Warning: Permanently added '172.25.85.59' (ECDSA) to the list of known hosts.
Cloning into 'mmseq'...
Note: checking out '00910c1e236fe3431ffc7d7f55f4500aabb53f71'.

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 performing another checkout.

If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -b with the checkout command again. Example:

  git checkout -b <new-branch-name>

HEAD is now at 00910c1... import_srpm
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 11.2M  100 11.2M    0     0  51.1M      0 --:--:-- --:--:-- --:--:-- 51.3M
1.0.8a.zip: OK
WARNING: Could not find required logging config file: /var/lib/copr-rpmbuild/results/configs/logging.ini. Using default...
INFO: mock.py version 1.4.2 starting (python version = 3.6.1)...
Start: init plugins
INFO: tmpfs initialized
INFO: selinux disabled
INFO: compress_logs: initialized
Finish: init plugins
Start: run
INFO: Start(mmseq.spec)  Config(579095-fedora-rawhide-i386)
Start: clean chroot
Finish: clean chroot
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/579095-fedora-rawhide-i386/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled HW Info plugin
Mock Version: 1.4.2
INFO: Mock Version: 1.4.2
Start: dnf install
"Copr repository"     0% [                    ] ---  B/s |   0  B     --:-- ETA
"Copr repository"                               580 kB/s |  44 kB     00:00    
fedora                0% [                    ] ---  B/s |   0  B     --:-- ETA
fedora               19% [===-                ]  32 MB/s |  10 MB     00:01 ETA
fedora               43% [========-           ]  33 MB/s |  22 MB     00:00 ETA
fedora               58% [===========-        ]  32 MB/s |  30 MB     00:00 ETA
fedora               67% [=============       ]  31 MB/s |  34 MB     00:00 ETA
fedora               79% [===============-    ]  31 MB/s |  40 MB     00:00 ETA
fedora               92% [==================  ]  30 MB/s |  47 MB     00:00 ETA
fedora                                           24 MB/s |  50 MB     00:02    
Last metadata expiration check: 0:00:00 ago on Thu 13 Jul 2017 09:11:27 PM UTC.
Dependencies resolved.
================================================================================
 Group                          Packages                                       
================================================================================
Marking packages as installed by the group:
 @Buildsystem building group    diffutils          gzip            info        
                                util-linux         coreutils       gawk        
                                rpm-build          cpio            make        
                                redhat-rpm-config  bzip2           which       
                                xz                 gcc-c++         grep        
                                unzip              tar             shadow-utils
                                findutils          fedora-release  gcc         
                                patch              sed             bash        
================================================================================
 Package                      Arch    Version                     Repository
                                                                           Size
================================================================================
Installing dependencies:
 audit-libs                   i686    2.7.7-1.fc27                fedora  110 k
 basesystem                   noarch  11-3.fc26                   fedora  8.8 k
 bash                         i686    4.4.12-6.fc27               fedora  1.6 M
 binutils                     i686    2.28-9.fc27                 fedora  5.9 M
 bzip2                        i686    1.0.6-22.fc26               fedora   57 k
 bzip2-libs                   i686    1.0.6-22.fc26               fedora   44 k
 ca-certificates              noarch  2017.2.14-2.fc27            fedora  478 k
 chkconfig                    i686    1.10-1.fc27                 fedora  186 k
 coreutils                    i686    8.27-10.fc27                fedora  1.2 M
 coreutils-common             i686    8.27-10.fc27                fedora  1.9 M
 cpio                         i686    2.12-4.fc26                 fedora  267 k
 cpp                          i686    7.1.1-5.fc27                fedora  9.1 M
 cracklib                     i686    2.9.6-5.fc26                fedora   85 k
 crypto-policies              noarch  20170606-1.git7c32281.fc27  fedora   35 k
 curl                         i686    7.54.1-2.fc27               fedora  308 k
 cyrus-sasl-lib               i686    2.1.26-32.fc27              fedora  166 k
 diffutils                    i686    3.6-1.fc27                  fedora  361 k
 dwz                          i686    0.12-3.fc26                 fedora  109 k
 elfutils                     i686    0.169-3.fc27                fedora  319 k
 elfutils-default-yama-scope  noarch  0.169-3.fc27                fedora   38 k
 elfutils-libelf              i686    0.169-3.fc27                fedora  209 k
 elfutils-libs                i686    0.169-3.fc27                fedora  312 k
 expat                        i686    2.2.1-2.fc27                fedora   93 k
 fedora-release               noarch  27-0.2                      fedora   25 k
 fedora-repos                 noarch  27-0.2                      fedora   92 k
 fedora-repos-rawhide         noarch  27-0.2                      fedora  7.4 k
 fedora-rpm-macros            noarch  26-2.fc26                   fedora  6.5 k
 file                         i686    5.31-1.fc27                 fedora   70 k
 file-libs                    i686    5.31-1.fc27                 fedora  513 k
 filesystem                   i686    3.3-1.fc27                  fedora  1.1 M
 findutils                    i686    1:4.6.0-12.fc27             fedora  529 k
 fpc-srpm-macros              noarch  1.1-2.fc26                  fedora  7.0 k
 gawk                         i686    4.1.4-3.fc26                fedora  1.1 M
 gc                           i686    7.6.0-4.fc27                fedora  112 k
 gcc                          i686    7.1.1-5.fc27                fedora   20 M
 gcc-c++                      i686    7.1.1-5.fc27                fedora   11 M
 gdb-headless                 i686    8.0-17.fc27                 fedora  3.5 M
 gdbm                         i686    1.13-1.fc27                 fedora  159 k
 ghc-srpm-macros              noarch  1.4.2-5.fc26                fedora  7.7 k
 glib2                        i686    2.53.3-1.fc27               fedora  2.5 M
 glibc                        i686    2.25.90-22.fc27             fedora  4.7 M
 glibc-all-langpacks          i686    2.25.90-22.fc27             fedora  7.0 M
 glibc-common                 i686    2.25.90-22.fc27             fedora  862 k
 glibc-devel                  i686    2.25.90-22.fc27             fedora  1.0 M
 glibc-headers                i686    2.25.90-22.fc27             fedora  518 k
 gmp                          i686    1:6.1.2-4.fc27              fedora  276 k
 gnat-srpm-macros             noarch  4-2.fc26                    fedora  8.1 k
 gnupg2                       i686    2.1.21-2.fc27               fedora  2.3 M
 gnutls                       i686    3.5.14-1.fc27               fedora  758 k
 go-srpm-macros               noarch  2-9.fc27                    fedora  7.9 k
 grep                         i686    3.1-1.fc27                  fedora  276 k
 guile                        i686    5:2.0.14-1.fc26             fedora  3.5 M
 gzip                         i686    1.8-2.fc26                  fedora  159 k
 info                         i686    6.4-2.fc27                  fedora  192 k
 isl                          i686    0.16.1-1.fc26               fedora  890 k
 kernel-headers               i686    4.13.0-0.rc0.git5.1.fc27    fedora  1.2 M
 keyutils-libs                i686    1.5.10-1.fc27               fedora   31 k
 krb5-libs                    i686    1.15.1-14.fc27              fedora  791 k
 libacl                       i686    2.2.52-15.fc27              fedora   33 k
 libarchive                   i686    3.3.1-1.fc27                fedora  387 k
 libasan                      i686    7.1.1-5.fc27                fedora  388 k
 libassuan                    i686    2.4.3-2.fc26                fedora   77 k
 libatomic                    i686    7.1.1-5.fc27                fedora   33 k
 libatomic_ops                i686    7.4.6-1.fc27                fedora   33 k
 libattr                      i686    2.4.47-18.fc26              fedora   23 k
 libbabeltrace                i686    1.5.2-2.fc27                fedora  205 k
 libblkid                     i686    2.30-1.fc27                 fedora  206 k
 libcap                       i686    2.25-5.fc26                 fedora   53 k
 libcap-ng                    i686    0.7.8-3.fc26                fedora   29 k
 libcilkrts                   i686    7.1.1-5.fc27                fedora   72 k
 libcom_err                   i686    1.43.4-2.fc26               fedora   45 k
 libcrypt-nss                 i686    2.25.90-22.fc27             fedora   58 k
 libcurl                      i686    7.54.1-2.fc27               fedora  287 k
 libdb                        i686    5.3.28-24.fc27              fedora  805 k
 libdb-utils                  i686    5.3.28-24.fc27              fedora  147 k
 libfdisk                     i686    2.30-1.fc27                 fedora  254 k
 libffi                       i686    3.1-12.fc27                 fedora   33 k
 libgcc                       i686    7.1.1-5.fc27                fedora   96 k
 libgcrypt                    i686    1.7.8-1.fc27                fedora  406 k
 libgomp                      i686    7.1.1-5.fc27                fedora  200 k
 libgpg-error                 i686    1.27-1.fc27                 fedora  186 k
 libidn2                      i686    2.0.2-1.fc27                fedora   96 k
 libipt                       i686    1.6.1-2.fc27                fedora   57 k
 libksba                      i686    1.3.5-3.fc26                fedora  137 k
 libmetalink                  i686    0.1.3-2.fc26                fedora   30 k
 libmount                     i686    2.30-1.fc27                 fedora  223 k
 libmpc                       i686    1.0.2-6.fc26                fedora   57 k
 libmpx                       i686    7.1.1-5.fc27                fedora   39 k
 libnghttp2                   i686    1.24.0-1.fc27               fedora   76 k
 libpkgconf                   i686    1.3.7-1.fc27                fedora   31 k
 libpsl                       i686    0.17.0-2.fc26               fedora   48 k
 libpwquality                 i686    1.4.0-1.fc27                fedora  100 k
 libselinux                   i686    2.6-6.fc27                  fedora  175 k
 libsemanage                  i686    2.6-4.fc27                  fedora  156 k
 libsepol                     i686    2.6-1.fc26                  fedora  308 k
 libsigsegv                   i686    2.11-1.fc26                 fedora   28 k
 libsmartcols                 i686    2.30-1.fc27                 fedora  163 k
 libssh2                      i686    1.8.0-2.fc26                fedora  100 k
 libstdc++                    i686    7.1.1-5.fc27                fedora  494 k
 libstdc++-devel              i686    7.1.1-5.fc27                fedora  1.9 M
 libtasn1                     i686    4.12-1.fc27                 fedora   76 k
 libtool-ltdl                 i686    2.4.6-18.fc27               fedora   56 k
 libubsan                     i686    7.1.1-5.fc27                fedora  163 k
 libunistring                 i686    0.9.7-1.fc26                fedora  416 k
 libusbx                      i686    1.0.21-2.fc26               fedora   68 k
 libutempter                  i686    1.1.6-9.fc26                fedora   29 k
 libuuid                      i686    2.30-1.fc27                 fedora   82 k
 libverto                     i686    0.2.6-7.fc26                fedora   21 k
 libxml2                      i686    2.9.4-2.fc26                fedora  714 k
 lua-libs                     i686    5.3.4-3.fc27                fedora  126 k
 lz4-libs                     i686    1.7.5-4.fc27                fedora   50 k
 make                         i686    1:4.2.1-2.fc26              fedora  497 k
 mpfr                         i686    3.1.5-3.fc27                fedora  221 k
 ncurses                      i686    6.0-10.20170520.fc27        fedora  366 k
 ncurses-base                 noarch  6.0-10.20170520.fc27        fedora   77 k
 ncurses-libs                 i686    6.0-10.20170520.fc27        fedora  328 k
 nettle                       i686    3.3-2.fc26                  fedora  328 k
 npth                         i686    1.5-1.fc27                  fedora   24 k
 nspr                         i686    4.15.0-1.fc27               fedora  144 k
 nss                          i686    3.31.0-2.fc27               fedora  899 k
 nss-pem                      i686    1.0.3-3.fc27                fedora   79 k
 nss-softokn                  i686    3.31.0-2.fc27               fedora  413 k
 nss-softokn-freebl           i686    3.31.0-2.fc27               fedora  220 k
 nss-sysinit                  i686    3.31.0-2.fc27               fedora   61 k
 nss-util                     i686    3.31.0-2.fc27               fedora   89 k
 ocaml-srpm-macros            noarch  4-2.fc26                    fedora  7.5 k
 openblas-srpm-macros         noarch  2-1.fc27                    fedora  6.5 k
 openldap                     i686    2.4.45-1.fc27               fedora  365 k
 openssl-libs                 i686    1:1.1.0f-5.fc27             fedora  1.2 M
 p11-kit                      i686    0.23.7-1.fc27               fedora  255 k
 p11-kit-trust                i686    0.23.7-1.fc27               fedora  130 k
 pam                          i686    1.3.0-3.fc27                fedora  757 k
 patch                        i686    2.7.5-4.fc26                fedora  133 k
 pcre                         i686    8.41-1.fc27                 fedora  204 k
 perl-srpm-macros             noarch  1-23.fc27                   fedora  9.2 k
 pkgconf                      i686    1.3.7-1.fc27                fedora   30 k
 pkgconf-m4                   noarch  1.3.7-1.fc27                fedora   13 k
 pkgconf-pkg-config           i686    1.3.7-1.fc27                fedora   12 k
 popt                         i686    1.16-8.fc26                 fedora   60 k
 publicsuffix-list-dafsa      noarch  20170424-1.fc27             fedora   44 k
 python-srpm-macros           noarch  3-20.fc27                   fedora  9.2 k
 qt5-srpm-macros              noarch  5.9.0-2.fc27                fedora  8.3 k
 readline                     i686    7.0-5.fc26                  fedora  215 k
 redhat-rpm-config            noarch  64-1.fc27                   fedora   61 k
 rpm                          i686    4.13.0.1-31.fc27            fedora  524 k
 rpm-build                    i686    4.13.0.1-31.fc27            fedora  155 k
 rpm-build-libs               i686    4.13.0.1-31.fc27            fedora  133 k
 rpm-libs                     i686    4.13.0.1-31.fc27            fedora  325 k
 rpm-plugin-selinux           i686    4.13.0.1-31.fc27            fedora   61 k
 sed                          i686    4.4-1.fc26                  fedora  289 k
 setup                        noarch  2.10.5-2.fc26               fedora  174 k
 shadow-utils                 i686    2:4.3.1-3.fc26              fedora  1.2 M
 sqlite-libs                  i686    3.19.3-1.fc27               fedora  493 k
 system-python-libs           i686    3.6.1-10.fc27               fedora  6.3 M
 systemd-libs                 i686    233-6.fc27                  fedora  492 k
 tar                          i686    2:1.29-4.fc26               fedora  830 k
 tzdata                       noarch  2017b-1.fc27                fedora  420 k
 unzip                        i686    6.0-33.fc26                 fedora  182 k
 ustr                         i686    1.0.4-22.fc26               fedora   98 k
 util-linux                   i686    2.30-1.fc27                 fedora  2.5 M
 which                        i686    2.21-2.fc26                 fedora   46 k
 xz                           i686    5.2.3-2.fc26                fedora  152 k
 xz-libs                      i686    5.2.3-2.fc26                fedora   98 k
 zip                          i686    3.0-18.fc26                 fedora  269 k
 zlib                         i686    1.2.11-2.fc26               fedora  101 k

