075E+04 against expected result 3.592760E+04 *** PASSED *** Testing computed result 2.879916813140E+05 against expected result 2.879917E+05 *** PASSED *** Testing computed result 3.600578432293E+04 against expected result 3.600578E+04 *** PASSED *** Testing computed result 2.880195858303E+05 against expected result 2.880196E+05 *** PASSED *** Testing computed result 7.204001733220E+04 against expected result 7.204002E+04 *** PASSED *** Testing computed result 5.761028221067E+05 against expected result 5.761028E+05 *** PASSED *** Testing computed result 9.817456162026E+01 against expected result 9.817456E+01 *** PASSED *** Elapsed time: 465.300789 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-parallel.in Splitting the input file into 8 separate files using the inputgen utility BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE0.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE0.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.371266245949E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.306912276054E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.977036667733E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.288057348250E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.356039288708E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 3.595842845220E+04 kJ/mol Calculating forces... Writing potential to pot-PE0.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 8.732209150869E+00 kJ/mol Global net ELEC energy = 8.732209150869E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE0.out Processor 0 results: 1.371266245949E+03 1.306912276054E+04 2.977036667733E+03 2.288057348250E+04 4.356039288708E+03 3.595842845220E+04 8.732209150869E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE1.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE1.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.183935033618E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.276168507128E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -1.420924995464E-01 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -1.129046670919E-01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.183791435221E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, -6.674) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 9.276041697078E+04 kJ/mol Calculating forces... Writing potential to pot-PE1.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = -1.155195837162E+00 kJ/mol Global net ELEC energy = -1.155195837162E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE1.out Processor 1 results: 1.183935033618E+04 9.276168507128E+04 1.420924995464E-01 1.129046670919E-01 1.183791435221E+04 9.276041697078E+04 -1.155195837162E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE2.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE2.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -9.992726432058E+00 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.375960934473E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.863608503641E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.720602537782E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.896854387650E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 3.757590620855E+04 kJ/mol Calculating forces... Writing potential to pot-PE2.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 3.228473728524E+01 kJ/mol Global net ELEC energy = 3.228473728524E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE2.out Processor 2 results: 9.992726432058E+00 3.375960934473E+02 4.863608503641E+03 3.720602537782E+04 4.896854387650E+03 3.757590620855E+04 3.228473728524E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE3.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE3.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.826846317904E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.401007397614E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -9.966525690477E-01 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -8.961424692860E-01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.827933209233E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, -6.674) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 1.401092487740E+05 kJ/mol Calculating forces... Writing potential to pot-PE3.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 9.405155087999E+00 kJ/mol Global net ELEC energy = 9.405155087999E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE3.out Processor 3 results: 1.826846317904E+04 1.401007397614E+05 9.966525690477E-01 8.961424692860E-01 1.827933209233E+04 1.401092487740E+05 9.405155087999E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE4.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE4.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.021998204986E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.215581388579E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.644646339930E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.274227930024E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.689865332202E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 1.306747503910E+05 kJ/mol Calculating forces... Writing potential to pot-PE4.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 3.637600005478E+01 kJ/mol Global net ELEC energy = 3.637600005478E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE4.out Processor 4 results: 4.021998204986E+02 3.215581388579E+03 1.644646339930E+04 1.274227930024E+05 1.689865332202E+04 1.306747503910E+05 3.637600005478E+01 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE5.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE5.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.187673595319E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.663590032901E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -4.710032885061E-01 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -4.849499127484E-01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.189033693728E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, -20.834, 40.159) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 1.663641996916E+04 kJ/mol Calculating forces... Writing potential to pot-PE5.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 1.004590063261E+00 kJ/mol Global net ELEC energy = 1.004590063261E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE5.out Processor 5 results: 2.187673595319E+03 1.663590032901E+04 4.710032885061E-01 4.849499127484E-01 2.189033693728E+03 1.663641996916E+04 1.004590063261E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE6.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE6.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -4.897659240526E+00 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = -2.552765434658E+00 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.200266111088E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.646358551314E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.199560371894E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (-20.091, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 9.645933328248E+04 kJ/mol Calculating forces... Writing potential to pot-PE6.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = -1.699465221478E+00 kJ/mol Global net ELEC energy = -1.699465221478E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE6.out Processor 6 results: 4.897659240526E+00 2.552765434658E+00 1.200266111088E+04 9.646358551314E+04 1.199560371894E+04 9.645933328248E+04 -1.699465221478E+00 BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-parallel-PE7.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-parallel-PE7.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (1.535e+01, -3.100e-02, 2.993e+00) Net charge -1.20e+01 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5877 atoms Centered at (-1.404e+01, -3.356e+00, 3.049e+01) Net charge -1.20e+01 e Reading PQR-format atom data from complex.pqr. 11754 atoms Centered at (2.518e+00, -2.465e+00, 1.674e+01) Net charge -2.40e+01 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 251.157 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.521894873214E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (mol1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 251.157 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 1 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.200161660501E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 487.896 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.033680106430E+02 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (mol2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 252.142 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 2 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 4.154432431334E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 489.865 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 1.625 x 1.260 x 1.688 Grid lengths: 156.000 x 121.000 x 162.000 Grid center: (2.518, -2.465, 16.742) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.960165191413E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.608 A Current memory usage: 264.642 MB total, 506.020 MB high water Using linear spline charge discretization. Partition overlap fraction = 0.1 Processor array = 2 x 2 x 2 Grid dimensions: 97 x 97 x 97 Grid spacings: 0.696 x 0.565 x 0.720 Grid lengths: 66.783 x 54.261 x 69.168 Grid center: (25.127, 15.905, 40.159) Multigrid levels: 4 Molecule ID: 3 Nonlinear traditional PBE Boundary conditions from focusing 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Potential to be written to pot.dx Total electrostatic energy = 2.618664307349E+04 kJ/mol Calculating forces... Writing potential to pot-PE7.dx ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (mol1) - 2 (mol2) end Local net energy (PE 0) = 3.059403714565E+01 kJ/mol Global net ELEC energy = 3.059403714565E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 506.020 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-parallel-PE7.out Processor 7 results: 2.521894873214E+03 2.200161660501E+04 4.033680106430E+02 4.154432431334E+03 2.960165191413E+03 2.618664307349E+04 3.059403714565E+01 RESULT 36605.73843587318 RESULT 288124.794774701 RESULT 36694.74744055409 RESULT 288128.90380424313 RESULT 73413.59604699901 RESULT 576361.14712166 RESULT 115.54206772915902 Testing computed result 3.660573843587E+04 against expected result 3.660574E+04 *** PASSED *** Testing computed result 2.881247947747E+05 against expected result 2.881248E+05 *** PASSED *** Testing computed result 3.669474744055E+04 against expected result 3.669475E+04 *** PASSED *** Testing computed result 2.881289038042E+05 against expected result 2.881289E+05 *** PASSED *** Testing computed result 7.341359604700E+04 against expected result 7.341360E+04 *** PASSED *** Testing computed result 5.763611471217E+05 against expected result 5.763611E+05 *** PASSED *** Testing computed result 1.155420677292E+02 against expected result 1.155421E+02 *** PASSED *** Elapsed time: 322.992837 seconds -------------------------------------------------------------------------------- Total elapsed time: 788.293626 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for alkanes section -------------------------------------------------------------------------------- Testing input file alkanes.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: alkanes.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file alkanes.in... rank 0 size 1... Parsed input file. Reading parameter data from parm.dat. Got paths for 11 molecules Reading PDB-format atom data from 2-methylbutane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 17 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 4.33e+00 e Reading PDB-format atom data from butane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 14 atoms Centered at (3.917e+00, 7.025e-01, -8.575e+00) Net charge 3.51e+00 e Reading PDB-format atom data from cyclohexane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 18 atoms Centered at (1.123e+00, 5.880e-01, 7.680e-01) Net charge 4.93e+00 e Reading PDB-format atom data from cyclopentane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 13 atoms Centered at (1.320e+00, 5.255e-01, 1.289e+00) Net charge 3.88e+00 e Reading PDB-format atom data from ethane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 8 atoms Centered at (2.210e-01, -2.100e-02, 7.650e-01) Net charge 1.87e+00 e Reading PDB-format atom data from hexane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 20 atoms Centered at (4.951e+00, -9.500e-03, -8.406e+00) Net charge 5.16e+00 e Reading PDB-format atom data from isobutane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 14 atoms Centered at (1.859e+01, 1.864e+01, 1.921e+01) Net charge 3.51e+00 e Reading PDB-format atom data from methane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 5 atoms Centered at (1.803e+01, 1.779e+01, 1.782e+01) Net charge 1.05e+00 e Reading PDB-format atom data from neopentane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 17 atoms Centered at (1.867e+01, 1.894e+01, 1.920e+01) Net charge 4.33e+00 e Reading PDB-format atom data from pentane.pdb. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 17 atoms Centered at (4.460e+00, 1.615e-01, -8.566e+00) Net charge 4.33e+00 e Reading PDB-format atom data from propane.pdb. 11 atoms Centered at (1.836e+01, 1.896e+01, 1.861e+01) Net charge 2.69e+00 e Preparing to run 11 PBE calculations. ---------------------------------------- CALCULATION #1 (solvated-2-methylbutane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 3.815624614267E+00 SASA for atom 1: 0.000000000000E+00 SASA for atom 2: 6.122920124655E-01 SASA for atom 3: 3.957497153740E+00 SASA for atom 4: 4.308445014544E+00 SASA for atom 5: 1.843264951960E+01 SASA for atom 6: 1.837011296483E+01 SASA for atom 7: 1.666599184724E+01 SASA for atom 8: 1.480031796315E+01 SASA for atom 9: 1.603020354037E+01 SASA for atom 10: 1.473778140838E+01 SASA for atom 11: 1.611879699297E+01 SASA for atom 12: 1.810954398660E+01 SASA for atom 13: 1.420100931324E+01 SASA for atom 14: 1.437298483886E+01 SASA for atom 15: 1.814081226399E+01 SASA for atom 16: 2.152820898091E+01 Total solvent accessible surface area: 214.202 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 3.243280922127E-02 Surface tension*area energy for atom 1: 0.000000000000E+00 Surface tension*area energy for atom 2: 5.204482105957E-03 Surface tension*area energy for atom 3: 3.363872580679E-02 Surface tension*area energy for atom 4: 3.662178262362E-02 Surface tension*area energy for atom 5: 1.566775209166E-01 Surface tension*area energy for atom 6: 1.561459602010E-01 Surface tension*area energy for atom 7: 1.416609307015E-01 Surface tension*area energy for atom 8: 1.258027026868E-01 Surface tension*area energy for atom 9: 1.362567300932E-01 Surface tension*area energy for atom 10: 1.252711419712E-01 Surface tension*area energy for atom 11: 1.370097744402E-01 Surface tension*area energy for atom 12: 1.539311238861E-01 Surface tension*area energy for atom 13: 1.207085791625E-01 Surface tension*area energy for atom 14: 1.221703711303E-01 Surface tension*area energy for atom 15: 1.541969042439E-01 Surface tension*area energy for atom 16: 1.829897763377E-01 Total surface tension energy: 1.82072 kJ/mol Total solvent accessible volume: 253.665 A^3 Total pressure*volume energy: 60.7274 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.271287875274E+00 WCA energy for atom 1: -5.600872869478E+00 WCA energy for atom 2: -5.773775123943E+00 WCA energy for atom 3: -6.072801488986E+00 WCA energy for atom 4: -6.378470721845E+00 WCA energy for atom 5: -1.573474558351E+00 WCA energy for atom 6: -1.582338715648E+00 WCA energy for atom 7: -1.504044838266E+00 WCA energy for atom 8: -1.351002262819E+00 WCA energy for atom 9: -1.437367175239E+00 WCA energy for atom 10: -1.384626257493E+00 WCA energy for atom 11: -1.468867560891E+00 WCA energy for atom 12: -1.557005662832E+00 WCA energy for atom 13: -1.473759654043E+00 WCA energy for atom 14: -1.502261431335E+00 WCA energy for atom 15: -1.550940901474E+00 WCA energy for atom 16: -1.667828659696E+00 Total WCA energy: -48.1507 kJ/mol Total non-polar energy = 1.439739455792E+01 kJ/mol ---------------------------------------- CALCULATION #2 (solvated-butane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 4.405515699447E+00 SASA for atom 1: 8.213673337951E-01 SASA for atom 2: 8.064333822716E-01 SASA for atom 3: 4.375647796400E+00 SASA for atom 4: 1.855251124959E+01 SASA for atom 5: 2.147609518526E+01 SASA for atom 6: 1.852645435176E+01 SASA for atom 7: 1.660345529247E+01 SASA for atom 8: 1.658782115377E+01 SASA for atom 9: 1.658260977421E+01 SASA for atom 10: 1.658260977421E+01 SASA for atom 11: 2.145003828744E+01 SASA for atom 12: 1.852124297220E+01 SASA for atom 13: 1.856293400871E+01 Total solvent accessible surface area: 193.855 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 3.744688344530E-02 Surface tension*area energy for atom 1: 6.981622337259E-03 Surface tension*area energy for atom 2: 6.854683749309E-03 Surface tension*area energy for atom 3: 3.719300626940E-02 Surface tension*area energy for atom 4: 1.576963456215E-01 Surface tension*area energy for atom 5: 1.825468090747E-01 Surface tension*area energy for atom 6: 1.574748619900E-01 Surface tension*area energy for atom 7: 1.411293699860E-01 Surface tension*area energy for atom 8: 1.409964798071E-01 Surface tension*area energy for atom 9: 1.409521830808E-01 Surface tension*area energy for atom 10: 1.409521830808E-01 Surface tension*area energy for atom 11: 1.823253254433E-01 Surface tension*area energy for atom 12: 1.574305652637E-01 Surface tension*area energy for atom 13: 1.577849390741E-01 Total surface tension energy: 1.64777 kJ/mol Total solvent accessible volume: 217.863 A^3 Total pressure*volume energy: 52.1564 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.728858147814E+00 WCA energy for atom 1: -6.204037472587E+00 WCA energy for atom 2: -6.202937735018E+00 WCA energy for atom 3: -6.728762249931E+00 WCA energy for atom 4: -1.623549989062E+00 WCA energy for atom 5: -1.709092300778E+00 WCA energy for atom 6: -1.625196457114E+00 WCA energy for atom 7: -1.484289341167E+00 WCA energy for atom 8: -1.485410538626E+00 WCA energy for atom 9: -1.485593139015E+00 WCA energy for atom 10: -1.484878734279E+00 WCA energy for atom 11: -1.708585062695E+00 WCA energy for atom 12: -1.625094916482E+00 WCA energy for atom 13: -1.624416805392E+00 Total WCA energy: -41.7207 kJ/mol Total non-polar energy = 1.208346456826E+01 kJ/mol ---------------------------------------- CALCULATION #3 (solvated-cyclohexane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 7.840324549863E-01 SASA for atom 1: 8.064333822716E-01 SASA for atom 2: 8.288343095569E-01 SASA for atom 3: 7.840324549863E-01 SASA for atom 4: 7.989664065098E-01 SASA for atom 5: 8.363012853187E-01 SASA for atom 6: 2.001169752764E+01 SASA for atom 7: 1.616048802948E+01 SASA for atom 8: 2.001169752764E+01 SASA for atom 9: 1.619175630687E+01 SASA for atom 10: 1.616048802948E+01 SASA for atom 11: 1.993352683418E+01 SASA for atom 12: 2.001169752764E+01 SASA for atom 13: 1.618133354774E+01 SASA for atom 14: 1.617091078861E+01 SASA for atom 15: 2.001690890721E+01 SASA for atom 16: 1.993873821374E+01 SASA for atom 17: 1.617091078861E+01 Total solvent accessible surface area: 221.799 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 6.664275867383E-03 Surface tension*area energy for atom 1: 6.854683749309E-03 Surface tension*area energy for atom 2: 7.045091631234E-03 Surface tension*area energy for atom 3: 6.664275867383E-03 Surface tension*area energy for atom 4: 6.791214455333E-03 Surface tension*area energy for atom 5: 7.108560925209E-03 Surface tension*area energy for atom 6: 1.700994289850E-01 Surface tension*area energy for atom 7: 1.373641482506E-01 Surface tension*area energy for atom 8: 1.700994289850E-01 Surface tension*area energy for atom 9: 1.376299286084E-01 Surface tension*area energy for atom 10: 1.373641482506E-01 Surface tension*area energy for atom 11: 1.694349780905E-01 Surface tension*area energy for atom 12: 1.700994289850E-01 Surface tension*area energy for atom 13: 1.375413351558E-01 Surface tension*area energy for atom 14: 1.374527417032E-01 Surface tension*area energy for atom 15: 1.701437257113E-01 Surface tension*area energy for atom 16: 1.694792748168E-01 Surface tension*area energy for atom 17: 1.374527417032E-01 Total surface tension energy: 1.88529 kJ/mol Total solvent accessible volume: 267.435 A^3 Total pressure*volume energy: 64.0239 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -5.793234697241E+00 WCA energy for atom 1: -5.784370526583E+00 WCA energy for atom 2: -5.791799130412E+00 WCA energy for atom 3: -5.788504399087E+00 WCA energy for atom 4: -5.797319672490E+00 WCA energy for atom 5: -5.787358035342E+00 WCA energy for atom 6: -1.523887929614E+00 WCA energy for atom 7: -1.413678912317E+00 WCA energy for atom 8: -1.521751604392E+00 WCA energy for atom 9: -1.414741802525E+00 WCA energy for atom 10: -1.413367854344E+00 WCA energy for atom 11: -1.523407238081E+00 WCA energy for atom 12: -1.523000623583E+00 WCA energy for atom 13: -1.413922068538E+00 WCA energy for atom 14: -1.416316744211E+00 WCA energy for atom 15: -1.524577474659E+00 WCA energy for atom 16: -1.523300410052E+00 WCA energy for atom 17: -1.414522566061E+00 Total WCA energy: -52.3691 kJ/mol Total non-polar energy = 1.354016672221E+01 kJ/mol ---------------------------------------- CALCULATION #4 (solvated-cyclopentane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 9.490526193215E+00 SASA for atom 1: 9.512927120500E+00 SASA for atom 2: 2.299828534626E+00 SASA for atom 3: 1.919012770776E+00 SASA for atom 4: 2.307295510388E+00 SASA for atom 5: 2.325838699632E+01 SASA for atom 6: 2.325838699632E+01 SASA for atom 7: 2.045987617019E+01 SASA for atom 8: 2.067875411190E+01 SASA for atom 9: 2.028790064456E+01 SASA for atom 10: 1.897463299431E+01 SASA for atom 11: 2.048593306801E+01 SASA for atom 12: 2.070481100972E+01 Total solvent accessible surface area: 193.638 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 8.066947264233E-02 Surface tension*area energy for atom 1: 8.085988052425E-02 Surface tension*area energy for atom 2: 1.954854254432E-02 Surface tension*area energy for atom 3: 1.631160855160E-02 Surface tension*area energy for atom 4: 1.961201183830E-02 Surface tension*area energy for atom 5: 1.976962894687E-01 Surface tension*area energy for atom 6: 1.976962894687E-01 Surface tension*area energy for atom 7: 1.739089474466E-01 Surface tension*area energy for atom 8: 1.757694099511E-01 Surface tension*area energy for atom 9: 1.724471554788E-01 Surface tension*area energy for atom 10: 1.612843804516E-01 Surface tension*area energy for atom 11: 1.741304310781E-01 Surface tension*area energy for atom 12: 1.759908935826E-01 Total surface tension energy: 1.64593 kJ/mol Total solvent accessible volume: 217.998 A^3 Total pressure*volume energy: 52.1887 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.343496616804E+00 WCA energy for atom 1: -6.327869601807E+00 WCA energy for atom 2: -6.334858040579E+00 WCA energy for atom 3: -6.296075406417E+00 WCA energy for atom 4: -6.345600816761E+00 WCA energy for atom 5: -1.663697465126E+00 WCA energy for atom 6: -1.662444032853E+00 WCA energy for atom 7: -1.572325104493E+00 WCA energy for atom 8: -1.604626551065E+00 WCA energy for atom 9: -1.586431484963E+00 WCA energy for atom 10: -1.554291291374E+00 WCA energy for atom 11: -1.574315220751E+00 WCA energy for atom 12: -1.604941679892E+00 Total WCA energy: -44.471 kJ/mol Total non-polar energy = 9.363673200142E+00 kJ/mol ---------------------------------------- CALCULATION #5 (solvated-ethane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 5.995981536705E+00 SASA for atom 1: 5.966113633657E+00 SASA for atom 2: 2.121552620704E+01 SASA for atom 3: 2.124158310486E+01 SASA for atom 4: 2.125200586399E+01 SASA for atom 5: 2.123116034573E+01 SASA for atom 6: 2.125200586399E+01 SASA for atom 7: 2.127285138225E+01 Total solvent accessible surface area: 139.427 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 5.096584306199E-02 Surface tension*area energy for atom 1: 5.071196588609E-02 Surface tension*area energy for atom 2: 1.803319727598E-01 Surface tension*area energy for atom 3: 1.805534563913E-01 Surface tension*area energy for atom 4: 1.806420498439E-01 Surface tension*area energy for atom 5: 1.804648629387E-01 Surface tension*area energy for atom 6: 1.806420498439E-01 Surface tension*area energy for atom 7: 1.808192367491E-01 Total surface tension energy: 1.18513 kJ/mol Total solvent accessible volume: 140.346 A^3 Total pressure*volume energy: 33.5988 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -7.360066353115E+00 WCA energy for atom 1: -7.355483516201E+00 WCA energy for atom 2: -1.776106201066E+00 WCA energy for atom 3: -1.773973940651E+00 WCA energy for atom 4: -1.775401936843E+00 WCA energy for atom 5: -1.773464835521E+00 WCA energy for atom 6: -1.774382856097E+00 WCA energy for atom 7: -1.772366599434E+00 Total WCA energy: -25.3612 kJ/mol Total non-polar energy = 9.422717598546E+00 kJ/mol ---------------------------------------- CALCULATION #6 (solvated-hexane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 4.405515699447E+00 SASA for atom 1: 8.213673337951E-01 SASA for atom 2: 3.285469335181E-01 SASA for atom 3: 2.986790304710E-01 SASA for atom 4: 1.855251124959E+01 SASA for atom 5: 2.147609518526E+01 SASA for atom 6: 1.852645435176E+01 SASA for atom 7: 1.655655287639E+01 SASA for atom 8: 1.655134149682E+01 SASA for atom 9: 1.360170066332E+01 SASA for atom 10: 1.357043238593E+01 SASA for atom 11: 1.381536722546E+01 SASA for atom 12: 1.384142412329E+01 SASA for atom 13: 7.765654792245E-01 SASA for atom 14: 1.684839013200E+01 SASA for atom 15: 1.682233323417E+01 SASA for atom 16: 4.166572475070E+00 SASA for atom 17: 2.179398933870E+01 SASA for atom 18: 1.877660057086E+01 SASA for atom 19: 1.876096643216E+01 Total solvent accessible surface area: 250.291 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 3.744688344530E-02 Surface tension*area energy for atom 1: 6.981622337259E-03 Surface tension*area energy for atom 2: 2.792648934903E-03 Surface tension*area energy for atom 3: 2.538771759003E-03 Surface tension*area energy for atom 4: 1.576963456215E-01 Surface tension*area energy for atom 5: 1.825468090747E-01 Surface tension*area energy for atom 6: 1.574748619900E-01 Surface tension*area energy for atom 7: 1.407306994493E-01 Surface tension*area energy for atom 8: 1.406864027230E-01 Surface tension*area energy for atom 9: 1.156144556382E-01 Surface tension*area energy for atom 10: 1.153486752804E-01 Surface tension*area energy for atom 11: 1.174306214164E-01 Surface tension*area energy for atom 12: 1.176521050479E-01 Surface tension*area energy for atom 13: 6.600806573408E-03 Surface tension*area energy for atom 14: 1.432113161220E-01 Surface tension*area energy for atom 15: 1.429898324905E-01 Surface tension*area energy for atom 16: 3.541586603809E-02 Surface tension*area energy for atom 17: 1.852489093789E-01 Surface tension*area energy for atom 18: 1.596011048523E-01 Surface tension*area energy for atom 19: 1.594682146734E-01 Total surface tension energy: 2.12748 kJ/mol Total solvent accessible volume: 298.053 A^3 Total pressure*volume energy: 71.3539 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.635406071935E+00 WCA energy for atom 1: -5.957247427848E+00 WCA energy for atom 2: -5.524801144538E+00 WCA energy for atom 3: -5.522294168859E+00 WCA energy for atom 4: -1.605314409440E+00 WCA energy for atom 5: -1.701051761776E+00 WCA energy for atom 6: -1.606669162773E+00 WCA energy for atom 7: -1.442505934938E+00 WCA energy for atom 8: -1.443059002759E+00 WCA energy for atom 9: -1.328947132810E+00 WCA energy for atom 10: -1.328906972440E+00 WCA energy for atom 11: -1.331566344214E+00 WCA energy for atom 12: -1.328041776815E+00 WCA energy for atom 13: -5.937562025661E+00 WCA energy for atom 14: -1.442277774427E+00 WCA energy for atom 15: -1.442777091510E+00 WCA energy for atom 16: -6.602262542378E+00 WCA energy for atom 17: -1.698172146664E+00 WCA energy for atom 18: -1.600970858835E+00 WCA energy for atom 19: -1.600841970217E+00 Total WCA energy: -57.0807 kJ/mol Total non-polar energy = 1.640068943201E+01 kJ/mol ---------------------------------------- CALCULATION #7 (solvated-isobutane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 3.464676753463E+00 SASA for atom 1: 1.984493338158E+01 SASA for atom 2: 1.778643845361E+01 SASA for atom 3: 1.671289426332E+01 SASA for atom 4: 0.000000000000E+00 SASA for atom 5: 3.531879535319E+00 SASA for atom 6: 1.673895116114E+01 SASA for atom 7: 1.793756846098E+01 SASA for atom 8: 1.973549441072E+01 SASA for atom 9: 1.710895911022E+01 SASA for atom 10: 4.599657069253E+00 SASA for atom 11: 1.937069784121E+01 SASA for atom 12: 1.654613011726E+01 SASA for atom 13: 1.936548646165E+01 Total solvent accessible surface area: 192.744 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 2.944975240444E-02 Surface tension*area energy for atom 1: 1.686819337434E-01 Surface tension*area energy for atom 2: 1.511847268556E-01 Surface tension*area energy for atom 3: 1.420596012382E-01 Surface tension*area energy for atom 4: 0.000000000000E+00 Surface tension*area energy for atom 5: 3.002097605021E-02 Surface tension*area energy for atom 6: 1.422810848697E-01 Surface tension*area energy for atom 7: 1.524693319183E-01 Surface tension*area energy for atom 8: 1.677517024912E-01 Surface tension*area energy for atom 9: 1.454261524369E-01 Surface tension*area energy for atom 10: 3.909708508865E-02 Surface tension*area energy for atom 11: 1.646509316503E-01 Surface tension*area energy for atom 12: 1.406421059967E-01 Surface tension*area energy for atom 13: 1.646066349240E-01 Total surface tension energy: 1.63832 kJ/mol Total solvent accessible volume: 218.943 A^3 Total pressure*volume energy: 52.415 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.381016335247E+00 WCA energy for atom 1: -1.612317964554E+00 WCA energy for atom 2: -1.588013719598E+00 WCA energy for atom 3: -1.532162371190E+00 WCA energy for atom 4: -5.987950445279E+00 WCA energy for atom 5: -6.393089030861E+00 WCA energy for atom 6: -1.533454887042E+00 WCA energy for atom 7: -1.587650918485E+00 WCA energy for atom 8: -1.614083521570E+00 WCA energy for atom 9: -1.442402031577E+00 WCA energy for atom 10: -6.408813541353E+00 WCA energy for atom 11: -1.605830214390E+00 WCA energy for atom 12: -1.529385873788E+00 WCA energy for atom 13: -1.605662490385E+00 Total WCA energy: -40.8218 kJ/mol Total non-polar energy = 1.323144287435E+01 kJ/mol ---------------------------------------- CALCULATION #8 (solvated-methane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 1.231304303117E+01 SASA for atom 1: 2.323233009850E+01 SASA for atom 2: 2.345641941977E+01 SASA for atom 3: 2.377431357320E+01 SASA for atom 4: 2.264344420771E+01 Total solvent accessible surface area: 105.42 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 1.046608657649E-01 Surface tension*area energy for atom 1: 1.974748058372E-01 Surface tension*area energy for atom 2: 1.993795650680E-01 Surface tension*area energy for atom 3: 2.020816653722E-01 Surface tension*area energy for atom 4: 1.924692757655E-01 Total surface tension energy: 0.896066 kJ/mol Total solvent accessible volume: 95.985 A^3 Total pressure*volume energy: 22.9788 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -8.133807570805E+00 WCA energy for atom 1: -1.962181541765E+00 WCA energy for atom 2: -1.964078319162E+00 WCA energy for atom 3: -1.963015006647E+00 WCA energy for atom 4: -1.957425549100E+00 Total WCA energy: -15.9805 kJ/mol Total non-polar energy = 7.894367190329E+00 kJ/mol ---------------------------------------- CALCULATION #9 (solvated-neopentane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 2.441701074100E+00 SASA for atom 1: 1.663993494942E+01 SASA for atom 2: 1.715586152630E+01 SASA for atom 3: 1.645753666466E+01 SASA for atom 4: 0.000000000000E+00 SASA for atom 5: 2.389432243768E+00 SASA for atom 6: 1.638457735076E+01 SASA for atom 7: 1.667641460637E+01 SASA for atom 8: 1.721839808108E+01 SASA for atom 9: 2.419300146815E+00 SASA for atom 10: 1.640021148945E+01 SASA for atom 11: 1.666599184724E+01 SASA for atom 12: 1.719234118325E+01 SASA for atom 13: 2.449168049862E+00 SASA for atom 14: 1.723403221977E+01 SASA for atom 15: 1.639500010989E+01 SASA for atom 16: 1.663472356985E+01 Total solvent accessible surface area: 210.755 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 2.075445912985E-02 Surface tension*area energy for atom 1: 1.414394470700E-01 Surface tension*area energy for atom 2: 1.458248229736E-01 Surface tension*area energy for atom 3: 1.398890616496E-01 Surface tension*area energy for atom 4: 0.000000000000E+00 Surface tension*area energy for atom 5: 2.031017407203E-02 Surface tension*area energy for atom 6: 1.392689074814E-01 Surface tension*area energy for atom 7: 1.417495241541E-01 Surface tension*area energy for atom 8: 1.463563836891E-01 Surface tension*area energy for atom 9: 2.056405124793E-02 Surface tension*area energy for atom 10: 1.394017976603E-01 Surface tension*area energy for atom 11: 1.416609307015E-01 Surface tension*area energy for atom 12: 1.461349000577E-01 Surface tension*area energy for atom 13: 2.081792842383E-02 Surface tension*area energy for atom 14: 1.464892738680E-01 Surface tension*area energy for atom 15: 1.393575009340E-01 Surface tension*area energy for atom 16: 1.413951503437E-01 Total surface tension energy: 1.79141 kJ/mol Total solvent accessible volume: 251.127 A^3 Total pressure*volume energy: 60.1198 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.011082520236E+00 WCA energy for atom 1: -1.497367782613E+00 WCA energy for atom 2: -1.498546483218E+00 WCA energy for atom 3: -1.492562171495E+00 WCA energy for atom 4: -5.447325863939E+00 WCA energy for atom 5: -6.004516149175E+00 WCA energy for atom 6: -1.492776531092E+00 WCA energy for atom 7: -1.496078170066E+00 WCA energy for atom 8: -1.501529655270E+00 WCA energy for atom 9: -5.996267554365E+00 WCA energy for atom 10: -1.492194267752E+00 WCA energy for atom 11: -1.496027211216E+00 WCA energy for atom 12: -1.500561393960E+00 WCA energy for atom 13: -6.000218612907E+00 WCA energy for atom 14: -1.500859921426E+00 WCA energy for atom 15: -1.492908499790E+00 WCA energy for atom 16: -1.494057174414E+00 Total WCA energy: -47.4149 kJ/mol Total non-polar energy = 1.449633815052E+01 kJ/mol ---------------------------------------- CALCULATION #10 (solvated-pentane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 4.405515699447E+00 SASA for atom 1: 8.213673337951E-01 SASA for atom 2: 3.285469335181E-01 SASA for atom 3: 7.466975761774E-01 SASA for atom 4: 1.855251124959E+01 SASA for atom 5: 2.147609518526E+01 SASA for atom 6: 1.852645435176E+01 SASA for atom 7: 1.655655287639E+01 SASA for atom 8: 1.655134149682E+01 SASA for atom 9: 1.360170066332E+01 SASA for atom 10: 1.357043238593E+01 SASA for atom 11: 1.685881289113E+01 SASA for atom 12: 1.687444702982E+01 SASA for atom 13: 4.196440378117E+00 SASA for atom 14: 1.881308022781E+01 SASA for atom 15: 1.882350298694E+01 SASA for atom 16: 2.182004623652E+01 Total solvent accessible surface area: 222.524 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 3.744688344530E-02 Surface tension*area energy for atom 1: 6.981622337259E-03 Surface tension*area energy for atom 2: 2.792648934903E-03 Surface tension*area energy for atom 3: 6.346929397508E-03 Surface tension*area energy for atom 4: 1.576963456215E-01 Surface tension*area energy for atom 5: 1.825468090747E-01 Surface tension*area energy for atom 6: 1.574748619900E-01 Surface tension*area energy for atom 7: 1.407306994493E-01 Surface tension*area energy for atom 8: 1.406864027230E-01 Surface tension*area energy for atom 9: 1.156144556382E-01 Surface tension*area energy for atom 10: 1.153486752804E-01 Surface tension*area energy for atom 11: 1.432999095746E-01 Surface tension*area energy for atom 12: 1.434327997535E-01 Surface tension*area energy for atom 13: 3.566974321399E-02 Surface tension*area energy for atom 14: 1.599111819364E-01 Surface tension*area energy for atom 15: 1.599997753890E-01 Surface tension*area energy for atom 16: 1.854703930104E-01 Total surface tension energy: 1.89145 kJ/mol Total solvent accessible volume: 258.93 A^3 Total pressure*volume energy: 61.9878 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.655804319869E+00 WCA energy for atom 1: -6.027315962813E+00 WCA energy for atom 2: -5.696430965386E+00 WCA energy for atom 3: -6.016749084714E+00 WCA energy for atom 4: -1.608595384643E+00 WCA energy for atom 5: -1.703300955380E+00 WCA energy for atom 6: -1.609931495887E+00 WCA energy for atom 7: -1.457107525189E+00 WCA energy for atom 8: -1.457741620594E+00 WCA energy for atom 9: -1.354235498709E+00 WCA energy for atom 10: -1.354106470090E+00 WCA energy for atom 11: -1.456736412636E+00 WCA energy for atom 12: -1.455995435596E+00 WCA energy for atom 13: -6.633650611186E+00 WCA energy for atom 14: -1.605996088477E+00 WCA energy for atom 15: -1.606549890103E+00 