Transaction Summary
================================================================================
Install  165 Packages

Total download size: 119 M
Installed size: 452 M
Downloading Packages:
(1/165): gcc-c++-7.1  0% [                    ] ---  B/s |   0  B     --:-- ETA
(1/165): diffutils-3.6-1.fc27.i686.rpm          1.3 MB/s | 361 kB     00:00    
(2-3/165): gcc-c++-7  4% [-                   ]  22 MB/s | 5.8 MB     00:05 ETA
(2/165): shadow-utils-4.3.1-3.fc26.i686.rpm     3.2 MB/s | 1.2 MB     00:00    
(3-4/165): gcc-c++-7  8% [=-                  ]  22 MB/s | 9.8 MB     00:04 ETA
(3/165): gcc-c++-7.1.1-5.fc27.i686.rpm           24 MB/s |  11 MB     00:00    
(4-5/165): util-linu 10% [==                  ]  22 MB/s |  12 MB     00:04 ETA
(4/165): fedora-release-27-0.2.noarch.rpm       1.9 MB/s |  25 kB     00:00    
(5-6/165): util-linu 10% [==                  ]  22 MB/s |  13 MB     00:04 ETA
(5/165): make-4.2.1-2.fc26.i686.rpm             5.0 MB/s | 497 kB     00:00    
(6-7/165): util-linu 11% [==                  ]  22 MB/s |  13 MB     00:04 ETA
(6/165): util-linux-2.30-1.fc27.i686.rpm        8.0 MB/s | 2.5 MB     00:00    
(7-8/165): rpm-build 12% [==-                 ]  22 MB/s |  15 MB     00:04 ETA
(7/165): rpm-build-4.13.0.1-31.fc27.i686.rpm    1.1 MB/s | 155 kB     00:00    
(8-9/165): which-2.2 13% [==-                 ]  22 MB/s |  16 MB     00:04 ETA
(8/165): sed-4.4-1.fc26.i686.rpm                1.7 MB/s | 289 kB     00:00    
(9-10/165): patch-2. 13% [==-                 ]  22 MB/s |  16 MB     00:04 ETA
(9/165): which-2.21-2.fc26.i686.rpm             757 kB/s |  46 kB     00:00    
(10-11/165): info-6. 13% [==-                 ]  22 MB/s |  16 MB     00:04 ETA
(10/165): patch-2.7.5-4.fc26.i686.rpm           3.7 MB/s | 133 kB     00:00    
(11-12/165): gcc-7.1 13% [==-                 ]  22 MB/s |  16 MB     00:04 ETA
(11/165): info-6.4-2.fc27.i686.rpm              1.7 MB/s | 192 kB     00:00    
(12-13/165): unzip-6 17% [===                 ]  23 MB/s |  21 MB     00:04 ETA
(12/165): unzip-6.0-33.fc26.i686.rpm            1.0 MB/s | 182 kB     00:00    
(13-14/165): xz-5.2. 20% [====                ]  23 MB/s |  25 MB     00:04 ETA
(13/165): gcc-7.1.1-5.fc27.i686.rpm              40 MB/s |  20 MB     00:00    
(14-15/165): gawk-4. 30% [======              ]  24 MB/s |  36 MB     00:03 ETA
(14/165): xz-5.2.3-2.fc26.i686.rpm              391 kB/s | 152 kB     00:00    
(15-16/165): gzip-1. 30% [======              ]  24 MB/s |  37 MB     00:03 ETA
(15/165): gzip-1.8-2.fc26.i686.rpm               10 MB/s | 159 kB     00:00    
(16-17/165): bash-4. 31% [======              ]  24 MB/s |  37 MB     00:03 ETA
(16/165): gawk-4.1.4-3.fc26.i686.rpm            3.2 MB/s | 1.1 MB     00:00    
(17-18/165): redhat- 31% [======              ]  24 MB/s |  37 MB     00:03 ETA
(17/165): bash-4.4.12-6.fc27.i686.rpm           7.8 MB/s | 1.6 MB     00:00    
(18-19/165): finduti 32% [======-             ]  24 MB/s |  39 MB     00:03 ETA
(18/165): redhat-rpm-config-64-1.fc27.noarch.rp 318 kB/s |  61 kB     00:00    
(19-20/165): grep-3. 32% [======-             ]  24 MB/s |  39 MB     00:03 ETA
(19/165): findutils-4.6.0-12.fc27.i686.rpm      2.1 MB/s | 529 kB     00:00    
(20-21/165): tar-1.2 33% [======-             ]  23 MB/s |  39 MB     00:03 ETA
(20/165): grep-3.1-1.fc27.i686.rpm              3.9 MB/s | 276 kB     00:00    
(21-22/165): cpio-2. 33% [======-             ]  23 MB/s |  40 MB     00:03 ETA
(21/165): tar-1.29-4.fc26.i686.rpm              7.2 MB/s | 830 kB     00:00    
(22-23/165): coreuti 34% [======-             ]  23 MB/s |  41 MB     00:03 ETA
(22/165): cpio-2.12-4.fc26.i686.rpm             3.1 MB/s | 267 kB     00:00    
(23-24/165): bzip2-1 35% [=======             ]  23 MB/s |  42 MB     00:03 ETA
(23/165): coreutils-8.27-10.fc27.i686.rpm       8.8 MB/s | 1.2 MB     00:00    
(24-25/165): glibc-2 35% [=======             ]  23 MB/s |  42 MB     00:03 ETA
(24/165): bzip2-1.0.6-22.fc26.i686.rpm          580 kB/s |  57 kB     00:00    
(25-26/165): gmp-6.1 35% [=======             ]  23 MB/s |  42 MB     00:03 ETA
(25/165): glibc-2.25.90-22.fc27.i686.rpm         18 MB/s | 4.7 MB     00:00    
(26-27/165): gmp-6.1 39% [=======-            ]  23 MB/s |  47 MB     00:03 ETA
(26/165): gmp-6.1.2-4.fc27.i686.rpm             1.3 MB/s | 276 kB     00:00    
(27-28/165): libmpc- 39% [=======-            ]  23 MB/s |  47 MB     00:03 ETA
(27/165): libstdc++-7.1.1-5.fc27.i686.rpm        26 MB/s | 494 kB     00:00    
(28-29/165): libmpc- 39% [=======-            ]  23 MB/s |  48 MB     00:03 ETA
(28/165): libmpc-1.0.2-6.fc26.i686.rpm          248 kB/s |  57 kB     00:00    
(29-30/165): libstdc 39% [=======-            ]  23 MB/s |  48 MB     00:03 ETA
(29/165): mpfr-3.1.5-3.fc27.i686.rpm            7.3 MB/s | 221 kB     00:00    
(30-31/165): libstdc 40% [========            ]  23 MB/s |  48 MB     00:03 ETA
(30/165): zlib-1.2.11-2.fc26.i686.rpm           4.5 MB/s | 101 kB     00:00    
(31-32/165): libstdc 40% [========            ]  23 MB/s |  48 MB     00:03 ETA
(31/165): audit-libs-2.7.7-1.fc27.i686.rpm      4.7 MB/s | 110 kB     00:00    
(32-33/165): libstdc 40% [========            ]  23 MB/s |  48 MB     00:03 ETA
(32/165): libstdc++-devel-7.1.1-5.fc27.i686.rpm 9.9 MB/s | 1.9 MB     00:00    
(33-34/165): libacl- 41% [========            ]  23 MB/s |  50 MB     00:03 ETA
(33/165): libacl-2.2.52-15.fc27.i686.rpm        210 kB/s |  33 kB     00:00    
(34-35/165): libattr 41% [========            ]  23 MB/s |  50 MB     00:03 ETA
(34/165): libattr-2.4.47-18.fc26.i686.rpm       158 kB/s |  23 kB     00:00    
(35-36/165): libseli 41% [========            ]  23 MB/s |  50 MB     00:03 ETA
(35/165): libselinux-2.6-6.fc27.i686.rpm        4.8 MB/s | 175 kB     00:00    
(36-37/165): libsema 42% [========            ]  23 MB/s |  50 MB     00:03 ETA
(36/165): libsemanage-2.6-4.fc27.i686.rpm       3.7 MB/s | 156 kB     00:00    
(37-38/165): setup-2 42% [========            ]  23 MB/s |  50 MB     00:03 ETA
(37/165): setup-2.10.5-2.fc26.noarch.rpm        3.3 MB/s | 174 kB     00:00    
(38-39/165): libblki 42% [========            ]  23 MB/s |  50 MB     00:03 ETA
(38/165): libcap-ng-0.7.8-3.fc26.i686.rpm       1.8 MB/s |  29 kB     00:00    
(39-40/165): libblki 42% [========            ]  23 MB/s |  51 MB     00:03 ETA
(39/165): libblkid-2.30-1.fc27.i686.rpm         3.6 MB/s | 206 kB     00:00    
(40-41/165): libfdis 42% [========-           ]  23 MB/s |  51 MB     00:03 ETA
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(60-61/165): lua-lib 57% [===========         ]  23 MB/s |  68 MB     00:02 ETA
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(61-62/165): openssl 57% [===========-        ]  23 MB/s |  69 MB     00:02 ETA
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(62-63/165): pkgconf 57% [===========-        ]  23 MB/s |  69 MB     00:02 ETA
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(64-65/165): rpm-4.1 58% [===========-        ]  23 MB/s |  70 MB     00:02 ETA
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(65-66/165): rpm-bui 58% [===========-        ]  23 MB/s |  70 MB     00:02 ETA
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(66-67/165): rpm-lib 58% [===========-        ]  23 MB/s |  70 MB     00:02 ETA
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(67-68/165): xz-libs 59% [===========-        ]  23 MB/s |  71 MB     00:02 ETA
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(68-69/165): cpp-7.1 59% [===========-        ]  23 MB/s |  71 MB     00:02 ETA
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(69-70/165): glibc-d 62% [============        ]  23 MB/s |  74 MB     00:01 ETA
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(75-76/165): libgomp 69% [=============-      ]  24 MB/s |  82 MB     00:01 ETA
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(78-79/165): filesys 69% [=============-      ]  24 MB/s |  83 MB     00:01 ETA
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(83-84/165): fpc-srp 70% [==============      ]  24 MB/s |  84 MB     00:01 ETA
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(93-94/165): pcre-8. 70% [==============      ]  23 MB/s |  84 MB     00:01 ETA
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(96-97/165): basesys 71% [==============      ]  23 MB/s |  85 MB     00:01 ETA
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(105/165): lz4-libs-1.7.5-4.fc27.i686.rpm       1.8 MB/s |  50 kB     00:00    
(106-107/165): libgp 74% [==============-     ]  23 MB/s |  89 MB     00:01 ETA
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(107-108/165): libat 74% [==============-     ]  23 MB/s |  89 MB     00:01 ETA
(107/165): libatomic_ops-7.4.6-1.fc27.i686.rpm  869 kB/s |  33 kB     00:00    
(108-109/165): libff 74% [==============-     ]  23 MB/s |  89 MB     00:01 ETA
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(109-110/165): libff 75% [===============     ]  23 MB/s |  89 MB     00:01 ETA
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(110-111/165): libun 75% [===============     ]  23 MB/s |  89 MB     00:01 ETA
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(111-112/165): fedor 75% [===============     ]  23 MB/s |  90 MB     00:01 ETA
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(113-114/165): elfut 75% [===============     ]  23 MB/s |  90 MB     00:01 ETA
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(117-118/165): ca-ce 75% [===============     ]  19 MB/s |  90 MB     00:01 ETA
(117/165): system-python-libs-3.6.1-10.fc27.i68  11 MB/s | 6.3 MB     00:00    
(118-119/165): crypt 81% [================    ]  19 MB/s |  97 MB     00:01 ETA
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(119-120/165): pkgco 81% [================    ]  20 MB/s |  97 MB     00:01 ETA
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(120-121/165): pkgco 81% [================    ]  19 MB/s |  97 MB     00:01 ETA
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(121-122/165): libar 81% [================    ]  19 MB/s |  97 MB     00:01 ETA
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(122-123/165): libdb 81% [================    ]  19 MB/s |  97 MB     00:01 ETA
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(123-124/165): gnupg 81% [================    ]  19 MB/s |  98 MB     00:01 ETA
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(124-125/165): rpm-p 82% [================    ]  19 MB/s |  98 MB     00:01 ETA
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(125-126/165): glibc 84% [================-   ]  19 MB/s | 100 MB     00:00 ETA
(125/165): rpm-plugin-selinux-4.13.0.1-31.fc27. 499 kB/s |  61 kB     00:00    
(126-127/165): tzdat 84% [================-   ]  19 MB/s | 100 MB     00:00 ETA
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(127-128/165): glib2 84% [================-   ]  19 MB/s | 101 MB     00:00 ETA
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(128-129/165): gdbm- 85% [=================   ]  20 MB/s | 102 MB     00:00 ETA
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(129-130/165): sqlit 86% [=================   ]  19 MB/s | 103 MB     00:00 ETA
(129/165): gdbm-1.13-1.fc27.i686.rpm            891 kB/s | 159 kB     00:00    
(130-131/165): p11-k 87% [=================   ]  19 MB/s | 104 MB     00:00 ETA
(130/165): sqlite-libs-3.19.3-1.fc27.i686.rpm   2.9 MB/s | 493 kB     00:00    
(131-132/165): p11-k 87% [=================   ]  19 MB/s | 104 MB     00:00 ETA
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(132-133/165): libpk 87% [=================-  ]  19 MB/s | 104 MB     00:00 ETA
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(133-134/165): libxm 87% [=================-  ]  19 MB/s | 104 MB     00:00 ETA
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(134-135/165): gnutl 87% [=================-  ]  19 MB/s | 105 MB     00:00 ETA
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(135-136/165): libas 88% [=================-  ]  19 MB/s | 105 MB     00:00 ETA
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(136-137/165): libks 88% [=================-  ]  19 MB/s | 105 MB     00:00 ETA
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(137-138/165): libus 89% [=================-  ]  19 MB/s | 106 MB     00:00 ETA
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(138-139/165): npth- 89% [=================-  ]  19 MB/s | 106 MB     00:00 ETA
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(139-140/165): openl 89% [=================-  ]  19 MB/s | 106 MB     00:00 ETA
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(140-141/165): kerne 89% [=================-  ]  19 MB/s | 107 MB     00:00 ETA
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(141-142/165): libta 89% [=================-  ]  19 MB/s | 107 MB     00:00 ETA
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(142-143/165): libid 89% [=================-  ]  19 MB/s | 107 MB     00:00 ETA
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(143-144/165): nettl 89% [=================-  ]  19 MB/s | 107 MB     00:00 ETA
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(144-145/165): cyrus 89% [=================-  ]  19 MB/s | 107 MB     00:00 ETA
(144/165): cyrus-sasl-lib-2.1.26-32.fc27.i686.r 3.2 MB/s | 166 kB     00:00    
(145-146/165): nspr- 90% [==================  ]  19 MB/s | 108 MB     00:00 ETA
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(146-147/165): nss-3 91% [==================  ]  19 MB/s | 108 MB     00:00 ETA
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(147-148/165): nss-u 91% [==================  ]  19 MB/s | 109 MB     00:00 ETA
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  Verifying        : gmp-1:6.1.2-4.fc27.i686                             26/165 

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  Verifying        : libstdc++-7.1.1-5.fc27.i686                         28/165 

  Verifying        : libstdc++-devel-7.1.1-5.fc27.i686                   29/165 

  Verifying        : mpfr-3.1.5-3.fc27.i686                              30/165 

  Verifying        : zlib-1.2.11-2.fc26.i686                             31/165 

  Verifying        : audit-libs-2.7.7-1.fc27.i686                        32/165 

  Verifying        : libacl-2.2.52-15.fc27.i686                          33/165 

  Verifying        : libattr-2.4.47-18.fc26.i686                         34/165 

  Verifying        : libselinux-2.6-6.fc27.i686                          35/165 

  Verifying        : libsemanage-2.6-4.fc27.i686                         36/165 

  Verifying        : setup-2.10.5-2.fc26.noarch                          37/165 

  Verifying        : libblkid-2.30-1.fc27.i686                           38/165 

  Verifying        : libcap-ng-0.7.8-3.fc26.i686                         39/165 

  Verifying        : libfdisk-2.30-1.fc27.i686                           40/165 

  Verifying        : libmount-2.30-1.fc27.i686                           41/165 

  Verifying        : libsmartcols-2.30-1.fc27.i686                       42/165 

  Verifying        : libutempter-1.1.6-9.fc26.i686                       43/165 

  Verifying        : libuuid-2.30-1.fc27.i686                            44/165 

  Verifying        : ncurses-libs-6.0-10.20170520.fc27.i686              45/165 

  Verifying        : pam-1.3.0-3.fc27.i686                               46/165 

  Verifying        : systemd-libs-233-6.fc27.i686                        47/165 

  Verifying        : gc-7.6.0-4.fc27.i686                                48/165 

  Verifying        : guile-5:2.0.14-1.fc26.i686                          49/165 

  Verifying        : fedora-repos-27-0.2.noarch                          50/165 

  Verifying        : binutils-2.28-9.fc27.i686                           51/165 

  Verifying        : bzip2-libs-1.0.6-22.fc26.i686                       52/165 

  Verifying        : elfutils-0.169-3.fc27.i686                          53/165 

  Verifying        : elfutils-libelf-0.169-3.fc27.i686                   54/165 

  Verifying        : elfutils-libs-0.169-3.fc27.i686                     55/165 

  Verifying        : file-5.31-1.fc27.i686                               56/165 

  Verifying        : file-libs-5.31-1.fc27.i686                          57/165 

  Verifying        : gdb-headless-8.0-17.fc27.i686                       58/165 

  Verifying        : libcap-2.25-5.fc26.i686                             59/165 

  Verifying        : libdb-5.3.28-24.fc27.i686                           60/165 

  Verifying        : lua-libs-5.3.4-3.fc27.i686                          61/165 

  Verifying        : openssl-libs-1:1.1.0f-5.fc27.i686                   62/165 

  Verifying        : pkgconf-pkg-config-1.3.7-1.fc27.i686                63/165 

  Verifying        : popt-1.16-8.fc26.i686                               64/165 

  Verifying        : rpm-4.13.0.1-31.fc27.i686                           65/165 

  Verifying        : rpm-build-libs-4.13.0.1-31.fc27.i686                66/165 

  Verifying        : rpm-libs-4.13.0.1-31.fc27.i686                      67/165 

  Verifying        : xz-libs-5.2.3-2.fc26.i686                           68/165 

  Verifying        : cpp-7.1.1-5.fc27.i686                               69/165 

  Verifying        : glibc-devel-2.25.90-22.fc27.i686                    70/165 

  Verifying        : isl-0.16.1-1.fc26.i686                              71/165 

  Verifying        : libasan-7.1.1-5.fc27.i686                           72/165 

  Verifying        : libatomic-7.1.1-5.fc27.i686                         73/165 

  Verifying        : libcilkrts-7.1.1-5.fc27.i686                        74/165 

  Verifying        : libgcc-7.1.1-5.fc27.i686                            75/165 

  Verifying        : libgomp-7.1.1-5.fc27.i686                           76/165 

  Verifying        : libmpx-7.1.1-5.fc27.i686                            77/165 

  Verifying        : libubsan-7.1.1-5.fc27.i686                          78/165 

  Verifying        : filesystem-3.3-1.fc27.i686                          79/165 

  Verifying        : libsigsegv-2.11-1.fc26.i686                         80/165 

  Verifying        : readline-7.0-5.fc26.i686                            81/165 

  Verifying        : dwz-0.12-3.fc26.i686                                82/165 

  Verifying        : fedora-rpm-macros-26-2.fc26.noarch                  83/165 

  Verifying        : fpc-srpm-macros-1.1-2.fc26.noarch                   84/165 

  Verifying        : ghc-srpm-macros-1.4.2-5.fc26.noarch                 85/165 

  Verifying        : gnat-srpm-macros-4-2.fc26.noarch                    86/165 

  Verifying        : go-srpm-macros-2-9.fc27.noarch                      87/165 

  Verifying        : ocaml-srpm-macros-4-2.fc26.noarch                   88/165 

  Verifying        : openblas-srpm-macros-2-1.fc27.noarch                89/165 

  Verifying        : perl-srpm-macros-1-23.fc27.noarch                   90/165 

  Verifying        : python-srpm-macros-3-20.fc27.noarch                 91/165 

  Verifying        : qt5-srpm-macros-5.9.0-2.fc27.noarch                 92/165 

  Verifying        : zip-3.0-18.fc26.i686                                93/165 

  Verifying        : pcre-8.41-1.fc27.i686                               94/165 

  Verifying        : coreutils-common-8.27-10.fc27.i686                  95/165 

  Verifying        : ncurses-6.0-10.20170520.fc27.i686                   96/165 

  Verifying        : basesystem-11-3.fc26.noarch                         97/165 

  Verifying        : glibc-common-2.25.90-22.fc27.i686                   98/165 

  Verifying        : libsepol-2.6-1.fc26.i686                            99/165 

  Verifying        : ustr-1.0.4-22.fc26.i686                            100/165 

  Verifying        : ncurses-base-6.0-10.20170520.fc27.noarch           101/165 

  Verifying        : cracklib-2.9.6-5.fc26.i686                         102/165 

  Verifying        : libpwquality-1.4.0-1.fc27.i686                     103/165 

  Verifying        : libgcrypt-1.7.8-1.fc27.i686                        104/165 

  Verifying        : libgpg-error-1.27-1.fc27.i686                      105/165 

  Verifying        : lz4-libs-1.7.5-4.fc27.i686                         106/165 

  Verifying        : libatomic_ops-7.4.6-1.fc27.i686                    107/165 

  Verifying        : libffi-3.1-12.fc27.i686                            108/165 

  Verifying        : libtool-ltdl-2.4.6-18.fc27.i686                    109/165 

  Verifying        : libunistring-0.9.7-1.fc26.i686                     110/165 

  Verifying        : fedora-repos-rawhide-27-0.2.noarch                 111/165 

  Verifying        : chkconfig-1.10-1.fc27.i686                         112/165 

  Verifying        : elfutils-default-yama-scope-0.169-3.fc27.noarch    113/165 

  Verifying        : expat-2.2.1-2.fc27.i686                            114/165 

  Verifying        : libbabeltrace-1.5.2-2.fc27.i686                    115/165 

  Verifying        : libipt-1.6.1-2.fc27.i686                           116/165 

  Verifying        : system-python-libs-3.6.1-10.fc27.i686              117/165 

  Verifying        : ca-certificates-2017.2.14-2.fc27.noarch            118/165 

  Verifying        : crypto-policies-20170606-1.git7c32281.fc27.noarc   119/165 

  Verifying        : pkgconf-1.3.7-1.fc27.i686                          120/165 

  Verifying        : pkgconf-m4-1.3.7-1.fc27.noarch                     121/165 

  Verifying        : libarchive-3.3.1-1.fc27.i686                       122/165 

  Verifying        : libdb-utils-5.3.28-24.fc27.i686                    123/165 

  Verifying        : gnupg2-2.1.21-2.fc27.i686                          124/165 

  Verifying        : rpm-plugin-selinux-4.13.0.1-31.fc27.i686           125/165 

  Verifying        : glibc-headers-2.25.90-22.fc27.i686                 126/165 

  Verifying        : tzdata-2017b-1.fc27.noarch                         127/165 

  Verifying        : glib2-2.53.3-1.fc27.i686                           128/165 

  Verifying        : gdbm-1.13-1.fc27.i686                              129/165 

  Verifying        : sqlite-libs-3.19.3-1.fc27.i686                     130/165 

  Verifying        : p11-kit-0.23.7-1.fc27.i686                         131/165 

  Verifying        : p11-kit-trust-0.23.7-1.fc27.i686                   132/165 

  Verifying        : libpkgconf-1.3.7-1.fc27.i686                       133/165 

  Verifying        : libxml2-2.9.4-2.fc26.i686                          134/165 

  Verifying        : gnutls-3.5.14-1.fc27.i686                          135/165 

  Verifying        : libassuan-2.4.3-2.fc26.i686                        136/165 

  Verifying        : libksba-1.3.5-3.fc26.i686                          137/165 

  Verifying        : libusbx-1.0.21-2.fc26.i686                         138/165 

  Verifying        : npth-1.5-1.fc27.i686                               139/165 

  Verifying        : openldap-2.4.45-1.fc27.i686                        140/165 

  Verifying        : kernel-headers-4.13.0-0.rc0.git5.1.fc27.i686       141/165 

  Verifying        : libtasn1-4.12-1.fc27.i686                          142/165 

  Verifying        : libidn2-2.0.2-1.fc27.i686                          143/165 

  Verifying        : nettle-3.3-2.fc26.i686                             144/165 

  Verifying        : cyrus-sasl-lib-2.1.26-32.fc27.i686                 145/165 

  Verifying        : nspr-4.15.0-1.fc27.i686                            146/165 

  Verifying        : nss-3.31.0-2.fc27.i686                             147/165 

  Verifying        : nss-util-3.31.0-2.fc27.i686                        148/165 

  Verifying        : krb5-libs-1.15.1-14.fc27.i686                      149/165 

  Verifying        : libcom_err-1.43.4-2.fc26.i686                      150/165 

  Verifying        : nss-pem-1.0.3-3.fc27.i686                          151/165 

  Verifying        : nss-softokn-3.31.0-2.fc27.i686                     152/165 

  Verifying        : nss-sysinit-3.31.0-2.fc27.i686                     153/165 

  Verifying        : keyutils-libs-1.5.10-1.fc27.i686                   154/165 

  Verifying        : libverto-0.2.6-7.fc26.i686                         155/165 

  Verifying        : nss-softokn-freebl-3.31.0-2.fc27.i686              156/165 

  Verifying        : libcrypt-nss-2.25.90-22.fc27.i686                  157/165 

  Verifying        : curl-7.54.1-2.fc27.i686                            158/165 

  Verifying        : libmetalink-0.1.3-2.fc26.i686                      159/165 

  Verifying        : glibc-all-langpacks-2.25.90-22.fc27.i686           160/165 

  Verifying        : libcurl-7.54.1-2.fc27.i686                         161/165 

  Verifying        : libnghttp2-1.24.0-1.fc27.i686                      162/165 

  Verifying        : libpsl-0.17.0-2.fc26.i686                          163/165 

  Verifying        : libssh2-1.8.0-2.fc26.i686                          164/165 

  Verifying        : publicsuffix-list-dafsa-20170424-1.fc27.noarch     165/165 

Installed:
  audit-libs.i686 2.7.7-1.fc27                                                  
  basesystem.noarch 11-3.fc26                                                   
  bash.i686 4.4.12-6.fc27                                                       
  binutils.i686 2.28-9.fc27                                                     
  bzip2.i686 1.0.6-22.fc26                                                      
  bzip2-libs.i686 1.0.6-22.fc26                                                 
  ca-certificates.noarch 2017.2.14-2.fc27                                       
  chkconfig.i686 1.10-1.fc27                                                    
  coreutils.i686 8.27-10.fc27                                                   
  coreutils-common.i686 8.27-10.fc27                                            
  cpio.i686 2.12-4.fc26                                                         
  cpp.i686 7.1.1-5.fc27                                                         