WCA energy for atom 16: -1.700042300035E+00 Total WCA energy: -49.4003 kJ/mol Total non-polar energy = 1.447900211546E+01 kJ/mol ---------------------------------------- CALCULATION #11 (solvated-propane): APOLAR Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 3.173464698754E+00 SASA for atom 1: 1.931858404557E+01 SASA for atom 2: 2.014198201675E+01 SASA for atom 3: 2.149694070352E+01 SASA for atom 4: 1.904078819252E+00 SASA for atom 5: 2.067354273233E+01 SASA for atom 6: 1.937590922077E+01 SASA for atom 7: 3.098794941136E+00 SASA for atom 8: 1.942802301642E+01 SASA for atom 9: 1.973028303116E+01 SASA for atom 10: 2.204934693736E+01 Total solvent accessible surface area: 170.391 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 2.697444993941E-02 Surface tension*area energy for atom 1: 1.642079643873E-01 Surface tension*area energy for atom 2: 1.712068471424E-01 Surface tension*area energy for atom 3: 1.827239959799E-01 Surface tension*area energy for atom 4: 1.618466996365E-02 Surface tension*area energy for atom 5: 1.757251132248E-01 Surface tension*area energy for atom 6: 1.646952283766E-01 Surface tension*area energy for atom 7: 2.633975699966E-02 Surface tension*area energy for atom 8: 1.651381956396E-01 Surface tension*area energy for atom 9: 1.677074057649E-01 Surface tension*area energy for atom 10: 1.874194489675E-01 Total surface tension energy: 1.44832 kJ/mol Total solvent accessible volume: 183.573 A^3 Total pressure*volume energy: 43.9474 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.818670105515E+00 WCA energy for atom 1: -1.641297645338E+00 WCA energy for atom 2: -1.649584120441E+00 WCA energy for atom 3: -1.711408141255E+00 WCA energy for atom 4: -6.624720142882E+00 WCA energy for atom 5: -1.610117050515E+00 WCA energy for atom 6: -1.596858009746E+00 WCA energy for atom 7: -6.816460624835E+00 WCA energy for atom 8: -1.642782751806E+00 WCA energy for atom 9: -1.645779566650E+00 WCA energy for atom 10: -1.714436154542E+00 Total WCA energy: -33.4721 kJ/mol Total non-polar energy = 1.192358496286E+01 kJ/mol ---------------------------------------- PRINT STATEMENTS print APOL energy 1 (solvated-2-methylbutane) end Global net APOL energy = 1.439739455792E+01 kJ/mol print APOL energy 2 (solvated-butane) end Global net APOL energy = 1.208346456826E+01 kJ/mol print APOL energy 3 (solvated-cyclohexane) end Global net APOL energy = 1.354016672221E+01 kJ/mol print APOL energy 4 (solvated-cyclopentane) end Global net APOL energy = 9.363673200142E+00 kJ/mol print APOL energy 5 (solvated-ethane) end Global net APOL energy = 9.422717598546E+00 kJ/mol print APOL energy 6 (solvated-hexane) end Global net APOL energy = 1.640068943201E+01 kJ/mol print APOL energy 7 (solvated-isobutane) end Global net APOL energy = 1.323144287435E+01 kJ/mol print APOL energy 8 (solvated-methane) end Global net APOL energy = 7.894367190329E+00 kJ/mol print APOL energy 9 (solvated-neopentane) end Global net APOL energy = 1.449633815052E+01 kJ/mol print APOL energy 10 (solvated-pentane) end Global net APOL energy = 1.447900211546E+01 kJ/mol print APOL energy 11 (solvated-propane) end Global net APOL energy = 1.192358496286E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 11 molecules Final memory usage: 0.001 MB total, 2.201 MB high water Thanks for using APBS! Checking for intermidiate energies in input file alkanes.out RESULT 14.39739455792 RESULT 12.08346456826 RESULT 13.54016672221 RESULT 9.363673200142 RESULT 9.422717598546 RESULT 16.40068943201 RESULT 13.23144287435 RESULT 7.894367190329 RESULT 14.49633815052 RESULT 14.47900211546 RESULT 11.92358496286 Testing computed result 1.439739455792E+01 against expected result 1.439739E+01 *** PASSED *** Testing computed result 1.208346456826E+01 against expected result 1.208346E+01 *** PASSED *** Testing computed result 1.354016672221E+01 against expected result 1.354017E+01 *** PASSED *** Testing computed result 9.363673200142E+00 against expected result 9.363673E+00 *** PASSED *** Testing computed result 9.422717598546E+00 against expected result 9.422718E+00 *** PASSED *** Testing computed result 1.640068943201E+01 against expected result 1.640069E+01 *** PASSED *** Testing computed result 1.323144287435E+01 against expected result 1.323144E+01 *** PASSED *** Testing computed result 7.894367190329E+00 against expected result 7.894367E+00 *** PASSED *** Testing computed result 1.449633815052E+01 against expected result 1.449634E+01 *** PASSED *** Testing computed result 1.447900211546E+01 against expected result 1.447900E+01 *** PASSED *** Testing computed result 1.192358496286E+01 against expected result 1.192358E+01 *** PASSED *** Elapsed time: 13.674435 seconds -------------------------------------------------------------------------------- Total elapsed time: 13.674435 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for FKBP section -------------------------------------------------------------------------------- Testing input file 1d7h-dmso-mol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: 1d7h-dmso-mol.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file 1d7h-dmso-mol.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from 1d7h-dmso-complex.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1673 atoms Centered at (2.587e+01, 1.835e+01, 1.911e+01) Net charge 9.91e-01 e Reading PQR-format atom data from dmso-min.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 10 atoms Centered at (1.775e+01, 1.777e+01, 2.049e+01) Net charge 2.78e-17 e Reading PQR-format atom data from 1d7h-min.pqr. 1663 atoms Centered at (2.587e+01, 1.835e+01, 1.911e+01) Net charge 9.91e-01 e Preparing to run 12 PBE calculations. ---------------------------------------- CALCULATION #1 (complex-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.611 MB total, 102.611 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.875, 18.349, 19.112) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.060899690259E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (complex-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.611 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.276523673491E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.611 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.875, 18.349, 19.112) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.399234956777E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (complex-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.611 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.610066575192E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (dmso-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 62.381 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.961107503213E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #6 (dmso-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 62.381 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 7.121048606059E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #7 (dmso-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 62.381 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 6.751571424823E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #8 (dmso-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 62.381 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 7.339101343121E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #9 (1d7h-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.389 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.875, 18.349, 19.112) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.058410584089E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #10 (1d7h-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.389 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.205385249581E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #11 (1d7h-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.389 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.875, 18.349, 19.112) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.395961902233E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #12 (1d7h-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.389 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.538248433997E+04 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 2 (complex-solv-fine) - 4 (complex-ref-fine) end Local net energy (PE 0) = -3.335429017008E+03 kJ/mol Global net ELEC energy = -3.335429017008E+03 kJ/mol print energy 6 (dmso-solv-fine) - 8 (dmso-ref-fine) end Local net energy (PE 0) = -2.180527370616E+01 kJ/mol Global net ELEC energy = -2.180527370616E+01 kJ/mol print energy 10 (1d7h-solv-fine) - 12 (1d7h-ref-fine) end Local net energy (PE 0) = -3.328631844166E+03 kJ/mol Global net ELEC energy = -3.328631844166E+03 kJ/mol print energy 2 (complex-solv-fine) - 4 (complex-ref-fine) - 6 (dmso-solv-fine) + 8 (dmso-ref-fine) - 10 (1d7h-solv-fine) + 12 (1d7h-ref-fine) end Local net energy (PE 0) = 1.500810086371E+01 kJ/mol Global net ELEC energy = 1.500810086371E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 182.820 MB high water Thanks for using APBS! Checking for intermidiate energies in input file 1d7h-dmso-mol.out RESULT 10608.99690259 RESULT 42765.23673491 RESULT 13992.34956777 RESULT 46100.66575192 RESULT 39.61107503213 RESULT 712.1048606059 RESULT 67.51571424823 RESULT 733.9101343121 RESULT 10584.10584089 RESULT 42053.85249581 RESULT 13959.61902233 RESULT 45382.48433997 RESULT -3335.429017008 RESULT -21.80527370616 RESULT -3328.631844166 RESULT 15.00810086371 Testing computed result 1.060899690259E+04 against expected result 1.060900E+04 *** PASSED *** Testing computed result 4.276523673491E+04 against expected result 4.276524E+04 *** PASSED *** Testing computed result 1.399234956777E+04 against expected result 1.399235E+04 *** PASSED *** Testing computed result 4.610066575192E+04 against expected result 4.610067E+04 *** PASSED *** Testing computed result 3.961107503213E+01 against expected result 3.961108E+01 *** PASSED *** Testing computed result 7.121048606059E+02 against expected result 7.121049E+02 *** PASSED *** Testing computed result 6.751571424823E+01 against expected result 6.751571E+01 *** PASSED *** Testing computed result 7.339101343121E+02 against expected result 7.339101E+02 *** PASSED *** Testing computed result 1.058410584089E+04 against expected result 1.058411E+04 *** PASSED *** Testing computed result 4.205385249581E+04 against expected result 4.205385E+04 *** PASSED *** Testing computed result 1.395961902233E+04 against expected result 1.395962E+04 *** PASSED *** Testing computed result 4.538248433997E+04 against expected result 4.538248E+04 *** PASSED *** Testing computed result 1.500810086371E+01 against expected result 1.500810E+01 *** PASSED *** Elapsed time: 8.875002 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7h-dmso-smol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: 1d7h-dmso-smol.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file 1d7h-dmso-smol.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from 1d7h-dmso-complex.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1673 atoms Centered at (2.587e+01, 1.835e+01, 1.911e+01) Net charge 9.91e-01 e Reading PQR-format atom data from dmso-min.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 10 atoms Centered at (1.775e+01, 1.777e+01, 2.049e+01) Net charge 2.78e-17 e Reading PQR-format atom data from 1d7h-min.pqr. 1663 atoms Centered at (2.587e+01, 1.835e+01, 1.911e+01) Net charge 9.91e-01 e Preparing to run 12 PBE calculations. ---------------------------------------- CALCULATION #1 (complex-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.611 MB total, 102.611 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.875, 18.349, 19.112) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.074948704824E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (complex-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.611 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.289487256481E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.611 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.875, 18.349, 19.112) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.399234956777E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (complex-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.611 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.610066575192E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (dmso-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 62.381 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.719709905887E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #6 (dmso-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 62.381 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 7.125747080979E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #7 (dmso-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 62.381 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 6.751571424823E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #8 (dmso-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 62.381 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 7.339101343121E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #9 (1d7h-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.389 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.875, 18.349, 19.112) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.071654753674E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #10 (1d7h-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.389 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.218178203716E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #11 (1d7h-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.389 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.875, 18.349, 19.112) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.395961902233E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #12 (1d7h-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.389 MB total, 182.820 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.751, 17.770, 20.492) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.538248433997E+04 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 2 (complex-solv-fine) - 4 (complex-ref-fine) end Local net energy (PE 0) = -3.205793187109E+03 kJ/mol Global net ELEC energy = -3.205793187109E+03 kJ/mol print energy 6 (dmso-solv-fine) - 8 (dmso-ref-fine) end Local net energy (PE 0) = -2.133542621421E+01 kJ/mol Global net ELEC energy = -2.133542621421E+01 kJ/mol print energy 10 (1d7h-solv-fine) - 12 (1d7h-ref-fine) end Local net energy (PE 0) = -3.200702302816E+03 kJ/mol Global net ELEC energy = -3.200702302816E+03 kJ/mol print energy 2 (complex-solv-fine) - 4 (complex-ref-fine) - 6 (dmso-solv-fine) + 8 (dmso-ref-fine) - 10 (1d7h-solv-fine) + 12 (1d7h-ref-fine) end Local net energy (PE 0) = 1.624454192072E+01 kJ/mol Global net ELEC energy = 1.624454192072E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 182.820 MB high water Thanks for using APBS! Checking for intermidiate energies in input file 1d7h-dmso-smol.out RESULT 10749.48704824 RESULT 42894.87256481 RESULT 13992.34956777 RESULT 46100.66575192 RESULT 37.19709905887 RESULT 712.5747080979 RESULT 67.51571424823 RESULT 733.9101343121 RESULT 10716.54753674 RESULT 42181.78203716 RESULT 13959.61902233 RESULT 45382.48433997 RESULT -3205.793187109 RESULT -21.33542621421 RESULT -3200.702302816 RESULT 16.24454192072 Testing computed result 1.074948704824E+04 against expected result 1.074949E+04 *** PASSED *** Testing computed result 4.289487256481E+04 against expected result 4.289487E+04 *** PASSED *** Testing computed result 1.399234956777E+04 against expected result 1.399235E+04 *** PASSED *** Testing computed result 4.610066575192E+04 against expected result 4.610067E+04 *** PASSED *** Testing computed result 3.719709905887E+01 against expected result 3.719710E+01 *** PASSED *** Testing computed result 7.125747080979E+02 against expected result 7.125747E+02 *** PASSED *** Testing computed result 6.751571424823E+01 against expected result 6.751571E+01 *** PASSED *** Testing computed result 7.339101343121E+02 against expected result 7.339101E+02 *** PASSED *** Testing computed result 1.071654753674E+04 against expected result 1.071655E+04 *** PASSED *** Testing computed result 4.218178203716E+04 against expected result 4.218178E+04 *** PASSED *** Testing computed result 1.395961902233E+04 against expected result 1.395962E+04 *** PASSED *** Testing computed result 4.538248433997E+04 against expected result 4.538248E+04 *** PASSED *** Testing computed result 1.624454192072E+01 against expected result 1.624454E+01 *** PASSED *** Elapsed time: 8.641663 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7i-dss-mol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: 1d7i-dss-mol.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file 1d7i-dss-mol.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from 1d7i-dss-complex.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1677 atoms Centered at (2.526e+01, 1.899e+01, 1.912e+01) Net charge 9.91e-01 e Reading PQR-format atom data from dss-min.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 14 atoms Centered at (1.734e+01, 1.921e+01, 2.050e+01) Net charge -8.33e-17 e Reading PQR-format atom data from 1d7i-min.pqr. 1663 atoms Centered at (2.526e+01, 1.899e+01, 1.912e+01) Net charge 9.91e-01 e Preparing to run 12 PBE calculations. ---------------------------------------- CALCULATION #1 (complex-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.854 MB total, 102.854 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.264, 18.988, 19.122) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.160578033846E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (complex-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.854 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.955701871716E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.854 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.264, 18.988, 19.122) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.264965939588E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (complex-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.854 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.301801664829E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (dss-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 62.467 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.431133325426E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #6 (dss-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 62.467 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.677348113184E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #7 (dss-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 62.467 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.171079106781E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #8 (dss-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 62.467 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.697869784185E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #9 (1d7i-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.552 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.264, 18.988, 19.122) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.040108332204E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #10 (1d7i-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.552 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.787747796627E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #11 (1d7i-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.552 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.264, 18.988, 19.122) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.252495566243E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #12 (1d7i-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.552 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.133237922574E+04 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 2 (complex-solv-fine) - 4 (complex-ref-fine) end Local net energy (PE 0) = -3.460997931137E+03 kJ/mol Global net ELEC energy = -3.460997931137E+03 kJ/mol print energy 6 (dss-solv-fine) - 8 (dss-ref-fine) end Local net energy (PE 0) = -2.052167100108E+01 kJ/mol Global net ELEC energy = -2.052167100108E+01 kJ/mol print energy 10 (1d7i-solv-fine) - 12 (1d7i-ref-fine) end Local net energy (PE 0) = -3.454901259473E+03 kJ/mol Global net ELEC energy = -3.454901259473E+03 kJ/mol print energy 2 (complex-solv-fine) - 4 (complex-ref-fine) - 6 (dss-solv-fine) + 8 (dss-ref-fine) - 10 (1d7i-solv-fine) + 12 (1d7i-ref-fine) end Local net energy (PE 0) = 1.442499933668E+01 kJ/mol Global net ELEC energy = 1.442499933668E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 183.185 MB high water Thanks for using APBS! Checking for intermidiate energies in input file 1d7i-dss-mol.out RESULT 9160.578033846 RESULT 39557.01871716 RESULT 12649.65939588 RESULT 43018.01664829 RESULT 94.31133325426 RESULT 1677.348113184 RESULT 117.1079106781 RESULT 1697.869784185 RESULT 9040.108332204 RESULT 37877.47796627 RESULT 12524.95566243 RESULT 41332.37922574 RESULT -3460.997931137 RESULT -20.52167100108 RESULT -3454.901259473 RESULT 14.42499933668 Testing computed result 9.160578033846E+03 against expected result 9.160578E+03 *** PASSED *** Testing computed result 3.955701871716E+04 against expected result 3.955702E+04 *** PASSED *** Testing computed result 1.264965939588E+04 against expected result 1.264966E+04 *** PASSED *** Testing computed result 4.301801664829E+04 against expected result 4.301802E+04 *** PASSED *** Testing computed result 9.431133325426E+01 against expected result 9.431133E+01 *** PASSED *** Testing computed result 1.677348113184E+03 against expected result 1.677348E+03 *** PASSED *** Testing computed result 1.171079106781E+02 against expected result 1.171079E+02 *** PASSED *** Testing computed result 1.697869784185E+03 against expected result 1.697870E+03 *** PASSED *** Testing computed result 9.040108332204E+03 against expected result 9.040108E+03 *** PASSED *** Testing computed result 3.787747796627E+04 against expected result 3.787748E+04 *** PASSED *** Testing computed result 1.252495566243E+04 against expected result 1.252496E+04 *** PASSED *** Testing computed result 4.133237922574E+04 against expected result 4.133238E+04 *** PASSED *** Testing computed result 1.442499933668E+01 against expected result 1.442501E+01 *** PASSED *** Elapsed time: 9.008459 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7i-dss-smol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: 1d7i-dss-smol.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file 1d7i-dss-smol.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from 1d7i-dss-complex.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1677 atoms Centered at (2.526e+01, 1.899e+01, 1.912e+01) Net charge 9.91e-01 e Reading PQR-format atom data from dss-min.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 14 atoms Centered at (1.734e+01, 1.921e+01, 2.050e+01) Net charge -8.33e-17 e Reading PQR-format atom data from 1d7i-min.pqr. 1663 atoms Centered at (2.526e+01, 1.899e+01, 1.912e+01) Net charge 9.91e-01 e Preparing to run 12 PBE calculations. ---------------------------------------- CALCULATION #1 (complex-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.854 MB total, 102.854 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.264, 18.988, 19.122) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.634884642408E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #2 (complex-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.854 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.003177540425E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.854 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.264, 18.988, 19.122) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.264965939588E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (complex-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.854 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.301801664829E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (dss-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 62.467 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 7.942232645345E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #6 (dss-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 62.467 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.677798535473E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #7 (dss-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 62.467 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.171079106781E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #8 (dss-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 62.467 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.697869784185E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #9 (1d7i-solv-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.552 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.264, 18.988, 19.122) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.507068451372E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #10 (1d7i-solv-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 30.4176 A Current memory usage: 102.552 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.835075772299E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #11 (1d7i-ref-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.552 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (25.264, 18.988, 19.122) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.252495566243E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #12 (1d7i-ref-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 4.87072 A Current memory usage: 102.552 MB total, 183.185 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (17.340, 19.211, 20.503) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.010 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.010 M concentration 2.000 A-radius, -1.000 e-charge, 0.010 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.133237922574E+04 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 2 (complex-solv-fine) - 4 (complex-ref-fine) end Local net energy (PE 0) = -2.986241244040E+03 kJ/mol Global net ELEC energy = -2.986241244040E+03 kJ/mol print energy 6 (dss-solv-fine) - 8 (dss-ref-fine) end Local net energy (PE 0) = -2.007124871262E+01 kJ/mol Global net ELEC energy = -2.007124871262E+01 kJ/mol print energy 10 (1d7i-solv-fine) - 12 (1d7i-ref-fine) end Local net energy (PE 0) = -2.981621502756E+03 kJ/mol Global net ELEC energy = -2.981621502756E+03 kJ/mol print energy 2 (complex-solv-fine) - 4 (complex-ref-fine) - 6 (dss-solv-fine) + 8 (dss-ref-fine) - 10 (1d7i-solv-fine) + 12 (1d7i-ref-fine) end Local net energy (PE 0) = 1.545150742844E+01 kJ/mol Global net ELEC energy = 1.545150742844E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 183.185 MB high water Thanks for using APBS! Checking for intermidiate energies in input file 1d7i-dss-smol.out RESULT 9634.884642408 RESULT 40031.77540425 RESULT 12649.65939588 RESULT 43018.01664829 RESULT 79.42232645345 RESULT 1677.798535473 RESULT 117.1079106781 RESULT 1697.869784185 RESULT 9507.068451372 RESULT 38350.75772299 RESULT 12524.95566243 RESULT 41332.37922574 RESULT -2986.24124404 RESULT -20.07124871262 RESULT -2981.621502756 RESULT 15.45150742844 Testing computed result 9.634884642408E+03 against expected result 9.634885E+03 *** PASSED *** Testing computed result 4.003177540425E+04 against expected result 4.003178E+04 *** PASSED *** Testing computed result 1.264965939588E+04 against expected result 1.264966E+04 *** PASSED *** Testing computed result 4.301801664829E+04 against expected result 4.301802E+04 *** PASSED *** Testing computed result 7.942232645345E+01 against expected result 7.942233E+01 *** PASSED *** Testing computed result 1.677798535473E+03 against expected result 1.677799E+03 *** PASSED *** Testing computed result 1.171079106781E+02 against expected result 1.171079E+02 *** PASSED *** Testing computed result 1.697869784185E+03 against expected result 1.697870E+03 *** PASSED *** Testing computed result 9.507068451372E+03 against expected result 9.507068E+03 *** PASSED *** Testing computed result 3.835075772299E+04 against expected result 3.835076E+04 *** PASSED *** Testing computed result 1.252495566243E+04 against expected result 1.252496E+04 *** PASSED *** Testing computed result 4.133237922574E+04 against expected result 4.133238E+04 *** PASSED *** Testing computed result 1.545150742844E+01 against expected result 1.545150E+01 *** PASSED *** Elapsed time: 8.662669 seconds -------------------------------------------------------------------------------- Total elapsed time: 35.187793 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for hca-bind section -------------------------------------------------------------------------------- Testing input file apbs-mol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from acet.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 18 atoms Centered at (-6.028e+00, 3.898e+00, 1.518e+01) Net charge -1.00e+00 e Reading PQR-format atom data from hca.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 2482 atoms Centered at (-7.196e+00, 4.070e-01, 1.704e+01) Net charge 1.00e+00 e Reading PQR-format atom data from complex.pqr. 2500 atoms Centered at (-7.196e+00, 4.070e-01, 1.704e+01) Net charge -1.02e-14 e Preparing to run 9 PBE calculations. ---------------------------------------- CALCULATION #1 (acet): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 62.612 MB total, 62.612 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.213600726771E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (acet): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 62.612 MB total, 123.493 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.581 x 0.581 x 0.581 Grid lengths: 37.181 x 37.181 x 37.181 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.825764811255E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (acet): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 62.612 MB total, 123.493 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 6.458471211905E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (hca): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.596 MB total, 127.596 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.093606095527E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #5 (hca): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.596 MB total, 207.283 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.581 x 0.581 x 0.581 Grid lengths: 37.181 x 37.181 x 37.181 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.515433544464E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (hca): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.596 MB total, 207.283 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.786369323561E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #7 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.895 MB total, 207.283 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.105322784838E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #8 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.895 MB total, 207.693 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.581 x 0.581 x 0.581 Grid lengths: 37.181 x 37.181 x 37.181 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.533304996252E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #9 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.895 MB total, 207.693 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.850429388099E+05 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (acet) - 2 (hca) end Local net energy (PE 0) = -5.246475812665E+01 kJ/mol Global net ELEC energy = -5.246475812665E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 207.693 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol.out RESULT 221.3600726771 RESULT 1825.764811255 RESULT 6458.471211905 RESULT 20936.06095527 RESULT 151543.3544464 RESULT 178636.9323561 RESULT 21053.22784838 RESULT 153330.4996252 RESULT 185042.9388099 RESULT -52.46475812665 Testing computed result 2.213600726771E+02 against expected result 2.213601E+02 *** PASSED *** Testing computed result 1.825764811255E+03 against expected result 1.825765E+03 *** PASSED *** Testing computed result 6.458471211905E+03 against expected result 6.458471E+03 *** PASSED *** Testing computed result 2.093606095527E+04 against expected result 2.093606E+04 *** PASSED *** Testing computed result 1.515433544464E+05 against expected result 1.515434E+05 *** PASSED *** Testing computed result 1.786369323561E+05 against expected result 1.786369E+05 *** PASSED *** Testing computed result 2.105322784838E+04 against expected result 2.105323E+04 *** PASSED *** Testing computed result 1.533304996252E+05 against expected result 1.533305E+05 *** PASSED *** Testing computed result 1.850429388099E+05 against expected result 1.850429E+05 *** PASSED *** Testing computed result -5.246475812665E+01 against expected result -5.246476E+01 *** PASSED *** Elapsed time: 5.939778 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from acet.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 18 atoms Centered at (-6.028e+00, 3.898e+00, 1.518e+01) Net charge -1.00e+00 e Reading PQR-format atom data from hca.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 2482 atoms Centered at (-7.196e+00, 4.070e-01, 1.704e+01) Net charge 1.00e+00 e Reading PQR-format atom data from complex.pqr. 2500 atoms Centered at (-7.196e+00, 4.070e-01, 1.704e+01) Net charge -1.02e-14 e Preparing to run 9 PBE calculations. ---------------------------------------- CALCULATION #1 (acet): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 62.612 MB total, 62.612 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.884888131017E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (acet): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 62.612 MB total, 123.493 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.581 x 0.581 x 0.581 Grid lengths: 37.181 x 37.181 x 37.181 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.820045922544E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (acet): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 62.612 MB total, 123.493 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 6.460002606908E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (hca): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.596 MB total, 127.596 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.189161497021E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #5 (hca): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.596 MB total, 207.283 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.581 x 0.581 x 0.581 Grid lengths: 37.181 x 37.181 x 37.181 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.520000494925E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (hca): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.596 MB total, 207.283 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.790436191580E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #7 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.895 MB total, 207.283 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 1.500 x 1.500 x 1.500 Grid lengths: 96.000 x 96.000 x 96.000 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.195842512312E+04 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #8 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.895 MB total, 207.693 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.581 x 0.581 x 0.581 Grid lengths: 37.181 x 37.181 x 37.181 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.537771604355E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #9 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 127.895 MB total, 207.693 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.225 x 0.225 x 0.225 Grid lengths: 14.400 x 14.400 x 14.400 Grid center: (-6.028, 3.898, 15.179) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.540 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.854495619747E+05 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (acet) - 2 (hca) end Local net energy (PE 0) = -5.405979017066E+01 kJ/mol Global net ELEC energy = -5.405979017066E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 207.693 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol.out RESULT 188.4888131017 RESULT 1820.045922544 RESULT 6460.002606908 RESULT 21891.61497021 RESULT 152000.0494925 RESULT 179043.619158 RESULT 21958.42512312 RESULT 153777.1604355 RESULT 185449.5619747 RESULT -54.05979017066 Testing computed result 1.884888131017E+02 against expected result 1.884888E+02 *** PASSED *** Testing computed result 1.820045922544E+03 against expected result 1.820046E+03 *** PASSED *** Testing computed result 6.460002606908E+03 against expected result 6.460003E+03 *** PASSED *** Testing computed result 2.189161497021E+04 against expected result 2.189161E+04 *** PASSED *** Testing computed result 1.520000494925E+05 against expected result 1.520000E+05 *** PASSED *** Testing computed result 1.790436191580E+05 against expected result 1.790436E+05 *** PASSED *** Testing computed result 2.195842512312E+04 against expected result 2.195843E+04 *** PASSED *** Testing computed result 1.537771604355E+05 against expected result 1.537772E+05 *** PASSED *** Testing computed result 1.854495619747E+05 against expected result 1.854496E+05 *** PASSED *** Testing computed result -5.405979017066E+01 against expected result -5.405978E+01 *** PASSED *** Elapsed time: 5.466002 seconds -------------------------------------------------------------------------------- Total elapsed time: 11.405780 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for ionize section -------------------------------------------------------------------------------- Testing input file apbs-mol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading XML-format atom data from acetic-acid.