  cracklib.i686 2.9.6-5.fc26                                                    
  crypto-policies.noarch 20170606-1.git7c32281.fc27                             
  curl.i686 7.54.1-2.fc27                                                       
  cyrus-sasl-lib.i686 2.1.26-32.fc27                                            
  diffutils.i686 3.6-1.fc27                                                     
  dwz.i686 0.12-3.fc26                                                          
  elfutils.i686 0.169-3.fc27                                                    
  elfutils-default-yama-scope.noarch 0.169-3.fc27                               
  elfutils-libelf.i686 0.169-3.fc27                                             
  elfutils-libs.i686 0.169-3.fc27                                               
  expat.i686 2.2.1-2.fc27                                                       
  fedora-release.noarch 27-0.2                                                  
  fedora-repos.noarch 27-0.2                                                    
  fedora-repos-rawhide.noarch 27-0.2                                            
  fedora-rpm-macros.noarch 26-2.fc26                                            
  file.i686 5.31-1.fc27                                                         
  file-libs.i686 5.31-1.fc27                                                    
  filesystem.i686 3.3-1.fc27                                                    
  findutils.i686 1:4.6.0-12.fc27                                                
  fpc-srpm-macros.noarch 1.1-2.fc26                                             
  gawk.i686 4.1.4-3.fc26                                                        
  gc.i686 7.6.0-4.fc27                                                          
  gcc.i686 7.1.1-5.fc27                                                         
  gcc-c++.i686 7.1.1-5.fc27                                                     
  gdb-headless.i686 8.0-17.fc27                                                 
  gdbm.i686 1.13-1.fc27                                                         
  ghc-srpm-macros.noarch 1.4.2-5.fc26                                           
  glib2.i686 2.53.3-1.fc27                                                      
  glibc.i686 2.25.90-22.fc27                                                    
  glibc-all-langpacks.i686 2.25.90-22.fc27                                      
  glibc-common.i686 2.25.90-22.fc27                                             
  glibc-devel.i686 2.25.90-22.fc27                                              
  glibc-headers.i686 2.25.90-22.fc27                                            
  gmp.i686 1:6.1.2-4.fc27                                                       
  gnat-srpm-macros.noarch 4-2.fc26                                              
  gnupg2.i686 2.1.21-2.fc27                                                     
  gnutls.i686 3.5.14-1.fc27                                                     
  go-srpm-macros.noarch 2-9.fc27                                                
  grep.i686 3.1-1.fc27                                                          
  guile.i686 5:2.0.14-1.fc26                                                    
  gzip.i686 1.8-2.fc26                                                          
  info.i686 6.4-2.fc27                                                          
  isl.i686 0.16.1-1.fc26                                                        
  kernel-headers.i686 4.13.0-0.rc0.git5.1.fc27                                  
  keyutils-libs.i686 1.5.10-1.fc27                                              
  krb5-libs.i686 1.15.1-14.fc27                                                 
  libacl.i686 2.2.52-15.fc27                                                    
  libarchive.i686 3.3.1-1.fc27                                                  
  libasan.i686 7.1.1-5.fc27                                                     
  libassuan.i686 2.4.3-2.fc26                                                   
  libatomic.i686 7.1.1-5.fc27                                                   
  libatomic_ops.i686 7.4.6-1.fc27                                               
  libattr.i686 2.4.47-18.fc26                                                   
  libbabeltrace.i686 1.5.2-2.fc27                                               
  libblkid.i686 2.30-1.fc27                                                     
  libcap.i686 2.25-5.fc26                                                       
  libcap-ng.i686 0.7.8-3.fc26                                                   
  libcilkrts.i686 7.1.1-5.fc27                                                  
  libcom_err.i686 1.43.4-2.fc26                                                 
  libcrypt-nss.i686 2.25.90-22.fc27                                             
  libcurl.i686 7.54.1-2.fc27                                                    
  libdb.i686 5.3.28-24.fc27                                                     
  libdb-utils.i686 5.3.28-24.fc27                                               
  libfdisk.i686 2.30-1.fc27                                                     
  libffi.i686 3.1-12.fc27                                                       
  libgcc.i686 7.1.1-5.fc27                                                      
  libgcrypt.i686 1.7.8-1.fc27                                                   
  libgomp.i686 7.1.1-5.fc27                                                     
  libgpg-error.i686 1.27-1.fc27                                                 
  libidn2.i686 2.0.2-1.fc27                                                     
  libipt.i686 1.6.1-2.fc27                                                      
  libksba.i686 1.3.5-3.fc26                                                     
  libmetalink.i686 0.1.3-2.fc26                                                 
  libmount.i686 2.30-1.fc27                                                     
  libmpc.i686 1.0.2-6.fc26                                                      
  libmpx.i686 7.1.1-5.fc27                                                      
  libnghttp2.i686 1.24.0-1.fc27                                                 
  libpkgconf.i686 1.3.7-1.fc27                                                  
  libpsl.i686 0.17.0-2.fc26                                                     
  libpwquality.i686 1.4.0-1.fc27                                                
  libselinux.i686 2.6-6.fc27                                                    
  libsemanage.i686 2.6-4.fc27                                                   
  libsepol.i686 2.6-1.fc26                                                      
  libsigsegv.i686 2.11-1.fc26                                                   
  libsmartcols.i686 2.30-1.fc27                                                 
  libssh2.i686 1.8.0-2.fc26                                                     
  libstdc++.i686 7.1.1-5.fc27                                                   
  libstdc++-devel.i686 7.1.1-5.fc27                                             
  libtasn1.i686 4.12-1.fc27                                                     
  libtool-ltdl.i686 2.4.6-18.fc27                                               
  libubsan.i686 7.1.1-5.fc27                                                    
  libunistring.i686 0.9.7-1.fc26                                                
  libusbx.i686 1.0.21-2.fc26                                                    
  libutempter.i686 1.1.6-9.fc26                                                 
  libuuid.i686 2.30-1.fc27                                                      
  libverto.i686 0.2.6-7.fc26                                                    
  libxml2.i686 2.9.4-2.fc26                                                     
  lua-libs.i686 5.3.4-3.fc27                                                    
  lz4-libs.i686 1.7.5-4.fc27                                                    
  make.i686 1:4.2.1-2.fc26                                                      
  mpfr.i686 3.1.5-3.fc27                                                        
  ncurses.i686 6.0-10.20170520.fc27                                             
  ncurses-base.noarch 6.0-10.20170520.fc27                                      
  ncurses-libs.i686 6.0-10.20170520.fc27                                        
  nettle.i686 3.3-2.fc26                                                        
  npth.i686 1.5-1.fc27                                                          
  nspr.i686 4.15.0-1.fc27                                                       
  nss.i686 3.31.0-2.fc27                                                        
  nss-pem.i686 1.0.3-3.fc27                                                     
  nss-softokn.i686 3.31.0-2.fc27                                                
  nss-softokn-freebl.i686 3.31.0-2.fc27                                         
  nss-sysinit.i686 3.31.0-2.fc27                                                
  nss-util.i686 3.31.0-2.fc27                                                   
  ocaml-srpm-macros.noarch 4-2.fc26                                             
  openblas-srpm-macros.noarch 2-1.fc27                                          
  openldap.i686 2.4.45-1.fc27                                                   
  openssl-libs.i686 1:1.1.0f-5.fc27                                             
  p11-kit.i686 0.23.7-1.fc27                                                    
  p11-kit-trust.i686 0.23.7-1.fc27                                              
  pam.i686 1.3.0-3.fc27                                                         
  patch.i686 2.7.5-4.fc26                                                       
  pcre.i686 8.41-1.fc27                                                         
  perl-srpm-macros.noarch 1-23.fc27                                             
  pkgconf.i686 1.3.7-1.fc27                                                     
  pkgconf-m4.noarch 1.3.7-1.fc27                                                
  pkgconf-pkg-config.i686 1.3.7-1.fc27                                          
  popt.i686 1.16-8.fc26                                                         
  publicsuffix-list-dafsa.noarch 20170424-1.fc27                                
  python-srpm-macros.noarch 3-20.fc27                                           
  qt5-srpm-macros.noarch 5.9.0-2.fc27                                           
  readline.i686 7.0-5.fc26                                                      
  redhat-rpm-config.noarch 64-1.fc27                                            
  rpm.i686 4.13.0.1-31.fc27                                                     
  rpm-build.i686 4.13.0.1-31.fc27                                               
  rpm-build-libs.i686 4.13.0.1-31.fc27                                          
  rpm-libs.i686 4.13.0.1-31.fc27                                                
  rpm-plugin-selinux.i686 4.13.0.1-31.fc27                                      
  sed.i686 4.4-1.fc26                                                           
  setup.noarch 2.10.5-2.fc26                                                    
  shadow-utils.i686 2:4.3.1-3.fc26                                              
  sqlite-libs.i686 3.19.3-1.fc27                                                
  system-python-libs.i686 3.6.1-10.fc27                                         
  systemd-libs.i686 233-6.fc27                                                  
  tar.i686 2:1.29-4.fc26                                                        
  tzdata.noarch 2017b-1.fc27                                                    
  unzip.i686 6.0-33.fc26                                                        
  ustr.i686 1.0.4-22.fc26                                                       
  util-linux.i686 2.30-1.fc27                                                   
  which.i686 2.21-2.fc26                                                        
  xz.i686 5.2.3-2.fc26                                                          
  xz-libs.i686 5.2.3-2.fc26                                                     
  zip.i686 3.0-18.fc26                                                          
  zlib.i686 1.2.11-2.fc26                                                       