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 8 atoms Centered at (0.000e+00, -1.535e-01, 1.287e+00) Net charge -1.67e-16 e Reading XML-format atom data from acetate.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 8 atoms Centered at (0.000e+00, -1.535e-01, 1.287e+00) Net charge -1.00e+00 e Reading XML-format atom data from proton.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (1.780e-01, -1.286e+00, 2.937e+00) Net charge 1.00e+00 e Preparing to run 12 PBE calculations. ---------------------------------------- CALCULATION #1 (acetic-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.580 MB total, 61.580 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 5.823898055191E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (acetic-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.580 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.793274462353E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (acetic-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.404 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 5.846917564309E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (acetic-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.404 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.815953282539E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (acetate-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.580 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 8.219846763777E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #6 (acetate-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.580 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.392741988698E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #7 (acetate-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.404 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 8.420373979905E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #8 (acetate-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.404 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.412716615065E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #9 (proton-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.409 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.862359524598E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #10 (proton-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.409 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 6.288156251610E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #11 (proton-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.369 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.162533113906E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #12 (proton-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.369 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 6.585616091973E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (acetic-solv) - 2 (acetic-ref) end Local net energy (PE 0) = -2.267882018629E+01 kJ/mol Global net ELEC energy = -2.267882018629E+01 kJ/mol print energy 3 (acetate-solv) - 4 (acetate-ref) end Local net energy (PE 0) = -1.997462636633E+02 kJ/mol Global net ELEC energy = -1.997462636633E+02 kJ/mol print energy 5 (proton-solv) - 6 (proton-ref) end Local net energy (PE 0) = -2.974598403628E+02 kJ/mol Global net ELEC energy = -2.974598403628E+02 kJ/mol print energy 3 (acetate-solv) - 4 (acetate-ref) + 5 (proton-solv) - 6 (proton-ref) - 1 (acetic-solv) + 2 (acetic-ref) end Local net energy (PE 0) = -4.745272838398E+02 kJ/mol Global net ELEC energy = -4.745272838398E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 122.369 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol.out RESULT 5823.898055191 RESULT 9793.274462353 RESULT 5846.917564309 RESULT 9815.953282539 RESULT 8219.846763777 RESULT 13927.41988698 RESULT 8420.373979905 RESULT 14127.16615065 RESULT 3862.359524598 RESULT 6288.15625161 RESULT 4162.533113906 RESULT 6585.616091973 RESULT -22.67882018629 RESULT -199.7462636633 RESULT -297.4598403628 RESULT -474.5272838398 Testing computed result 5.823898055191E+03 against expected result 5.823898E+03 *** PASSED *** Testing computed result 9.793274462353E+03 against expected result 9.793274E+03 *** PASSED *** Testing computed result 5.846917564309E+03 against expected result 5.846918E+03 *** PASSED *** Testing computed result 9.815953282539E+03 against expected result 9.815953E+03 *** PASSED *** Testing computed result 8.219846763777E+03 against expected result 8.219847E+03 *** PASSED *** Testing computed result 1.392741988698E+04 against expected result 1.392742E+04 *** PASSED *** Testing computed result 8.420373979905E+03 against expected result 8.420374E+03 *** PASSED *** Testing computed result 1.412716615065E+04 against expected result 1.412717E+04 *** PASSED *** Testing computed result 3.862359524598E+03 against expected result 3.862360E+03 *** PASSED *** Testing computed result 6.288156251610E+03 against expected result 6.288156E+03 *** PASSED *** Testing computed result 4.162533113906E+03 against expected result 4.162533E+03 *** PASSED *** Testing computed result 6.585616091973E+03 against expected result 6.585616E+03 *** PASSED *** Testing computed result -2.267882018629E+01 against expected result -2.267882E+01 *** PASSED *** Testing computed result -1.997462636633E+02 against expected result -1.997463E+02 *** PASSED *** Testing computed result -2.974598403628E+02 against expected result -2.974598E+02 *** PASSED *** Testing computed result -4.745272838398E+02 against expected result -4.745273E+02 *** PASSED *** Elapsed time: 1.870524 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol.in ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading XML-format atom data from acetic-acid.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 8 atoms Centered at (0.000e+00, -1.535e-01, 1.287e+00) Net charge -1.67e-16 e Reading XML-format atom data from acetate.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 8 atoms Centered at (0.000e+00, -1.535e-01, 1.287e+00) Net charge -1.00e+00 e Reading XML-format atom data from proton.xml. Valist_readXML: Warning Warning Warning Warning Warning Valist_readXML: The use of XML input files with parameter Valist_readXML: files is currently not supported. Valist_readXML: Warning Warning Warning Warning Warning 1 atoms Centered at (1.780e-01, -1.286e+00, 2.937e+00) Net charge 1.00e+00 e Preparing to run 12 PBE calculations. ---------------------------------------- CALCULATION #1 (acetic-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.580 MB total, 61.580 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 5.824172730822E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (acetic-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.580 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.793622759239E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (acetic-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.404 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 5.846917564309E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (acetic-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.404 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 9.815953282539E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (acetate-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.580 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 8.221328580569E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #6 (acetate-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.580 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.392867783119E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #7 (acetate-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.404 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 8.420373979905E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #8 (acetate-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.404 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.412716615065E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #9 (proton-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.409 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.863066835285E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #10 (proton-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 7.76163 A Current memory usage: 61.409 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.150 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.150 M concentration 2.000 A-radius, -1.000 e-charge, 0.150 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 6.289649216644E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #11 (proton-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.369 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.188 x 0.188 x 0.188 Grid lengths: 12.000 x 12.000 x 12.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 4.162533113906E+03 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #12 (proton-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.369 MB total, 122.369 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.094 x 0.094 x 0.094 Grid lengths: 6.000 x 6.000 x 6.000 Grid center: (0.000, -0.154, 1.287) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 2.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 293.000 K Electrostatic energies will be calculated Total electrostatic energy = 6.585616091973E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (acetic-solv) - 2 (acetic-ref) end Local net energy (PE 0) = -2.233052329981E+01 kJ/mol Global net ELEC energy = -2.233052329981E+01 kJ/mol print energy 3 (acetate-solv) - 4 (acetate-ref) end Local net energy (PE 0) = -1.984883194538E+02 kJ/mol Global net ELEC energy = -1.984883194538E+02 kJ/mol print energy 5 (proton-solv) - 6 (proton-ref) end Local net energy (PE 0) = -2.959668753288E+02 kJ/mol Global net ELEC energy = -2.959668753288E+02 kJ/mol print energy 3 (acetate-solv) - 4 (acetate-ref) + 5 (proton-solv) - 6 (proton-ref) - 1 (acetic-solv) + 2 (acetic-ref) end Local net energy (PE 0) = -4.721246714828E+02 kJ/mol Global net ELEC energy = -4.721246714828E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 122.369 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol.out RESULT 5824.172730822 RESULT 9793.622759239 RESULT 5846.917564309 RESULT 9815.953282539 RESULT 8221.328580569 RESULT 13928.67783119 RESULT 8420.373979905 RESULT 14127.16615065 RESULT 3863.066835285 RESULT 6289.649216644 RESULT 4162.533113906 RESULT 6585.616091973 RESULT -22.33052329981 RESULT -198.4883194538 RESULT -295.9668753288 RESULT -472.1246714828 Testing computed result 5.824172730822E+03 against expected result 5.824173E+03 *** PASSED *** Testing computed result 9.793622759239E+03 against expected result 9.793623E+03 *** PASSED *** Testing computed result 5.846917564309E+03 against expected result 5.846918E+03 *** PASSED *** Testing computed result 9.815953282539E+03 against expected result 9.815953E+03 *** PASSED *** Testing computed result 8.221328580569E+03 against expected result 8.221329E+03 *** PASSED *** Testing computed result 1.392867783119E+04 against expected result 1.392868E+04 *** PASSED *** Testing computed result 8.420373979905E+03 against expected result 8.420374E+03 *** PASSED *** Testing computed result 1.412716615065E+04 against expected result 1.412717E+04 *** PASSED *** Testing computed result 3.863066835285E+03 against expected result 3.863067E+03 *** PASSED *** Testing computed result 6.289649216644E+03 against expected result 6.289649E+03 *** PASSED *** Testing computed result 4.162533113906E+03 against expected result 4.162533E+03 *** PASSED *** Testing computed result 6.585616091973E+03 against expected result 6.585616E+03 *** PASSED *** Testing computed result -2.233052329981E+01 against expected result -2.233050E+01 *** PASSED *** Testing computed result -1.984883194538E+02 against expected result -1.984883E+02 *** PASSED *** Testing computed result -2.959668753288E+02 against expected result -2.959669E+02 *** PASSED *** Testing computed result -4.721246714828E+02 against expected result -4.721247E+02 *** PASSED *** Elapsed time: 1.776375 seconds -------------------------------------------------------------------------------- Total elapsed time: 3.646899 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for ion-pmf section -------------------------------------------------------------------------------- Testing input file ion-pmf.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: ion-pmf.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file ion-pmf.in... rank 0 size 1... Parsed input file. Reading parameter data from parm.dat. Got paths for 1 molecules Reading PDB-format atom data from ion-pmf.pdb. Vpmg_ibForce: No force for zero ionic strength! Vpmg_ibForce: No force for zero ionic strength! 2 atoms Centered at (-1.000e+00, 0.000e+00, 0.000e+00) Net charge 2.00e+00 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.094 MB total, 61.094 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated All-atom solvent forces will be calculated Total electrostatic energy = 7.839535983197E+03 kJ/mol Calculating forces... Printing per-atom forces for molecule 1 (kJ/mol/A) Legend: tot n -- total force for atom n qf n -- fixed charge force for atom n db n -- dielectric boundary force for atom n ib n -- ionic boundary force for atom n mgF tot 0 -3.760e+03 -4.398e-05 -7.763e-05 mgF qf 0 -3.767e+03 -1.730e-05 -2.384e-05 mgF ib 0 0.000e+00 0.000e+00 0.000e+00 mgF db 0 6.148e+00 -2.668e-05 -5.379e-05 mgF tot 1 -3.596e+03 -5.403e-05 -1.012e-04 mgF qf 1 -3.598e+03 -2.253e-05 -3.831e-05 mgF ib 1 0.000e+00 0.000e+00 0.000e+00 mgF db 1 2.883e+00 -3.150e-05 -6.291e-05 Vpmg_ibForce: No force for zero ionic strength! Vpmg_ibForce: No force for zero ionic strength! ---------------------------------------- CALCULATION #2 (ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.094 MB total, 61.133 MB high water Using cubic spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 1.000 Solvent dielectric: 1.000 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated All-atom solvent forces will be calculated Total electrostatic energy = 8.964727588811E+03 kJ/mol Calculating forces... Printing per-atom forces for molecule 1 (kJ/mol/A) Legend: tot n -- total force for atom n qf n -- fixed charge force for atom n db n -- dielectric boundary force for atom n ib n -- ionic boundary force for atom n mgF tot 0 -3.850e+03 -4.055e-06 -7.703e-06 mgF qf 0 -3.850e+03 -4.055e-06 -7.703e-06 mgF ib 0 0.000e+00 0.000e+00 0.000e+00 mgF db 0 0.000e+00 0.000e+00 0.000e+00 mgF tot 1 -3.514e+03 -4.163e-06 -7.690e-06 mgF qf 1 -3.514e+03 -4.163e-06 -7.690e-06 mgF ib 1 0.000e+00 0.000e+00 0.000e+00 mgF db 1 0.000e+00 0.000e+00 0.000e+00 ---------------------------------------- CALCULATION #3 (asolv): APOLAR Printing per atom forces (kJ/mol/A) Legend: tot n -- Total force for atom n sasa n -- SASA force for atom n sav n -- SAV force for atom n wca n -- WCA force for atom n gamma 0.000720 pressure 0.000000 bconc 0.033000 tot 0 2.715e-02 9.130e-07 9.130e-07 sasa 0 -1.100e+01 0.000e+00 0.000e+00 sav 0 0.000e+00 0.000e+00 0.000e+00 wca 0 -5.827e-01 -2.767e-05 -2.767e-05 tot 1 -2.723e-02 9.133e-07 9.133e-07 sasa 1 1.112e+01 0.000e+00 0.000e+00 sav 1 0.000e+00 0.000e+00 0.000e+00 wca 1 5.827e-01 -2.767e-05 -2.767e-05 Solvent Accessible Surface Area (SASA) for each atom: SASA for atom 0: 1.153275282828E+02 SASA for atom 1: 1.153114143344E+02 Total solvent accessible surface area: 230.639 A^2 Surface tension*area energies (gamma * SASA) for each atom: Surface tension*area energy for atom 0: 8.303582036361E-02 Surface tension*area energy for atom 1: 8.302421832080E-02 Total surface tension energy: 0.16606 kJ/mol Total solvent accessible volume: 0 A^3 Total pressure*volume energy: 0 kJ/mol WCA dispersion Energies for each atom: WCA energy for atom 0: -6.909718359932E+00 WCA energy for atom 1: -6.909422551724E+00 Total WCA energy: -13.8191 kJ/mol Total non-polar energy = -1.365308087297E+01 kJ/mol ---------------------------------------- PRINT STATEMENTS print energy 1 (solv) - 2 (ref) end Local net energy (PE 0) = -1.125191605614E+03 kJ/mol Global net ELEC energy = -1.125191605614E+03 kJ/mol print force 1 (solv) - 2 (ref) end Printing per-atom forces (kJ/mol/A). Legend: tot n -- Total force for atom n qf n -- Fixed charge force for atom n db n -- Dielectric boundary force for atom n ib n -- Ionic boundary force for atom n tot all -- Total force for system qf 0 8.398642197666E+01 -1.324564548552E-05 -1.613435632529E-05 ib 0 0.000000000000E+00 0.000000000000E+00 0.000000000000E+00 db 0 6.148357059184E+00 -2.667517425897E-05 -5.378919678211E-05 tot 0 9.013477903584E+01 -3.992081974449E-05 -6.992355310740E-05 qf 1 -8.466423642736E+01 -1.836748045969E-05 -3.062224428458E-05 ib 1 0.000000000000E+00 0.000000000000E+00 0.000000000000E+00 db 1 2.882739230548E+00 -3.149946357588E-05 -6.291495506459E-05 tot 1 -8.178149719681E+01 -4.986694403557E-05 -9.353719934917E-05 tot all 8.353281839029E+00 -8.978776378007E-05 -1.634607524566E-04 print APOL energy 1 (asolv) end Global net APOL energy = -1.365308087297E+01 kJ/mol print APOL force 1 (asolv) end Printing per atom forces (kJ/mol/A) Legend: tot n -- Total force for atom n sasa n -- SASA force for atom n sav n -- SAV force for atom n wca n -- WCA force for atom n tot all -- Total force for system sasa 0 -1.099776974333E+01 0.000000000000E+00 0.000000000000E+00 sav 0 0.000000000000E+00 0.000000000000E+00 0.000000000000E+00 wca 0 -5.826577086437E-01 -2.766670515801E-05 -2.766670515838E-05 tot 0 -1.158042745197E+01 -2.766670515801E-05 -2.766670515838E-05 sasa 1 1.111862435589E+01 0.000000000000E+00 0.000000000000E+00 sav 1 0.000000000000E+00 0.000000000000E+00 0.000000000000E+00 wca 1 5.826560767576E-01 -2.767485007141E-05 -2.767485007183E-05 tot 1 1.170128043265E+01 -2.767485007141E-05 -2.767485007183E-05 tot all 1.208529806779E-01 -5.534155522943E-05 -5.534155523021E-05 ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 1 molecules Final memory usage: 60.711 MB total, 62.228 MB high water Thanks for using APBS! Checking for intermidiate energies in input file ion-pmf.out RESULT 7839.535983197 RESULT 8964.727588811 RESULT -1125.191605614 RESULT -13.65308087297 Testing computed result 7.839535983197E+03 against expected result 7.839536E+03 *** PASSED *** Testing computed result 8.964727588811E+03 against expected result 8.964728E+03 *** PASSED *** Testing computed result -1.125191605614E+03 against expected result -1.125192E+03 *** PASSED *** Elapsed time: 7.725585 seconds -------------------------------------------------------------------------------- Total elapsed time: 7.725585 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for ion-protein section -------------------------------------------------------------------------------- Testing input file apbs-mol-pdiel2.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-pdiel2.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-pdiel2.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from small491.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 259 atoms Centered at (2.898e+02, 1.679e+02, 8.192e+01) Net charge 1.97e+01 e Reading PQR-format atom data from 491.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (2.998e+02, 1.629e+02, 8.934e+01) Net charge 2.00e+00 e Reading PQR-format atom data from complex.pqr. 260 atoms Centered at (2.898e+02, 1.679e+02, 8.192e+01) Net charge 2.17e+01 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (protein): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 511.943 MB total, 511.943 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 1 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 7.525554553704E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (ion): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 499.855 MB total, 512.008 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 2 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.967613272771E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 512.007 MB total, 512.008 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 3 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.050875942181E+04 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (protein) - 2 (ion) end Local net energy (PE 0) = 1.559159533658E+01 kJ/mol Global net ELEC energy = 1.559159533658E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 512.008 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-pdiel2.out RESULT 7525.554553704 RESULT 2967.613272771 RESULT 10508.75942181 RESULT 15.59159533658 Testing computed result 7.525554553704E+03 against expected result 7.525555E+03 *** PASSED *** Testing computed result 2.967613272771E+03 against expected result 2.967613E+03 *** PASSED *** Testing computed result 1.050875942181E+04 against expected result 1.050876E+04 *** PASSED *** Testing computed result 1.559159533658E+01 against expected result 1.559160E+01 *** PASSED *** Elapsed time: 41.810675 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-pdiel2.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-pdiel2.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-pdiel2.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from small491.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 259 atoms Centered at (2.898e+02, 1.679e+02, 8.192e+01) Net charge 1.97e+01 e Reading PQR-format atom data from 491.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (2.998e+02, 1.629e+02, 8.934e+01) Net charge 2.00e+00 e Reading PQR-format atom data from complex.pqr. 260 atoms Centered at (2.898e+02, 1.679e+02, 8.192e+01) Net charge 2.17e+01 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (protein): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 511.943 MB total, 511.943 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 1 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 7.561237446444E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (ion): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 499.855 MB total, 512.008 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 2 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.974076897757E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 512.007 MB total, 512.008 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 3 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.055886976547E+04 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (protein) - 2 (ion) end Local net energy (PE 0) = 2.355542126539E+01 kJ/mol Global net ELEC energy = 2.355542126539E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 512.008 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-pdiel2.out RESULT 7561.237446444 RESULT 2974.076897757 RESULT 10558.86976547 RESULT 23.55542126539 Testing computed result 7.561237446444E+03 against expected result 7.561237E+03 *** PASSED *** Testing computed result 2.974076897757E+03 against expected result 2.974077E+03 *** PASSED *** Testing computed result 1.055886976547E+04 against expected result 1.055887E+04 *** PASSED *** Testing computed result 2.355542126539E+01 against expected result 2.355542E+01 *** PASSED *** Elapsed time: 34.684979 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-pdiel12.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-pdiel12.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-pdiel12.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from small491.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 259 atoms Centered at (2.898e+02, 1.679e+02, 8.192e+01) Net charge 1.97e+01 e Reading PQR-format atom data from 491.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (2.998e+02, 1.629e+02, 8.934e+01) Net charge 2.00e+00 e Reading PQR-format atom data from complex.pqr. 260 atoms Centered at (2.898e+02, 1.679e+02, 8.192e+01) Net charge 2.17e+01 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (protein): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 511.943 MB total, 511.943 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 1 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 12.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.363584355927E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (ion): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 499.855 MB total, 512.008 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 2 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 12.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 5.110802147229E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 512.007 MB total, 512.008 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 3 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 12.000 Solvent dielectric: 78.400 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.892691797082E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (protein) - 2 (ion) end Local net energy (PE 0) = 1.802722643145E+01 kJ/mol Global net ELEC energy = 1.802722643145E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 512.008 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-pdiel12.out RESULT 1363.584355927 RESULT 511.0802147229 RESULT 1892.691797082 RESULT 18.02722643145 Testing computed result 1.363584355927E+03 against expected result 1.363584E+03 *** PASSED *** Testing computed result 5.110802147229E+02 against expected result 5.110802E+02 *** PASSED *** Testing computed result 1.892691797082E+03 against expected result 1.892692E+03 *** PASSED *** Testing computed result 1.802722643145E+01 against expected result 1.802723E+01 *** PASSED *** Elapsed time: 31.730118 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-pdiel12.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-pdiel12.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-pdiel12.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from small491.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 259 atoms Centered at (2.898e+02, 1.679e+02, 8.192e+01) Net charge 1.97e+01 e Reading PQR-format atom data from 491.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (2.998e+02, 1.629e+02, 8.934e+01) Net charge 2.00e+00 e Reading PQR-format atom data from complex.pqr. 260 atoms Centered at (2.898e+02, 1.679e+02, 8.192e+01) Net charge 2.17e+01 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (protein): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 511.943 MB total, 511.943 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 1 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 12.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.366571366426E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (ion): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 499.855 MB total, 512.008 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 2 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 12.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 5.108315415905E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 13.5959 A Current memory usage: 512.007 MB total, 512.008 MB high water Using linear spline charge discretization. Grid dimensions: 129 x 129 x 129 Grid spacings: 0.523 x 0.523 x 0.586 Grid lengths: 67.000 x 67.000 x 75.000 Grid center: (289.756, 167.946, 81.925) Multigrid levels: 6 Molecule ID: 3 Nonlinear traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.050 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.050 M concentration 2.000 A-radius, -1.000 e-charge, 0.050 M concentration Solute dielectric: 12.000 Solvent dielectric: 78.400 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.896685358215E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (protein) - 2 (ion) end Local net energy (PE 0) = 1.928245019843E+01 kJ/mol Global net ELEC energy = 1.928245019843E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 512.008 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-pdiel12.out RESULT 1366.571366426 RESULT 510.8315415905 RESULT 1896.685358215 RESULT 19.28245019843 Testing computed result 1.366571366426E+03 against expected result 1.366571E+03 *** PASSED *** Testing computed result 5.108315415905E+02 against expected result 5.108315E+02 *** PASSED *** Testing computed result 1.896685358215E+03 against expected result 1.896685E+03 *** PASSED *** Testing computed result 1.928245019843E+01 against expected result 1.928245E+01 *** PASSED *** Elapsed time: 31.425809 seconds -------------------------------------------------------------------------------- Total elapsed time: 139.651581 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for pka-lig section -------------------------------------------------------------------------------- Testing input file apbs-mol-vdw.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-vdw.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-vdw.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from bx6_7_lig_apbs.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 47 atoms Centered at (2.482e+01, -3.315e+01, 2.154e+01) Net charge 1.11e-16 e Reading PQR-format atom data from bx6_7_apo_apbs.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 3423 atoms Centered at (2.897e+01, -3.251e+01, 2.702e+01) Net charge 1.00e+00 e Reading PQR-format atom data from bx6_7_bin_apbs.pqr. 3470 atoms Centered at (2.897e+01, -3.251e+01, 2.702e+01) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (lig-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 203.783 MB total, 203.783 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 1 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.224988750664E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (lig-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 203.783 MB total, 405.012 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.049695084686E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (pka-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 270.353 MB total, 405.012 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 2 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.818450789522E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (pka-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 270.353 MB total, 491.871 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.008254338259E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 271.031 MB total, 491.871 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 3 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.840918409896E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 271.031 MB total, 492.784 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.113304681884E+05 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 6 (complex-fine) - 2 (lig-fine) - 4 (pka-fine) end Local net energy (PE 0) = 8.083515648730E+00 kJ/mol Global net ELEC energy = 8.083515648730E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 492.784 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-vdw.out RESULT 2224.988750664 RESULT 10496.95084686 RESULT 181845.0789522 RESULT 300825.4338259 RESULT 184091.8409896 RESULT 311330.4681884 RESULT 8.08351564873 Testing computed result 2.224988750664E+03 against expected result 2.224989E+03 *** PASSED *** Testing computed result 1.049695084686E+04 against expected result 1.049695E+04 *** PASSED *** Testing computed result 1.818450789522E+05 against expected result 1.818451E+05 *** PASSED *** Testing computed result 3.008254338259E+05 against expected result 3.008254E+05 *** PASSED *** Testing computed result 1.840918409896E+05 against expected result 1.840918E+05 *** PASSED *** Testing computed result 3.113304681884E+05 against expected result 3.113305E+05 *** PASSED *** Testing computed result 8.083515648730E+00 against expected result 8.083516E+00 *** PASSED *** Elapsed time: 8.231473 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-vdw.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-vdw.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-vdw.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from bx6_7_lig_apbs.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 47 atoms Centered at (2.482e+01, -3.315e+01, 2.154e+01) Net charge 1.11e-16 e Reading PQR-format atom data from bx6_7_apo_apbs.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 3423 atoms Centered at (2.897e+01, -3.251e+01, 2.702e+01) Net charge 1.00e+00 e Reading PQR-format atom data from bx6_7_bin_apbs.pqr. 3470 atoms Centered at (2.897e+01, -3.251e+01, 2.702e+01) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (lig-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 203.783 MB total, 203.783 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 1 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.226793167046E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (lig-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 203.783 MB total, 405.012 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.050504485887E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (pka-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 270.353 MB total, 405.012 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 2 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.827976621645E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (pka-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 270.353 MB total, 491.871 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.017228546773E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 271.031 MB total, 491.871 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 3 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.850819075387E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 271.031 MB total, 492.784 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.122488625388E+05 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 6 (complex-fine) - 2 (lig-fine) - 4 (pka-fine) end Local net energy (PE 0) = 2.096300255723E+01 kJ/mol Global net ELEC energy = 2.096300255723E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 492.784 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-vdw.out RESULT 2226.793167046 RESULT 10505.04485887 RESULT 182797.6621645 RESULT 301722.8546773 RESULT 185081.9075387 RESULT 312248.8625388 RESULT 20.96300255723 Testing computed result 2.226793167046E+03 against expected result 2.226793E+03 *** PASSED *** Testing computed result 1.050504485887E+04 against expected result 1.050504E+04 *** PASSED *** Testing computed result 1.827976621645E+05 against expected result 1.827977E+05 *** PASSED *** Testing computed result 3.017228546773E+05 against expected result 3.017229E+05 *** PASSED *** Testing computed result 1.850819075387E+05 against expected result 1.850819E+05 *** PASSED *** Testing computed result 3.122488625388E+05 against expected result 3.122489E+05 *** PASSED *** Testing computed result 2.096300255723E+01 against expected result 2.096296E+01 *** PASSED *** Elapsed time: 7.077804 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-surf.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol-surf.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol-surf.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from bx6_7_lig_apbs.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 47 atoms Centered at (2.482e+01, -3.315e+01, 2.154e+01) Net charge 1.11e-16 e Reading PQR-format atom data from bx6_7_apo_apbs.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 3423 atoms Centered at (2.897e+01, -3.251e+01, 2.702e+01) Net charge 1.00e+00 e Reading PQR-format atom data from bx6_7_bin_apbs.pqr. 3470 atoms Centered at (2.897e+01, -3.251e+01, 2.702e+01) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (lig-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 203.369 MB total, 203.369 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 1 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.244350164274E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (lig-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 203.369 MB total, 404.597 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.052149475373E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (pka-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 230.723 MB total, 404.597 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 2 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.862615690066E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (pka-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 230.723 MB total, 452.241 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.051810884053E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 230.826 MB total, 452.241 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 3 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.886625455219E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 230.826 MB total, 452.578 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.158218439277E+05 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 6 (complex-fine) - 2 (lig-fine) - 4 (pka-fine) end Local net energy (PE 0) = 1.192607686581E+02 kJ/mol Global net ELEC energy = 1.192607686581E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 452.578 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol-surf.out RESULT 2244.350164274 RESULT 10521.49475373 RESULT 186261.5690066 RESULT 305181.0884053 RESULT 188662.5455219 RESULT 315821.8439277 RESULT 119.2607686581 Testing computed result 2.244350164274E+03 against expected result 2.244350E+03 *** PASSED *** Testing computed result 1.052149475373E+04 against expected result 1.052149E+04 *** PASSED *** Testing computed result 1.862615690066E+05 against expected result 1.862616E+05 *** PASSED *** Testing computed result 3.051810884053E+05 against expected result 3.051811E+05 *** PASSED *** Testing computed result 1.886625455219E+05 against expected result 1.886625E+05 *** PASSED *** Testing computed result 3.158218439277E+05 against expected result 3.158218E+05 *** PASSED *** Testing computed result 1.192607686581E+02 against expected result 1.192608E+02 *** PASSED *** Elapsed time: 9.042335 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-surf.