Complete!
Finish: dnf install
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: i686
Building for target i686
Wrote: /builddir/build/SRPMS/mmseq-1.0.8a-19.fc27.src.rpm
Finish: rpmbuild -bs
Finish: buildsrpm
INFO: Done(mmseq.spec) Config(child) 0 minutes 59 seconds
INFO: Results and/or logs in: intermediate-srpm
Finish: run
INFO: unmounting tmpfs.
WARNING: Could not find required logging config file: /var/lib/copr-rpmbuild/results/configs/logging.ini. Using default...
INFO: mock.py version 1.4.2 starting (python version = 3.6.1)...
Start: init plugins
INFO: tmpfs initialized
INFO: selinux disabled
INFO: compress_logs: initialized
Finish: init plugins
Start: run
INFO: Start(intermediate-srpm/mmseq-1.0.8a-19.fc27.src.rpm)  Config(579095-fedora-rawhide-i386)
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/579095-fedora-rawhide-i386/root.
INFO: calling preinit hooks
INFO: enabled root cache
Start: unpacking root cache
Finish: unpacking root cache
INFO: enabled HW Info plugin
Mock Version: 1.4.2
INFO: Mock Version: 1.4.2
Finish: chroot init
Start: build phase for mmseq-1.0.8a-19.fc27.src.rpm
Start: build setup for mmseq-1.0.8a-19.fc27.src.rpm
Building target platforms: i686
Building for target i686
Wrote: /builddir/build/SRPMS/mmseq-1.0.8a-19.fc27.src.rpm
"Copr repository"     0% [                    ] ---  B/s |   0  B     --:-- ETA
"Copr repository"                               841 kB/s |  44 kB     00:00    
fedora                0% [                    ] ---  B/s |   0  B     --:-- ETA
fedora               16% [===                 ]  28 MB/s | 8.5 MB     00:01 ETA
fedora               39% [=======-            ]  29 MB/s |  20 MB     00:01 ETA
fedora               55% [===========         ]  29 MB/s |  28 MB     00:00 ETA
fedora               86% [=================   ]  30 MB/s |  44 MB     00:00 ETA
fedora                                           35 MB/s |  50 MB     00:01    
Last metadata expiration check: 0:00:00 ago on Thu 13 Jul 2017 09:12:31 PM UTC.
Dependencies resolved.
================================================================================
 Package                   Arch      Version                 Repository    Size
================================================================================
Installing:
 armadillo-devel           i686      7.900.1-1.fc27          fedora       1.2 M
 boost-devel               i686      1.63.0-9.fc27           fedora       9.2 M
 gsl-devel                 i686      2.4-1.fc27              copr_base    563 k
 perl-generators           noarch    1.10-4.fc27             fedora        16 k
 samtools-devel            i686      0.1.19-10.fc26          fedora        36 k
 zlib-devel                i686      1.2.11-2.fc26           fedora        56 k
Installing dependencies:
 SuperLU                   i686      5.2.0-2.fc26            fedora       186 k
 SuperLU-devel             i686      5.2.0-2.fc26            fedora        27 k
 armadillo                 i686      7.900.1-1.fc27          fedora        30 k
 arpack                    i686      3.5.0-2.fc27            fedora       108 k
 arpack-devel              i686      3.5.0-2.fc27            fedora        11 k
 atlas                     i686      3.10.2-16.fc26          fedora       5.9 M
 autoconf                  noarch    2.69-24.fc26            fedora       709 k
 automake                  noarch    1.15-9.fc26             fedora       695 k
 blas                      i686      3.6.1-4.fc26            fedora       388 k
 blas-devel                i686      3.6.1-4.fc26            fedora        17 k
 boost                     i686      1.63.0-9.fc27           fedora        47 k
 boost-atomic              i686      1.63.0-9.fc27           fedora        49 k
 boost-chrono              i686      1.63.0-9.fc27           fedora        53 k
 boost-container           i686      1.63.0-9.fc27           fedora        80 k
 boost-context             i686      1.63.0-9.fc27           fedora        51 k
 boost-coroutine           i686      1.63.0-9.fc27           fedora        64 k
 boost-date-time           i686      1.63.0-9.fc27           fedora        63 k
 boost-fiber               i686      1.63.0-9.fc27           fedora        77 k
 boost-filesystem          i686      1.63.0-9.fc27           fedora        82 k
 boost-graph               i686      1.63.0-9.fc27           fedora       146 k
 boost-iostreams           i686      1.63.0-9.fc27           fedora        74 k
 boost-locale              i686      1.63.0-9.fc27           fedora       304 k
 boost-log                 i686      1.63.0-9.fc27           fedora       483 k
 boost-math                i686      1.63.0-9.fc27           fedora       269 k
 boost-numpy               i686      1.63.0-9.fc27           fedora        61 k
 boost-program-options     i686      1.63.0-9.fc27           fedora       177 k
 boost-python              i686      1.63.0-9.fc27           fedora       133 k
 boost-random              i686      1.63.0-9.fc27           fedora        55 k
 boost-regex               i686      1.63.0-9.fc27           fedora       324 k
 boost-serialization       i686      1.63.0-9.fc27           fedora       165 k
 boost-signals             i686      1.63.0-9.fc27           fedora        77 k
 boost-system              i686      1.63.0-9.fc27           fedora        52 k
 boost-test                i686      1.63.0-9.fc27           fedora       286 k
 boost-thread              i686      1.63.0-9.fc27           fedora        94 k
 boost-timer               i686      1.63.0-9.fc27           fedora        54 k
 boost-type_erasure        i686      1.63.0-9.fc27           fedora        64 k
 boost-wave                i686      1.63.0-9.fc27           fedora       236 k
 emacs-filesystem          noarch    1:25.2-2.fc27           fedora        66 k
 gcc-gfortran              i686      7.1.1-5.fc27            fedora        10 M
 groff-base                i686      1.22.3-9.fc26           fedora       1.0 M
 gsl                       i686      2.4-1.fc27              copr_base    977 k
 hdf5                      i686      1.8.18-5.fc26           fedora       1.7 M
 hdf5-devel                i686      1.8.18-5.fc26           fedora       925 k
 lapack                    i686      3.6.1-4.fc26            fedora       5.9 M
 lapack-devel              i686      3.6.1-4.fc26            fedora        80 k
 libgfortran               i686      7.1.1-5.fc27            fedora       515 k
 libicu                    i686      57.1-4.fc26             fedora       8.5 M
 libicu-devel              i686      57.1-4.fc26             fedora       914 k
 libquadmath               i686      7.1.1-5.fc27            fedora       258 k
 libquadmath-devel         i686      7.1.1-5.fc27            fedora        36 k
 m4                        i686      1.4.18-3.fc26           fedora       221 k
 openblas                  i686      0.2.19-11.fc27          fedora       3.3 M
 openblas-devel            i686      0.2.19-11.fc27          fedora        82 k
 openblas-openmp           i686      0.2.19-11.fc27          fedora       3.4 M
 openblas-threads          i686      0.2.19-11.fc27          fedora       3.4 M
 perl                      i686      4:5.26.0-394.fc27       fedora       6.2 M
 perl-Carp                 noarch    1.42-393.fc27           fedora        28 k
 perl-Data-Dumper          i686      2.167-394.fc27          fedora        56 k
 perl-Encode               i686      4:2.91-11.fc27          fedora       1.1 M
 perl-Errno                i686      1.28-394.fc27           fedora        69 k
 perl-Exporter             noarch    5.72-394.fc27           fedora        32 k
 perl-Fedora-VSP           noarch    0.001-7.fc27            fedora        23 k
 perl-File-Path            noarch    2.14-1.fc27             fedora        36 k
 perl-File-Temp            noarch    0.230.400-393.fc27      fedora        61 k
 perl-Getopt-Long          noarch    1:2.50-2.fc27           fedora        61 k
 perl-HTTP-Tiny            noarch    0.070-393.fc27          fedora        56 k
 perl-IO                   i686      1.38-394.fc27           fedora       134 k
 perl-MIME-Base64          i686      3.15-393.fc27           fedora        29 k
 perl-PathTools            i686      3.67-393.fc27           fedora        88 k
 perl-Pod-Escapes          noarch    1:1.07-393.fc27         fedora        19 k
 perl-Pod-Perldoc          noarch    3.28-394.fc27           fedora        87 k
 perl-Pod-Simple           noarch    1:3.35-393.fc27         fedora       211 k
 perl-Pod-Usage            noarch    4:1.69-393.fc27         fedora        33 k
 perl-Scalar-List-Utils    i686      3:1.48-1.fc27           fedora        66 k
 perl-Socket               i686      4:2.024-3.fc27          fedora        56 k
 perl-Storable             i686      1:2.62-393.fc27         fedora        86 k
 perl-Term-ANSIColor       noarch    4.06-394.fc27           fedora        44 k
 perl-Term-Cap             noarch    1.17-393.fc27           fedora        21 k
 perl-Text-ParseWords      noarch    3.30-393.fc27           fedora        16 k
 perl-Text-Tabs+Wrap       noarch    2013.0523-393.fc27      fedora        22 k
 perl-Thread-Queue         noarch    3.12-393.fc27           fedora        22 k
 perl-Time-Local           noarch    1:1.250-393.fc27        fedora        30 k
 perl-Unicode-Normalize    i686      1.25-393.fc27           fedora        73 k
 perl-constant             noarch    1.33-394.fc27           fedora        24 k
 perl-libs                 i686      4:5.26.0-394.fc27       fedora       1.6 M
 perl-macros               i686      4:5.26.0-394.fc27       fedora        65 k
 perl-parent               noarch    1:0.236-393.fc27        fedora        18 k
 perl-podlators            noarch    4.09-393.fc27           fedora       114 k
 perl-threads              i686      1:2.16-2.fc27           fedora        59 k
 perl-threads-shared       i686      1.57-2.fc27             fedora        45 k
 python2                   i686      2.7.13-12.fc27          fedora        98 k
 python2-libs              i686      2.7.13-12.fc27          fedora       6.3 M
 python2-nose              noarch    1.3.7-13.fc26           fedora       266 k
 python2-numpy             i686      1:1.13.1-1.fc27         fedora       3.5 M
 python2-pip               noarch    9.0.1-10.fc27           fedora       1.8 M
 python2-setuptools        noarch    36.0.1-1.fc27           fedora       595 k
 samtools-libs             i686      0.1.19-10.fc26          fedora       112 k