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol-surf.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol-surf.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from bx6_7_lig_apbs.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 47 atoms Centered at (2.482e+01, -3.315e+01, 2.154e+01) Net charge 1.11e-16 e Reading PQR-format atom data from bx6_7_apo_apbs.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 3423 atoms Centered at (2.897e+01, -3.251e+01, 2.702e+01) Net charge 1.00e+00 e Reading PQR-format atom data from bx6_7_bin_apbs.pqr. 3470 atoms Centered at (2.897e+01, -3.251e+01, 2.702e+01) Net charge 1.00e+00 e Preparing to run 6 PBE calculations. ---------------------------------------- CALCULATION #1 (lig-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 203.369 MB total, 203.369 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 1 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.251466789420E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (lig-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 203.369 MB total, 404.597 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 1 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.052814502873E+04 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (pka-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 230.723 MB total, 404.597 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 2 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.864071689626E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #4 (pka-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 230.723 MB total, 452.241 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 2 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.053319953673E+05 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #5 (complex-coarse): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 230.826 MB total, 452.241 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.729 x 0.729 x 0.729 Grid lengths: 70.000 x 70.000 x 70.000 Grid center: (28.969, -32.507, 27.022) Multigrid levels: 4 Molecule ID: 3 Linearized traditional PBE Single Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.888027142979E+05 kJ/mol Calculating forces... [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! ---------------------------------------- CALCULATION #6 (complex-fine): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 230.826 MB total, 452.578 MB high water Using linear spline charge discretization. Grid dimensions: 97 x 97 x 97 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 24.000 x 24.000 x 24.000 Grid center: (24.822, -33.153, 21.545) Multigrid levels: 4 Molecule ID: 3 Linearized traditional PBE Boundary conditions from focusing 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 1.400 A Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 3.159690177241E+05 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 6 (complex-fine) - 2 (lig-fine) - 4 (pka-fine) end Local net energy (PE 0) = 1.088773280806E+02 kJ/mol Global net ELEC energy = 1.088773280806E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 452.578 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol-surf.out RESULT 2251.46678942 RESULT 10528.14502873 RESULT 186407.1689626 RESULT 305331.9953673 RESULT 188802.7142979 RESULT 315969.0177241 RESULT 108.8773280806 Testing computed result 2.251466789420E+03 against expected result 2.251467E+03 *** PASSED *** Testing computed result 1.052814502873E+04 against expected result 1.052815E+04 *** PASSED *** Testing computed result 1.864071689626E+05 against expected result 1.864072E+05 *** PASSED *** Testing computed result 3.053319953673E+05 against expected result 3.053320E+05 *** PASSED *** Testing computed result 1.888027142979E+05 against expected result 1.888027E+05 *** PASSED *** Testing computed result 3.159690177241E+05 against expected result 3.159690E+05 *** PASSED *** Testing computed result 1.088773280806E+02 against expected result 1.088773E+02 *** PASSED *** Elapsed time: 8.519878 seconds -------------------------------------------------------------------------------- Total elapsed time: 32.871490 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for point-pmf section -------------------------------------------------------------------------------- Testing input file complex-0_1.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: complex-0_1.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file complex-0_1.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol0.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (-3.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Reading PQR-format atom data from mol1.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (-2.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Reading PQR-format atom data from complex-0_1.pqr. 2 atoms Centered at (-2.500e+00, 0.000e+00, 0.000e+00) Net charge 2.00e+00 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (point1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.058 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.776035707281E+01 kJ/mol Fixed charge energy = 97.7604 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 96.5336 kJ/mol Per-atom energies: Atom 0: 9.776035707281E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (point2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.065 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 8.975920687031E+01 kJ/mol Fixed charge energy = 89.7592 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 88.6151 kJ/mol Per-atom energies: Atom 0: 8.975920687031E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.065 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.058277719334E+02 kJ/mol Fixed charge energy = 205.828 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 201.106 kJ/mol Per-atom energies: Atom 0: 1.069144350786E+02 kJ/mol Atom 1: 9.891333685475E+01 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (point1) - 2 (point2) end Local net energy (PE 0) = 1.830820799027E+01 kJ/mol Global net ELEC energy = 1.830820799027E+01 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 61.065 MB high water Thanks for using APBS! Checking for intermidiate energies in input file complex-0_1.out RESULT 97.76035707281 RESULT 89.75920687031 RESULT 205.8277719334 RESULT 0.0 RESULT 0.0 RESULT 0.0 RESULT 97.7604 RESULT 89.7592 RESULT 205.828 RESULT 96.5336 RESULT 88.6151 RESULT 201.106 RESULT 18.30820799027 Testing computed result 9.776035707281E+01 against expected result 9.776036E+01 *** PASSED *** Testing computed result 8.975920687031E+01 against expected result 8.975921E+01 *** PASSED *** Testing computed result 2.058277719334E+02 against expected result 2.058278E+02 *** PASSED *** Testing computed result 9.776040000000E+01 against expected result 9.776040E+01 *** PASSED *** Testing computed result 8.975920000000E+01 against expected result 8.975920E+01 *** PASSED *** Testing computed result 2.058280000000E+02 against expected result 2.058280E+02 *** PASSED *** Testing computed result 9.653360000000E+01 against expected result 9.653360E+01 *** PASSED *** Testing computed result 8.861510000000E+01 against expected result 8.861510E+01 *** PASSED *** Testing computed result 2.011060000000E+02 against expected result 2.011060E+02 *** PASSED *** Testing computed result 1.830820799027E+01 against expected result 1.830821E+01 *** PASSED *** Elapsed time: 0.486701 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_2.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: complex-0_2.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file complex-0_2.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol0.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (-3.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Reading PQR-format atom data from mol2.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (-1.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Reading PQR-format atom data from complex-0_2.pqr. 2 atoms Centered at (-2.000e+00, 0.000e+00, 0.000e+00) Net charge 2.00e+00 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (point1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.058 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.776035707281E+01 kJ/mol Fixed charge energy = 97.7604 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 96.5336 kJ/mol Per-atom energies: Atom 0: 9.776035707281E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (point2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.065 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.017611498797E+02 kJ/mol Fixed charge energy = 101.761 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 100.656 kJ/mol Per-atom energies: Atom 0: 1.017611498797E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.065 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.084282010393E+02 kJ/mol Fixed charge energy = 208.428 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 203.83 kJ/mol Per-atom energies: Atom 0: 1.022136878480E+02 kJ/mol Atom 1: 1.062145131913E+02 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (point1) - 2 (point2) end Local net energy (PE 0) = 8.906694086750E+00 kJ/mol Global net ELEC energy = 8.906694086750E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 61.065 MB high water Thanks for using APBS! Checking for intermidiate energies in input file complex-0_2.out RESULT 97.76035707281 RESULT 101.7611498797 RESULT 208.4282010393 RESULT 0.0 RESULT 0.0 RESULT 0.0 RESULT 97.7604 RESULT 101.761 RESULT 208.428 RESULT 96.5336 RESULT 100.656 RESULT 203.83 RESULT 8.90669408675 Testing computed result 9.776035707281E+01 against expected result 9.776036E+01 *** PASSED *** Testing computed result 1.017611498797E+02 against expected result 1.017611E+02 *** PASSED *** Testing computed result 2.084282010393E+02 against expected result 2.084282E+02 *** PASSED *** Testing computed result 9.776040000000E+01 against expected result 9.776040E+01 *** PASSED *** Testing computed result 1.017610000000E+02 against expected result 1.017610E+02 *** PASSED *** Testing computed result 2.084280000000E+02 against expected result 2.084280E+02 *** PASSED *** Testing computed result 9.653360000000E+01 against expected result 9.653360E+01 *** PASSED *** Testing computed result 1.006560000000E+02 against expected result 1.006560E+02 *** PASSED *** Testing computed result 2.038300000000E+02 against expected result 2.038300E+02 *** PASSED *** Testing computed result 8.906694086750E+00 against expected result 8.906694E+00 *** PASSED *** Elapsed time: 0.482557 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_3.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: complex-0_3.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file complex-0_3.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol0.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (-3.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Reading PQR-format atom data from mol3.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (0.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Reading PQR-format atom data from complex-0_3.pqr. 2 atoms Centered at (-1.500e+00, 0.000e+00, 0.000e+00) Net charge 2.00e+00 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (point1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.058 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.776035707281E+01 kJ/mol Fixed charge energy = 97.7604 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 96.5336 kJ/mol Per-atom energies: Atom 0: 9.776035707281E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (point2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.065 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.337661883222E+02 kJ/mol Fixed charge energy = 133.766 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 132.672 kJ/mol Per-atom energies: Atom 0: 1.337661883222E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.065 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.374361452120E+02 kJ/mol Fixed charge energy = 237.436 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 232.924 kJ/mol Per-atom energies: Atom 0: 1.007151570480E+02 kJ/mol Atom 1: 1.367209881640E+02 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (point1) - 2 (point2) end Local net energy (PE 0) = 5.909599816984E+00 kJ/mol Global net ELEC energy = 5.909599816984E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 61.065 MB high water Thanks for using APBS! Checking for intermidiate energies in input file complex-0_3.out RESULT 97.76035707281 RESULT 133.7661883222 RESULT 237.436145212 RESULT 0.0 RESULT 0.0 RESULT 0.0 RESULT 97.7604 RESULT 133.766 RESULT 237.436 RESULT 96.5336 RESULT 132.672 RESULT 232.924 RESULT 5.909599816984 Testing computed result 9.776035707281E+01 against expected result 9.776036E+01 *** PASSED *** Testing computed result 1.337661883222E+02 against expected result 1.337662E+02 *** PASSED *** Testing computed result 2.374361452120E+02 against expected result 2.374361E+02 *** PASSED *** Testing computed result 9.776040000000E+01 against expected result 9.776040E+01 *** PASSED *** Testing computed result 1.337660000000E+02 against expected result 1.337660E+02 *** PASSED *** Testing computed result 2.374360000000E+02 against expected result 2.374360E+02 *** PASSED *** Testing computed result 9.653360000000E+01 against expected result 9.653360E+01 *** PASSED *** Testing computed result 1.326720000000E+02 against expected result 1.326720E+02 *** PASSED *** Testing computed result 2.329240000000E+02 against expected result 2.329240E+02 *** PASSED *** Testing computed result 5.909599816984E+00 against expected result 5.909600E+00 *** PASSED *** Elapsed time: 0.436301 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_4.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: complex-0_4.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file complex-0_4.in... rank 0 size 1... Parsed input file. Got paths for 3 molecules Reading PQR-format atom data from mol0.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (-3.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Reading PQR-format atom data from mol4.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 1 atoms Centered at (1.000e+00, 0.000e+00, 0.000e+00) Net charge 1.00e+00 e Reading PQR-format atom data from complex-0_4.pqr. 2 atoms Centered at (-1.000e+00, 0.000e+00, 0.000e+00) Net charge 2.00e+00 e Preparing to run 3 PBE calculations. ---------------------------------------- CALCULATION #1 (point1): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.058 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 9.776035707281E+01 kJ/mol Fixed charge energy = 97.7604 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 96.5336 kJ/mol Per-atom energies: Atom 0: 9.776035707281E+01 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (point2): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.058 MB total, 61.065 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 1.017611498797E+02 kJ/mol Fixed charge energy = 101.761 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 100.654 kJ/mol Per-atom energies: Atom 0: 1.017611498797E+02 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (complex): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (0 A) for exclusion function Debye length: 0 A Current memory usage: 61.059 MB total, 61.066 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.210 x 0.210 x 0.210 Grid lengths: 13.440 x 13.440 x 13.440 Grid center: (0.000, 0.000, 0.000) Multigrid levels: 5 Molecule ID: 3 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 0 ion species (0.000 M ionic strength): Solute dielectric: 78.540 Solvent dielectric: 78.540 Using spline-based surface definition;window = 0.300 Temperature: 298.150 K Electrostatic energies will be calculated Total electrostatic energy = 2.039516519000E+02 kJ/mol Fixed charge energy = 203.952 kJ/mol Mobile charge energy = 0 kJ/mol Dielectric energy = 199.493 kJ/mol Per-atom energies: Atom 0: 9.997541697022E+01 kJ/mol Atom 1: 1.039762349297E+02 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 3 (complex) - 1 (point1) - 2 (point2) end Local net energy (PE 0) = 4.430144947418E+00 kJ/mol Global net ELEC energy = 4.430144947418E+00 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 3 molecules Final memory usage: 0.001 MB total, 61.066 MB high water Thanks for using APBS! Checking for intermidiate energies in input file complex-0_4.out RESULT 97.76035707281 RESULT 101.7611498797 RESULT 203.9516519 RESULT 0.0 RESULT 0.0 RESULT 0.0 RESULT 97.7604 RESULT 101.761 RESULT 203.952 RESULT 96.5336 RESULT 100.654 RESULT 199.493 RESULT 4.430144947418 Testing computed result 9.776035707281E+01 against expected result 9.776036E+01 *** PASSED *** Testing computed result 1.017611498797E+02 against expected result 1.017611E+02 *** PASSED *** Testing computed result 2.039516519000E+02 against expected result 2.039517E+02 *** PASSED *** Testing computed result 9.776040000000E+01 against expected result 9.776040E+01 *** PASSED *** Testing computed result 1.017610000000E+02 against expected result 1.017610E+02 *** PASSED *** Testing computed result 2.039520000000E+02 against expected result 2.039520E+02 *** PASSED *** Testing computed result 9.653360000000E+01 against expected result 9.653360E+01 *** PASSED *** Testing computed result 1.006540000000E+02 against expected result 1.006540E+02 *** PASSED *** Testing computed result 1.994930000000E+02 against expected result 1.994930E+02 *** PASSED *** Testing computed result 4.430144947418E+00 against expected result 4.430145E+00 *** PASSED *** Elapsed time: 0.423096 seconds -------------------------------------------------------------------------------- Total elapsed time: 1.828655 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for solv section -------------------------------------------------------------------------------- Testing input file apbs-mol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-mol.