Transaction Summary
================================================================================
Install  103 Packages

Total download size: 87 M
Installed size: 380 M
Downloading Packages:
(1/103): armadillo-d  0% [                    ] ---  B/s |   0  B     --:-- ETA
(1/103): perl-generators-1.10-4.fc27.noarch.rpm 218 kB/s |  16 kB     00:00    
(2-3/103): armadillo  0% [                    ] 217 kB/s |  16 kB     06:50 ETA
(2-4/103): samtools-  5% [=                   ] 1.2 MB/s | 4.9 MB     01:10 ETA
(2/103): armadillo-devel-7.900.1-1.fc27.i686.rp 2.5 MB/s | 1.2 MB     00:00    
(3-4/103): boost-dev 11% [==                  ] 2.2 MB/s |  10 MB     00:35 ETA
(3/103): boost-devel-1.63.0-9.fc27.i686.rpm      13 MB/s | 9.2 MB     00:00    
(4-5/103): zlib-deve 11% [==                  ] 2.2 MB/s |  10 MB     00:35 ETA
(4/103): zlib-devel-1.2.11-2.fc26.i686.rpm      262 kB/s |  56 kB     00:00    
(5-6/103): gsl-devel 12% [==                  ] 2.2 MB/s |  10 MB     00:35 ETA
(5/103): samtools-devel-0.1.19-10.fc26.i686.rpm  54 kB/s |  36 kB     00:00    
(6-7/103): SuperLU-d 12% [==                  ] 2.2 MB/s |  11 MB     00:34 ETA
(6/103): gsl-devel-2.4-1.fc27.i686.rpm          6.2 MB/s | 563 kB     00:00    
(7-8/103): armadillo 12% [==-                 ] 2.2 MB/s |  11 MB     00:33 ETA
(7/103): armadillo-7.900.1-1.fc27.i686.rpm      789 kB/s |  30 kB     00:00    
(8-9/103): arpack-de 12% [==-                 ] 2.3 MB/s |  11 MB     00:33 ETA
(8/103): SuperLU-devel-5.2.0-2.fc26.i686.rpm    237 kB/s |  27 kB     00:00    
(9-10/103): hdf5-dev 12% [==-                 ] 2.2 MB/s |  11 MB     00:33 ETA
(9/103): arpack-devel-3.5.0-2.fc27.i686.rpm     264 kB/s |  11 kB     00:00    
(10-11/103): lapack- 13% [==-                 ] 2.3 MB/s |  12 MB     00:32 ETA
(10/103): hdf5-devel-1.8.18-5.fc26.i686.rpm      11 MB/s | 925 kB     00:00    
(11-12/103): openbla 13% [==-                 ] 2.4 MB/s |  12 MB     00:31 ETA
(11/103): lapack-devel-3.6.1-4.fc26.i686.rpm    1.1 MB/s |  80 kB     00:00    
(12-13/103): boost-1 13% [==-                 ] 2.4 MB/s |  12 MB     00:31 ETA
(12/103): boost-1.63.0-9.fc27.i686.rpm          918 kB/s |  47 kB     00:00    
(13-14/103): boost-a 13% [==-                 ] 2.4 MB/s |  12 MB     00:31 ETA
(13/103): openblas-devel-0.2.19-11.fc27.i686.rp 577 kB/s |  82 kB     00:00    
(14-15/103): boost-c 14% [==-                 ] 2.4 MB/s |  12 MB     00:31 ETA
(14/103): boost-atomic-1.63.0-9.fc27.i686.rpm   573 kB/s |  49 kB     00:00    
(15-16/103): boost-c 14% [==-                 ] 2.4 MB/s |  12 MB     00:31 ETA
(15/103): boost-chrono-1.63.0-9.fc27.i686.rpm   1.0 MB/s |  53 kB     00:00    
(16-17/103): boost-c 14% [==-                 ] 2.4 MB/s |  12 MB     00:30 ETA
(16/103): boost-container-1.63.0-9.fc27.i686.rp 3.5 MB/s |  80 kB     00:00    
(17-18/103): boost-c 14% [==-                 ] 2.4 MB/s |  12 MB     00:30 ETA
(17/103): boost-context-1.63.0-9.fc27.i686.rpm  1.4 MB/s |  51 kB     00:00    
(18-19/103): boost-d 14% [==-                 ] 2.4 MB/s |  12 MB     00:30 ETA
(18/103): boost-date-time-1.63.0-9.fc27.i686.rp 2.7 MB/s |  63 kB     00:00    
(19-20/103): boost-f 14% [==-                 ] 2.4 MB/s |  13 MB     00:30 ETA
(19/103): boost-fiber-1.63.0-9.fc27.i686.rpm    7.9 MB/s |  77 kB     00:00    
(20-21/103): boost-f 14% [==-                 ] 2.5 MB/s |  13 MB     00:30 ETA
(20/103): boost-coroutine-1.63.0-9.fc27.i686.rp 1.1 MB/s |  64 kB     00:00    
(21-22/103): boost-g 14% [==-                 ] 2.5 MB/s |  13 MB     00:30 ETA
(21/103): boost-filesystem-1.63.0-9.fc27.i686.r 4.3 MB/s |  82 kB     00:00    
(22-23/103): boost-i 14% [==-                 ] 2.5 MB/s |  13 MB     00:29 ETA
(22/103): boost-graph-1.63.0-9.fc27.i686.rpm    4.8 MB/s | 146 kB     00:00    
(23-24/103): boost-l 14% [==-                 ] 2.5 MB/s |  13 MB     00:29 ETA
(23/103): boost-iostreams-1.63.0-9.fc27.i686.rp 1.0 MB/s |  74 kB     00:00    
(24-25/103): boost-l 14% [==-                 ] 2.5 MB/s |  13 MB     00:29 ETA
(24/103): boost-locale-1.63.0-9.fc27.i686.rpm   3.3 MB/s | 304 kB     00:00    
(25-26/103): boost-m 15% [===                 ] 2.5 MB/s |  13 MB     00:29 ETA
(25/103): boost-log-1.63.0-9.fc27.i686.rpm      5.1 MB/s | 483 kB     00:00    
(26-27/103): boost-n 15% [===                 ] 2.6 MB/s |  14 MB     00:28 ETA
(26/103): boost-numpy-1.63.0-9.fc27.i686.rpm    2.3 MB/s |  61 kB     00:00    
(27-28/103): boost-p 15% [===                 ] 2.6 MB/s |  14 MB     00:28 ETA
(27/103): boost-program-options-1.63.0-9.fc27.i  14 MB/s | 177 kB     00:00    
(28-29/103): boost-p 15% [===                 ] 2.6 MB/s |  14 MB     00:27 ETA
(28/103): boost-math-1.63.0-9.fc27.i686.rpm     3.5 MB/s | 269 kB     00:00    
(29-30/103): boost-r 16% [===                 ] 2.7 MB/s |  14 MB     00:27 ETA
(29/103): boost-random-1.63.0-9.fc27.i686.rpm   1.5 MB/s |  55 kB     00:00    
(30-31/103): boost-r 16% [===                 ] 2.7 MB/s |  14 MB     00:27 ETA
(30/103): boost-regex-1.63.0-9.fc27.i686.rpm     26 MB/s | 324 kB     00:00    
(31-32/103): boost-s 16% [===                 ] 2.8 MB/s |  15 MB     00:26 ETA
(31/103): boost-python-1.63.0-9.fc27.i686.rpm   2.7 MB/s | 133 kB     00:00    
(32-33/103): boost-s 16% [===                 ] 2.8 MB/s |  15 MB     00:26 ETA
(32/103): boost-serialization-1.63.0-9.fc27.i68  10 MB/s | 165 kB     00:00    
(33-34/103): boost-s 17% [===                 ] 2.8 MB/s |  15 MB     00:25 ETA
(33/103): boost-system-1.63.0-9.fc27.i686.rpm   3.4 MB/s |  52 kB     00:00    
(34-35/103): boost-t 17% [===                 ] 2.8 MB/s |  15 MB     00:25 ETA
(34/103): boost-signals-1.63.0-9.fc27.i686.rpm  3.2 MB/s |  77 kB     00:00    
(35-36/103): boost-t 17% [===                 ] 2.9 MB/s |  15 MB     00:25 ETA
(35/103): boost-test-1.63.0-9.fc27.i686.rpm      18 MB/s | 286 kB     00:00    
(36-37/103): boost-t 17% [===-                ] 2.9 MB/s |  15 MB     00:24 ETA
(36/103): boost-timer-1.63.0-9.fc27.i686.rpm    3.4 MB/s |  54 kB     00:00    
(37-38/103): boost-w 17% [===-                ] 2.9 MB/s |  15 MB     00:24 ETA
(37/103): boost-wave-1.63.0-9.fc27.i686.rpm      13 MB/s | 236 kB     00:00    
(38-39/103): libicu- 17% [===-                ] 2.9 MB/s |  16 MB     00:24 ETA
(38/103): boost-type_erasure-1.63.0-9.fc27.i686 1.4 MB/s |  64 kB     00:00    
(39-40/103): libquad 18% [===-                ] 3.0 MB/s |  16 MB     00:23 ETA
(39/103): libquadmath-devel-7.1.1-5.fc27.i686.r 780 kB/s |  36 kB     00:00    
(40-41/103): perl-5. 18% [===-                ] 3.0 MB/s |  16 MB     00:23 ETA
(40/103): libicu-devel-57.1-4.fc26.i686.rpm      13 MB/s | 914 kB     00:00    
(41-42/103): perl-Fe 19% [===-                ] 3.1 MB/s |  17 MB     00:22 ETA
(41/103): perl-Fedora-VSP-0.001-7.fc27.noarch.r 297 kB/s |  23 kB     00:00    
(42-43/103): perl-li 23% [====-               ] 3.8 MB/s |  20 MB     00:17 ETA
(42/103): perl-5.26.0-394.fc27.i686.rpm          32 MB/s | 6.2 MB     00:00    
(43-44/103): perl-ma 26% [=====               ] 4.2 MB/s |  23 MB     00:15 ETA
(43/103): perl-macros-5.26.0-394.fc27.i686.rpm  621 kB/s |  65 kB     00:00    
(44-45/103): samtool 26% [=====               ] 4.3 MB/s |  23 MB     00:14 ETA
(44/103): gsl-2.4-1.fc27.i686.rpm                42 MB/s | 977 kB     00:00    
(45-46/103): samtool 29% [=====-              ] 4.7 MB/s |  25 MB     00:13 ETA
(45/103): perl-libs-5.26.0-394.fc27.i686.rpm    7.4 MB/s | 1.6 MB     00:00    
(46-47/103): automak 29% [=====-              ] 4.7 MB/s |  25 MB     00:13 ETA
(46/103): samtools-libs-0.1.19-10.fc26.i686.rpm 1.5 MB/s | 112 kB     00:00    
(47-48/103): SuperLU 29% [=====-              ] 4.7 MB/s |  26 MB     00:13 ETA
(47/103): SuperLU-5.2.0-2.fc26.i686.rpm         5.7 MB/s | 186 kB     00:00    
(48-49/103): automak 29% [=====-              ] 4.8 MB/s |  26 MB     00:12 ETA
(48/103): automake-1.15-9.fc26.noarch.rpm       9.1 MB/s | 695 kB     00:00    
(49-50/103): arpack- 30% [======              ] 4.8 MB/s |  26 MB     00:12 ETA
(49/103): arpack-3.5.0-2.fc27.i686.rpm          784 kB/s | 108 kB     00:00    
(50-51/103): lapack- 30% [======              ] 4.8 MB/s |  27 MB     00:12 ETA
(50/103): lapack-3.6.1-4.fc26.i686.rpm           19 MB/s | 5.9 MB     00:00    
(51-52/103): openbla 37% [=======             ] 5.8 MB/s |  32 MB     00:09 ETA
(51/103): hdf5-1.8.18-5.fc26.i686.rpm           7.2 MB/s | 1.7 MB     00:00    
(52-53/103): openbla 40% [========            ] 6.2 MB/s |  35 MB     00:08 ETA
(52/103): openblas-openmp-0.2.19-11.fc27.i686.r 7.7 MB/s | 3.4 MB     00:00    
(53-54/103): blas-de 43% [========-           ] 6.6 MB/s |  38 MB     00:07 ETA
(53/103): blas-devel-3.6.1-4.fc26.i686.rpm      111 kB/s |  17 kB     00:00    
(54-55/103): openbla 43% [========-           ] 6.6 MB/s |  38 MB     00:07 ETA
(54/103): openblas-0.2.19-11.fc27.i686.rpm       13 MB/s | 3.3 MB     00:00    
(55-56/103): openbla 46% [=========           ] 7.1 MB/s |  41 MB     00:06 ETA
(55/103): boost-thread-1.63.0-9.fc27.i686.rpm   638 kB/s |  94 kB     00:00    
(56-57/103): openbla 47% [=========           ] 7.1 MB/s |  41 MB     00:06 ETA
(56/103): openblas-threads-0.2.19-11.fc27.i686.  12 MB/s | 3.4 MB     00:00    
(57-58/103): libicu- 50% [==========          ] 7.6 MB/s |  44 MB     00:05 ETA
(57/103): libquadmath-7.1.1-5.fc27.i686.rpm     1.7 MB/s | 258 kB     00:00    
(58-59/103): libicu- 51% [==========          ] 7.7 MB/s |  45 MB     00:05 ETA
(58/103): libicu-57.1-4.fc26.i686.rpm            20 MB/s | 8.5 MB     00:00    
(59-60/103): python2 61% [============        ] 8.9 MB/s |  53 MB     00:03 ETA
(59/103): perl-Carp-1.42-393.fc27.noarch.rpm    356 kB/s |  28 kB     00:00    
(60-61/103): python2 66% [=============       ] 9.7 MB/s |  58 MB     00:03 ETA
(60/103): python2-numpy-1.13.1-1.fc27.i686.rpm  9.3 MB/s | 3.5 MB     00:00    
(61-62/103): perl-Ex 67% [=============       ] 9.8 MB/s |  59 MB     00:02 ETA
(61/103): python2-libs-2.7.13-12.fc27.i686.rpm   12 MB/s | 6.3 MB     00:00    
(62-63/103): perl-Fi 72% [==============      ]  10 MB/s |  63 MB     00:02 ETA
(62/103): perl-Exporter-5.72-394.fc27.noarch.rp 181 kB/s |  32 kB     00:00    
(63-64/103): perl-IO 72% [==============      ]  10 MB/s |  63 MB     00:02 ETA
(63/103): perl-File-Path-2.14-1.fc27.noarch.rpm 237 kB/s |  36 kB     00:00    
(64/103): perl-IO-1. 72% [==============      ]  10 MB/s |  63 MB     00:02 ETA
(64/103): perl-IO-1.38-394.fc27.i686.rpm        3.8 MB/s | 134 kB     00:00    
(65-66/103): perl-Sc 72% [==============      ]  10 MB/s |  63 MB     00:02 ETA
(65/103): perl-Scalar-List-Utils-1.48-1.fc27.i6 2.5 MB/s |  66 kB     00:00    
(66-67/103): perl-Te 72% [==============      ]  10 MB/s |  63 MB     00:02 ETA
(66/103): perl-PathTools-3.67-393.fc27.i686.rpm 2.3 MB/s |  88 kB     00:00    
(67-68/103): perl-Un 72% [==============-     ]  10 MB/s |  63 MB     00:02 ETA
(67/103): perl-Text-Tabs+Wrap-2013.0523-393.fc2 618 kB/s |  22 kB     00:00    
(68-69/103): perl-co 72% [==============-     ]  10 MB/s |  63 MB     00:02 ETA
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  Verifying        : gcc-gfortran-7.1.1-5.fc27.i686                      79/103 

  Verifying        : python2-2.7.13-12.fc27.i686                         80/103 

  Verifying        : python2-nose-1.3.7-13.fc26.noarch                   81/103 

  Verifying        : perl-Socket-4:2.024-3.fc27.i686                     82/103 

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  Verifying        : m4-1.4.18-3.fc26.i686                               84/103 

  Verifying        : perl-Data-Dumper-2.167-394.fc27.i686                85/103 

  Verifying        : perl-Text-ParseWords-3.30-393.fc27.noarch           86/103 

  Verifying        : perl-Pod-Usage-4:1.69-393.fc27.noarch               87/103 

  Verifying        : python2-pip-9.0.1-10.fc27.noarch                    88/103 

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  Verifying        : perl-Encode-4:2.91-11.fc27.i686                     93/103 

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  Verifying        : atlas-3.10.2-16.fc26.i686                          103/103 

Installed:
  armadillo-devel.i686 7.900.1-1.fc27                                           
  boost-devel.i686 1.63.0-9.fc27                                                
  gsl-devel.i686 2.4-1.fc27                                                     
  perl-generators.noarch 1.10-4.fc27                                            
  samtools-devel.i686 0.1.19-10.fc26                                            
  zlib-devel.i686 1.2.11-2.fc26                                                 
  SuperLU.i686 5.2.0-2.fc26                                                     
  SuperLU-devel.i686 5.2.0-2.fc26                                               
  armadillo.i686 7.900.1-1.fc27                                                 
  arpack.i686 3.5.0-2.fc27                                                      
  arpack-devel.i686 3.5.0-2.fc27                                                
  atlas.i686 3.10.2-16.fc26                                                     
  autoconf.noarch 2.69-24.fc26                                                  
  automake.noarch 1.15-9.fc26                                                   
  blas.i686 3.6.1-4.fc26                                                        
  blas-devel.i686 3.6.1-4.fc26                                                  
  boost.i686 1.63.0-9.fc27                                                      
  boost-atomic.i686 1.63.0-9.fc27                                               
  boost-chrono.i686 1.63.0-9.fc27                                               
  boost-container.i686 1.63.0-9.fc27                                            
  boost-context.i686 1.63.0-9.fc27                                              
  boost-coroutine.i686 1.63.0-9.fc27                                            
  boost-date-time.i686 1.63.0-9.fc27                                            
  boost-fiber.i686 1.63.0-9.fc27                                                
  boost-filesystem.i686 1.63.0-9.fc27                                           
  boost-graph.i686 1.63.0-9.fc27                                                
  boost-iostreams.i686 1.63.0-9.fc27                                            
  boost-locale.i686 1.63.0-9.fc27                                               
  boost-log.i686 1.63.0-9.fc27                                                  
  boost-math.i686 1.63.0-9.fc27                                                 
  boost-numpy.i686 1.63.0-9.fc27                                                
  boost-program-options.i686 1.63.0-9.fc27                                      
  boost-python.i686 1.63.0-9.fc27                                               
  boost-random.i686 1.63.0-9.fc27                                               
  boost-regex.i686 1.63.0-9.fc27                                                
  boost-serialization.i686 1.63.0-9.fc27                                        
  boost-signals.i686 1.63.0-9.fc27                                              
  boost-system.i686 1.63.0-9.fc27                                               
  boost-test.i686 1.63.0-9.fc27                                                 
  boost-thread.i686 1.63.0-9.fc27                                               
  boost-timer.i686 1.63.0-9.fc27                                                
  boost-type_erasure.i686 1.63.0-9.fc27                                         
  boost-wave.i686 1.63.0-9.fc27                                                 
  emacs-filesystem.noarch 1:25.2-2.fc27                                         
  gcc-gfortran.i686 7.1.1-5.fc27                                                
  groff-base.i686 1.22.3-9.fc26                                                 
  gsl.i686 2.4-1.fc27                                                           
  hdf5.i686 1.8.18-5.fc26                                                       
  hdf5-devel.i686 1.8.18-5.fc26                                                 
  lapack.i686 3.6.1-4.fc26                                                      
  lapack-devel.i686 3.6.1-4.fc26                                                
  libgfortran.i686 7.1.1-5.fc27                                                 
  libicu.i686 57.1-4.fc26                                                       
  libicu-devel.i686 57.1-4.fc26                                                 
  libquadmath.i686 7.1.1-5.fc27                                                 
  libquadmath-devel.i686 7.1.1-5.fc27                                           
  m4.i686 1.4.18-3.fc26                                                         
  openblas.i686 0.2.19-11.fc27                                                  
  openblas-devel.i686 0.2.19-11.fc27                                            
  openblas-openmp.i686 0.2.19-11.fc27                                           
  openblas-threads.i686 0.2.19-11.fc27                                          
  perl.i686 4:5.26.0-394.fc27                                                   
  perl-Carp.noarch 1.42-393.fc27                                                
  perl-Data-Dumper.i686 2.167-394.fc27                                          
  perl-Encode.i686 4:2.91-11.fc27                                               
  perl-Errno.i686 1.28-394.fc27                                                 
  perl-Exporter.noarch 5.72-394.fc27                                            
  perl-Fedora-VSP.noarch 0.001-7.fc27                                           
  perl-File-Path.noarch 2.14-1.fc27                                             
  perl-File-Temp.noarch 0.230.400-393.fc27                                      
  perl-Getopt-Long.noarch 1:2.50-2.fc27                                         
  perl-HTTP-Tiny.noarch 0.070-393.fc27                                          
  perl-IO.i686 1.38-394.fc27                                                    
  perl-MIME-Base64.i686 3.15-393.fc27                                           
  perl-PathTools.i686 3.67-393.fc27                                             
  perl-Pod-Escapes.noarch 1:1.07-393.fc27                                       
  perl-Pod-Perldoc.noarch 3.28-394.fc27                                         
  perl-Pod-Simple.noarch 1:3.35-393.fc27                                        
  perl-Pod-Usage.noarch 4:1.69-393.fc27                                         
  perl-Scalar-List-Utils.i686 3:1.48-1.fc27                                     
  perl-Socket.i686 4:2.024-3.fc27                                               
  perl-Storable.i686 1:2.62-393.fc27                                            
  perl-Term-ANSIColor.noarch 4.06-394.fc27                                      
  perl-Term-Cap.noarch 1.17-393.fc27                                            
  perl-Text-ParseWords.noarch 3.30-393.fc27                                     
  perl-Text-Tabs+Wrap.noarch 2013.0523-393.fc27                                 
  perl-Thread-Queue.noarch 3.12-393.fc27                                        
  perl-Time-Local.noarch 1:1.250-393.fc27                                       
  perl-Unicode-Normalize.i686 1.25-393.fc27                                     
  perl-constant.noarch 1.33-394.fc27                                            
  perl-libs.i686 4:5.26.0-394.fc27                                              
  perl-macros.i686 4:5.26.0-394.fc27                                            
  perl-parent.noarch 1:0.236-393.fc27                                           
  perl-podlators.noarch 4.09-393.fc27                                           
  perl-threads.i686 1:2.16-2.fc27                                               
  perl-threads-shared.i686 1.57-2.fc27                                          
  python2.i686 2.7.13-12.fc27                                                   
  python2-libs.i686 2.7.13-12.fc27                                              
  python2-nose.noarch 1.3.7-13.fc26                                             
  python2-numpy.i686 1:1.13.1-1.fc27                                            
  python2-pip.noarch 9.0.1-10.fc27                                              
  python2-setuptools.noarch 36.0.1-1.fc27                                       
  samtools-libs.i686 0.1.19-10.fc26                                             