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-mol.in... rank 0 size 1... Parsed input file. Got paths for 2 molecules Reading PQR-format atom data from methanol.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 3 atoms Centered at (3.086e-01, 0.000e+00, -2.417e-01) Net charge 5.55e-17 e Reading PQR-format atom data from methoxide.pqr. 2 atoms Centered at (0.000e+00, 0.000e+00, -1.279e-01) Net charge -1.00e+00 e Preparing to run 4 PBE calculations. ---------------------------------------- CALCULATION #1 (methanol-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.246 MB total, 61.246 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 16.000 x 16.000 x 16.000 Grid center: (0.309, 0.000, -0.242) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.847663548071E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (methanol-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.246 MB total, 61.315 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 16.000 x 16.000 x 16.000 Grid center: (0.309, 0.000, -0.242) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.883912182952E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (methoxide-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.243 MB total, 61.315 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 16.000 x 16.000 x 16.000 Grid center: (0.000, 0.000, -0.128) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 2.732623683321E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (methoxide-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.243 MB total, 61.315 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 16.000 x 16.000 x 16.000 Grid center: (0.000, 0.000, -0.128) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 1.000 Using "molecular" surface definition; no smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.123035854133E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (methanol-solv) - 2 (methanol-ref) end Local net energy (PE 0) = -3.624863488074E+01 kJ/mol Global net ELEC energy = -3.624863488074E+01 kJ/mol print energy 3 (methoxide-solv) - 4 (methoxide-ref) end Local net energy (PE 0) = -3.904121708125E+02 kJ/mol Global net ELEC energy = -3.904121708125E+02 kJ/mol print energy 3 (methoxide-solv) - 4 (methoxide-ref) - 1 (methanol-solv) + 2 (methanol-ref) end Local net energy (PE 0) = -3.541635359318E+02 kJ/mol Global net ELEC energy = -3.541635359318E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 2 molecules Final memory usage: 0.001 MB total, 61.315 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-mol.out RESULT 1847.663548071 RESULT 1883.912182952 RESULT 2732.623683321 RESULT 3123.035854133 RESULT -36.24863488074 RESULT -390.4121708125 RESULT -354.1635359318 Testing computed result 1.847663548071E+03 against expected result 1.847664E+03 *** PASSED *** Testing computed result 1.883912182952E+03 against expected result 1.883912E+03 *** PASSED *** Testing computed result 2.732623683321E+03 against expected result 2.732624E+03 *** PASSED *** Testing computed result 3.123035854133E+03 against expected result 3.123036E+03 *** PASSED *** Testing computed result -3.624863488074E+01 against expected result -3.624863E+01 *** PASSED *** Testing computed result -3.904121708125E+02 against expected result -3.904121E+02 *** PASSED *** Testing computed result -3.541635359318E+02 against expected result -3.541635E+02 *** PASSED *** Elapsed time: 0.644317 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol.in BINARY: /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/bin/apbs INPUT: apbs-smol.in asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 3.0 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2020 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2020, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Jul 17 2024 at 00:00:00 Parsing input file apbs-smol.in... rank 0 size 1... Parsed input file. Got paths for 2 molecules Reading PQR-format atom data from methanol.pqr. asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. 3 atoms Centered at (3.086e-01, 0.000e+00, -2.417e-01) Net charge 5.55e-17 e Reading PQR-format atom data from methoxide.pqr. 2 atoms Centered at (0.000e+00, 0.000e+00, -1.279e-01) Net charge -1.00e+00 e Preparing to run 4 PBE calculations. ---------------------------------------- CALCULATION #1 (methanol-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.246 MB total, 61.246 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 16.000 x 16.000 x 16.000 Grid center: (0.309, 0.000, -0.242) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.847860440020E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #2 (methanol-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.246 MB total, 61.315 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 16.000 x 16.000 x 16.000 Grid center: (0.309, 0.000, -0.242) Multigrid levels: 5 Molecule ID: 1 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 1.885436377745E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #3 (methoxide-solv): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.243 MB total, 61.315 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 16.000 x 16.000 x 16.000 Grid center: (0.000, 0.000, -0.128) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 78.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 2.734040568569E+03 kJ/mol Calculating forces... ---------------------------------------- CALCULATION #4 (methoxide-ref): MULTIGRID Setting up problem... Vpbe_ctor: Using max ion radius (2 A) for exclusion function Debye length: 0 A Current memory usage: 61.243 MB total, 61.315 MB high water Using linear spline charge discretization. Grid dimensions: 65 x 65 x 65 Grid spacings: 0.250 x 0.250 x 0.250 Grid lengths: 16.000 x 16.000 x 16.000 Grid center: (0.000, 0.000, -0.128) Multigrid levels: 5 Molecule ID: 2 Linearized traditional PBE Multiple Debye-Huckel sphere boundary conditions 2 ion species (0.000 M ionic strength): 2.000 A-radius, 1.000 e-charge, 0.000 M concentration 2.000 A-radius, -1.000 e-charge, 0.000 M concentration Solute dielectric: 2.000 Solvent dielectric: 1.000 Using "molecular" surface definition;harmonic average smoothing Solvent probe radius: 0.000 A Temperature: 300.000 K Electrostatic energies will be calculated Total electrostatic energy = 3.125279428954E+03 kJ/mol Calculating forces... ---------------------------------------- PRINT STATEMENTS print energy 1 (methanol-solv) - 2 (methanol-ref) end Local net energy (PE 0) = -3.757593772493E+01 kJ/mol Global net ELEC energy = -3.757593772493E+01 kJ/mol print energy 3 (methoxide-solv) - 4 (methoxide-ref) end Local net energy (PE 0) = -3.912388603848E+02 kJ/mol Global net ELEC energy = -3.912388603848E+02 kJ/mol print energy 3 (methoxide-solv) - 4 (methoxide-ref) - 1 (methanol-solv) + 2 (methanol-ref) end Local net energy (PE 0) = -3.536629226599E+02 kJ/mol Global net ELEC energy = -3.536629226599E+02 kJ/mol ---------------------------------------- CLEANING UP AND SHUTTING DOWN... Destroying force arrays. No energy arrays to destroy. Destroying multigrid structures. Destroying 2 molecules Final memory usage: 0.001 MB total, 61.315 MB high water Thanks for using APBS! Checking for intermidiate energies in input file apbs-smol.out RESULT 1847.86044002 RESULT 1885.436377745 RESULT 2734.040568569 RESULT 3125.279428954 RESULT -37.57593772493 RESULT -391.2388603848 RESULT -353.6629226599 Testing computed result 1.847860440020E+03 against expected result 1.847860E+03 *** PASSED *** Testing computed result 1.885436377745E+03 against expected result 1.885436E+03 *** PASSED *** Testing computed result 2.734040568569E+03 against expected result 2.734041E+03 *** PASSED *** Testing computed result 3.125279428954E+03 against expected result 3.125279E+03 *** PASSED *** Testing computed result -3.757593772493E+01 against expected result -3.757594E+01 *** PASSED *** Testing computed result -3.912388603848E+02 against expected result -3.912388E+02 *** PASSED *** Testing computed result -3.536629226599E+02 against expected result -3.536629E+02 *** PASSED *** Elapsed time: 0.623831 seconds -------------------------------------------------------------------------------- Total elapsed time: 1.268148 seconds Test results have been logged -------------------------------------------------------------------------------- + RPM_EC=0 ++ jobs -p + exit 0 Processing files: apbs-3.0.0-25.fc41.i686 Provides: apbs = 3.0.0-25.fc41 apbs(x86-32) = 3.0.0-25.fc41 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libapbs.so.1 libc.so.6 libc.so.6(GLIBC_2.0) libc.so.6(GLIBC_2.1) libc.so.6(GLIBC_2.1.3) libc.so.6(GLIBC_2.3.4) libc.so.6(GLIBC_2.34) libc.so.6(GLIBC_2.4) libc.so.6(GLIBC_ABI_DT_RELR) libm.so.6 libmaloc.so.1 rtld(GNU_HASH) Processing files: apbs-tools-3.0.0-25.fc41.i686 warning: absolute symlink: /usr/bin/apbs-psize.py -> /usr/lib/python3.13/site-packages/apbs/psize.py Provides: apbs-tools = 3.0.0-25.fc41 apbs-tools(x86-32) = 3.0.0-25.fc41 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libapbs.so.1 libc.so.6 libc.so.6(GLIBC_2.0) libc.so.6(GLIBC_2.1) libc.so.6(GLIBC_2.1.3) libc.so.6(GLIBC_2.3.4) libc.so.6(GLIBC_2.34) libc.so.6(GLIBC_2.4) libc.so.6(GLIBC_2.7) libc.so.6(GLIBC_ABI_DT_RELR) libm.so.6 libm.so.6(GLIBC_2.0) libm.so.6(GLIBC_2.29) libmaloc.so.1 rtld(GNU_HASH) Processing files: apbs-libs-3.0.0-25.fc41.i686 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.xksIVk + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + cd apbs-3.0.0 + DOCDIR=/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/doc/apbs-libs + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/doc/apbs-libs + cp -pr /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/README.md /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/doc/apbs-libs + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.YHa0K4 + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + cd apbs-3.0.0 + LICENSEDIR=/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-libs + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-libs + cp -pr /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/LICENSE.md /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-libs + cp -pr /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/COPYING /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-libs + cp -pr /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/iapbs-COPYING /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-libs + cp -pr /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/contrib/iapbs/iapbs-LGPLv2 /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-libs + RPM_EC=0 ++ jobs -p + exit 0 Provides: apbs-libs = 3.0.0-25.fc41 apbs-libs(x86-32) = 3.0.0-25.fc41 libapbs.so.1 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libc.so.6 libc.so.6(GLIBC_2.0) libc.so.6(GLIBC_2.1) libc.so.6(GLIBC_2.1.3) libc.so.6(GLIBC_2.3.4) libc.so.6(GLIBC_2.4) libc.so.6(GLIBC_2.7) libc.so.6(GLIBC_ABI_DT_RELR) libgcc_s.so.1 libgcc_s.so.1(GCC_3.3.1) libgomp.so.1 libgomp.so.1(GOMP_4.0) libgomp.so.1(OMP_1.0) libm.so.6 libm.so.6(GLIBC_2.0) libm.so.6(GLIBC_2.1) libm.so.6(GLIBC_2.29) rtld(GNU_HASH) Processing files: apbs-devel-3.0.0-25.fc41.i686 Provides: apbs-devel = 3.0.0-25.fc41 apbs-devel(x86-32) = 3.0.0-25.fc41 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libapbs.so.1 Processing files: apbs-doc-3.0.0-25.fc41.noarch Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.VUzCQC + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + cd apbs-3.0.0 + DOCDIR=/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/doc/apbs-doc + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/doc/apbs-doc + cp -pr /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/build/doc /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/doc/apbs-doc + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.zVezma + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + cd apbs-3.0.0 + LICENSEDIR=/builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-doc + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-doc + cp -pr /builddir/build/BUILD/apbs-3.0.0-build/apbs-3.0.0/LICENSE.md /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT/usr/share/licenses/apbs-doc + RPM_EC=0 ++ jobs -p + exit 0 Provides: apbs-doc = 3.0.0-25.fc41 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: python3-apbs-3.0.0-25.fc41.i686 Provides: python-apbs = 3.0.0-25.fc41 python3-apbs = 3.0.0-25.fc41 python3-apbs(x86-32) = 3.0.0-25.fc41 python3.13-apbs = 3.0.0-25.fc41 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/python3 libc.so.6 libc.so.6(GLIBC_2.0) libc.so.6(GLIBC_2.1) libc.so.6(GLIBC_2.1.3) libc.so.6(GLIBC_2.3.4) libc.so.6(GLIBC_2.4) libc.so.6(GLIBC_2.7) libc.so.6(GLIBC_ABI_DT_RELR) libgcc_s.so.1 libgcc_s.so.1(GCC_3.3.1) libgomp.so.1 libgomp.so.1(GOMP_4.0) libgomp.so.1(OMP_1.0) libm.so.6 libm.so.6(GLIBC_2.0) libm.so.6(GLIBC_2.1) libm.so.6(GLIBC_2.29) libmaloc.so.1 libpython3.13.so.1.0 python(abi) = 3.13 rtld(GNU_HASH) Obsoletes: apbs-libs < 0:3.0.0-11 python-apbs < 3.0.0-25.fc41 Processing files: apbs-debugsource-3.0.0-25.fc41.i686 Provides: apbs-debugsource = 3.0.0-25.fc41 apbs-debugsource(x86-32) = 3.0.0-25.fc41 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: apbs-debuginfo-3.0.0-25.fc41.i686 Provides: apbs-debuginfo = 3.0.0-25.fc41 apbs-debuginfo(x86-32) = 3.0.0-25.fc41 debuginfo(build-id) = b1b1a7fc8b86a2bad005b26a9b896cd2d301600c Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: apbs-debugsource(x86-32) = 3.0.0-25.fc41 Processing files: apbs-tools-debuginfo-3.0.0-25.fc41.i686 Provides: apbs-tools-debuginfo = 3.0.0-25.fc41 apbs-tools-debuginfo(x86-32) = 3.0.0-25.fc41 debuginfo(build-id) = 06d69696a1ca52c6b51ae7d07a7e43147f0c40c3 debuginfo(build-id) = 079091537f59ff68e2b48c394c40b2d58fb3637b debuginfo(build-id) = 1d34afd02b5c7e3525e81c706d24060643095a25 debuginfo(build-id) = 1d5a0d10e8abe69f8f8976f6c22c2529c98b3f75 debuginfo(build-id) = 249601e7b85896efafb356c5f304998b177a0273 debuginfo(build-id) = 34a27a95d267484737015734de348c111d1a2714 debuginfo(build-id) = 3ac8f92f56e5c0b400f77cad57024ff3055188c7 debuginfo(build-id) = 4d157316201edcc1ba898711548c7a2724c69162 debuginfo(build-id) = 51971d5d10e9024c46334dc25b7b02a4e6f78475 debuginfo(build-id) = 6436aef3967ef735ad6f4901e395d60009e2e919 debuginfo(build-id) = 6cd5e02981ad65be41815b447aac2590f2ef3853 debuginfo(build-id) = 75e42522d92c1685bc95e4adc28a54a58806a9ab debuginfo(build-id) = 840bf5685ab52cf6d51ef3b9b2768150d17dd108 debuginfo(build-id) = 8cadad505d229bf19448c9e5affe56157e4eb169 debuginfo(build-id) = b7bd3f409627f5f5e7106c9cfd5ba5715ac201fa debuginfo(build-id) = bbad95379b29be1187a7c392788e0a05f986b863 debuginfo(build-id) = f1efff24ef0235654e68f86e3e4517cdca57ab34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: apbs-debugsource(x86-32) = 3.0.0-25.fc41 Processing files: apbs-libs-debuginfo-3.0.0-25.fc41.i686 Provides: apbs-libs-debuginfo = 3.0.0-25.fc41 apbs-libs-debuginfo(x86-32) = 3.0.0-25.fc41 debuginfo(build-id) = ae96a2f91f8166789322d0c2da40b7a3b1aec615 libapbs.so.1-3.0.0-25.fc41.i386.debug Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: apbs-debugsource(x86-32) = 3.0.0-25.fc41 Processing files: python3-apbs-debuginfo-3.0.0-25.fc41.i686 Provides: debuginfo(build-id) = 555ecc6eb584626aa69c208c391742d31aa3b171 python-apbs-debuginfo = 3.0.0-25.fc41 python3-apbs-debuginfo = 3.0.0-25.fc41 python3-apbs-debuginfo(x86-32) = 3.0.0-25.fc41 python3.13-apbs-debuginfo = 3.0.0-25.fc41 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: apbs-debugsource(x86-32) = 3.0.0-25.fc41 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/apbs-3.0.0-build/BUILDROOT Wrote: /builddir/build/RPMS/apbs-debugsource-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/python3-apbs-debuginfo-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/apbs-libs-debuginfo-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/python3-apbs-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/apbs-libs-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/apbs-devel-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/apbs-tools-debuginfo-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/apbs-tools-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/apbs-debuginfo-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/apbs-3.0.0-25.fc41.i686.rpm Wrote: /builddir/build/RPMS/apbs-doc-3.0.0-25.fc41.noarch.rpm Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.Nzlz9C + umask 022 + cd /builddir/build/BUILD/apbs-3.0.0-build + test -d /builddir/build/BUILD/apbs-3.0.0-build + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/apbs-3.0.0-build + rm -rf /builddir/build/BUILD/apbs-3.0.0-build + RPM_EC=0 ++ jobs -p + exit 0 RPM build warnings: absolute symlink: /usr/bin/apbs-psize.py -> /usr/lib/python3.13/site-packages/apbs/psize.py Finish: rpmbuild apbs-3.0.0-25.fc41.src.rpm Finish: build phase for apbs-3.0.0-25.fc41.src.rpm INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-41-i686-1729091030.758461/root/var/log/dnf5.log INFO: Done(/var/lib/copr-rpmbuild/results/apbs-3.0.0-25.fc41.src.rpm) Config(child) 29 minutes 48 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running RPMResults tool Package info: { "packages": [ { "name": "python3-apbs", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs-libs", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs-doc", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "noarch" }, { "name": "python3-apbs-debuginfo", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs-libs-debuginfo", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs-devel", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs-debuginfo", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs-debugsource", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs-tools-debuginfo", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" }, { "name": "apbs", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "src" }, { "name": "apbs-tools", "epoch": null, "version": "3.0.0", "release": "25.fc41", "arch": "i686" } ] } RPMResults finished