Complete!
Finish: build setup for mmseq-1.0.8a-19.fc27.src.rpm
Start: rpmbuild mmseq-1.0.8a-19.fc27.src.rpm
Building target platforms: i686
Building for target i686
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.dJmzcZ
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf mmseq-1.0.8a
+ /usr/bin/unzip -qq /builddir/build/SOURCES/1.0.8a.zip
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd mmseq-1.0.8a
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
Patch #0 (mmseq-sam-header.patch):
+ echo 'Patch #0 (mmseq-sam-header.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .mmseq-sam-header.patch --fuzz=0
patching file src/bam2hits.cpp
Patch #2 (mmseq-zlib.patch):
+ echo 'Patch #2 (mmseq-zlib.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .mmseq-zlib.patch --fuzz=0
patching file src/Makefile
Patch #3 (mmseq-iostream-c++11.patch):
+ echo 'Patch #3 (mmseq-iostream-c++11.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .mmseq-iostream-c++11.patch --fuzz=0
patching file src/hitsio.cpp
Patch #4 (mmseq-static-data-members-initialization-c++11.patch):
+ echo 'Patch #4 (mmseq-static-data-members-initialization-c++11.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .mmseq-static-data-members-initialization-c++11.patch --fuzz=0
patching file src/bms.hpp
+ rm bin/bam2hits-linux bin/extract_transcripts-linux bin/hitstools-linux bin/mmcollapse-linux bin/mmdiff-linux bin/mmseq-linux bin/offsetGTF-linux bin/postdiff-linux bin/t2g_hits-linux
+ rm bin/bam2hits-mac bin/extract_transcripts-mac bin/hitstools-mac bin/mmcollapse-mac bin/mmdiff-mac bin/mmseq-mac bin/offsetGTF-mac bin/postdiff-mac bin/t2g_hits-mac
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.Dp4UqN
+ umask 022
+ cd /builddir/build/BUILD
+ cd mmseq-1.0.8a
+ cd src
+ make -j2 'CXXFLAGS=-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables'
g++ -O3 -c sokal.cc
g++ -fopenmp -O3 -c uh.cpp 
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -fopenmp -O3 hitsio.cpp hitsio.hpp -c hitsio.cpp
gcc    -c -o fasta.o fasta.c
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -O3 offsetGTF.cpp -o ../bin/offsetGTF
offsetGTF.cpp: In function 'int main(int, char**)':
offsetGTF.cpp:115:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       while(gff_ind < gff_positions[chrom].size()) {
             ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
offsetGTF.cpp:117:57: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
               pos + tokens[3].size() - tokens[4].size() >= gff_positions[chrom][gff_ind]) {
offsetGTF.cpp:114:11: warning: unused variable 'curoff' [-Wunused-variable]
       int curoff=offset;
           ^~~~~~
offsetGTF.cpp:150:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       while(gff_ind < gff_positions[prevchrom].size()) {
             ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
offsetGTF.cpp:163:53: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
           pos + tokens[3].size() - tokens[4].size() >= gff_positions[chrom][gff_ind]) {
offsetGTF.cpp:177:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     while(gff_ind < gff_positions[chrom].size() && gff_positions[chrom][gff_ind] <= pos) {
           ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
offsetGTF.cpp:235:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=5; i < tokens.size(); i++) {
                  ~~^~~~~~~~~~~~~~~
offsetGTF.cpp:237:12: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(i < tokens.size()-1) {
          ~~^~~~~~~~~~~~~~~~~
offsetGTF.cpp:108:7: warning: unused variable 'gff_pos' [-Wunused-variable]
   int gff_pos= -1;
       ^~~~~~~
hitsio.cpp: In member function 'void HitsfileWriter::writeHeaderSchema0()':
hitsio.cpp:163:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < transcriptName.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function 'void HitsfileWriter::writeReadMapRecordSchema0()':
hitsio.cpp:184:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < currentReadTranscripts.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function 'void HitsfileWriter::writeHeaderSchema1()':
hitsio.cpp:24:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  if (VAL > numeric_limits<uint32_t>::max()) { \
          ^
hitsio.cpp:191:2: note: in expansion of macro 'WRITE_UINT'
  WRITE_UINT(ofs, hitsfileSchema);
  ^
hitsio.cpp:193:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < transcriptName.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp:24:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  if (VAL > numeric_limits<uint32_t>::max()) { \
hitsio.cpp:196:3: note: in expansion of macro 'WRITE_UINT'
   WRITE_UINT(ofs, transcriptTrueLength[transcriptName[i] ])
   ^
hitsio.cpp: In member function 'void HitsfileWriter::writeReadMapRecordSchema1()':
hitsio.cpp:236:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < currentReadTranscripts.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function 'void HitsfileReader::readHeaderSchema1(std::vector<std::__cxx11::basic_string<char> >*, std::map<std::__cxx11::basic_string<char>, double>*, std::map<std::__cxx11::basic_string<char>, int>*, std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >*, std::vector<std::vector<std::__cxx11::basic_string<char> > >*)':
hitsio.cpp:356:9: warning: unused variable 'nextStrLen' [-Wunused-variable]
  size_t nextStrLen;
         ^~~~~~~~~~
hitsio.cpp: In member function 'bool HitsfileReader::readReadMapRecordTranscriptID(std::__cxx11::string&)':
hitsio.cpp:447:1: warning: control reaches end of non-void function [-Wreturn-type]
 }
 ^
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -O3 t2g_hits.cpp -o ../bin/t2g_hits
t2g_hits.cpp: In function 'int main(int, char**)':
t2g_hits.cpp:90:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=2; i < tokens.size(); i++) {
                      ~~^~~~~~~~~~~~~~~
g++ -DVERSION=1.0.8 -DARMA_64BIT_WORD -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -fopenmp -O3 uh.o sokal.o mmcollapse.cpp -o ../bin/mmcollapse -lgsl -lgslcblas -lboost_regex -lbam -lboost_iostreams -llapack -lblas -lgfortran -Wl,--as-needed -lz -larmadillo
hitsio.cpp: In member function 'void HitsfileWriter::writeHeaderSchema0()':
hitsio.cpp:163:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < transcriptName.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function 'void HitsfileWriter::writeReadMapRecordSchema0()':
hitsio.cpp:184:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < currentReadTranscripts.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function 'void HitsfileWriter::writeHeaderSchema1()':
hitsio.cpp:24:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  if (VAL > numeric_limits<uint32_t>::max()) { \
          ^
hitsio.cpp:191:2: note: in expansion of macro 'WRITE_UINT'
  WRITE_UINT(ofs, hitsfileSchema);
  ^
hitsio.cpp:193:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < transcriptName.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp:24:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  if (VAL > numeric_limits<uint32_t>::max()) { \
hitsio.cpp:196:3: note: in expansion of macro 'WRITE_UINT'
   WRITE_UINT(ofs, transcriptTrueLength[transcriptName[i] ])
   ^
hitsio.cpp: In member function 'void HitsfileWriter::writeReadMapRecordSchema1()':
hitsio.cpp:236:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < currentReadTranscripts.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function 'void HitsfileReader::readHeaderSchema1(std::vector<std::__cxx11::basic_string<char> >*, std::map<std::__cxx11::basic_string<char>, double>*, std::map<std::__cxx11::basic_string<char>, int>*, std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >*, std::vector<std::vector<std::__cxx11::basic_string<char> > >*)':
hitsio.cpp:356:9: warning: unused variable 'nextStrLen' [-Wunused-variable]
  size_t nextStrLen;
         ^~~~~~~~~~
mmcollapse.cpp: In function 'void get_unidentifiable_transcripts(std::__cxx11::string, std::vector<std::__cxx11::basic_string<char> >&, std::vector<std::__cxx11::basic_string<char> >&, std::vector<std::__cxx11::basic_string<char> >&, std::map<std::__cxx11::basic_string<char>, std::map<std::__cxx11::basic_string<char>, double> >&, std::map<std::__cxx11::basic_string<char>, std::map<std::__cxx11::basic_string<char>, double> >&, std::map<std::__cxx11::basic_string<char>, std::map<std::__cxx11::basic_string<char>, double> >&, std::map<std::__cxx11::basic_string<char>, int>&, std::vector<std::__cxx11::basic_string<char> >&, std::map<std::__cxx11::basic_string<char>, bool>&)':
mmcollapse.cpp:156:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < tokens.size(); i++) {
                ~~^~~~~~~~~~~~~~~
mmcollapse.cpp:211:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < tokens2.size(); i++) isIdent[tokens2[i]]=1;
                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:214:26: warning: 'static eT arma::Math<eT>::inf() [with eT = double]' is deprecated [-Wdeprecated-declarations]
       sd.push_back(math::inf());
                          ^~~
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:62:29: note: declared here
   arma_deprecated static eT inf()       { return priv::Datum_helper::inf<eT>(); }  // use datum::inf instead
                             ^~~
mmcollapse.cpp:214:30: warning: 'static eT arma::Math<eT>::inf() [with eT = double]' is deprecated [-Wdeprecated-declarations]
       sd.push_back(math::inf());
                              ^
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:62:29: note: declared here
   arma_deprecated static eT inf()       { return priv::Datum_helper::inf<eT>(); }  // use datum::inf instead
                             ^~~
mmcollapse.cpp:215:28: warning: 'static eT arma::Math<eT>::inf() [with eT = double]' is deprecated [-Wdeprecated-declarations]
       iact.push_back(math::inf());
                            ^~~
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:62:29: note: declared here
   arma_deprecated static eT inf()       { return priv::Datum_helper::inf<eT>(); }  // use datum::inf instead
                             ^~~
mmcollapse.cpp:215:32: warning: 'static eT arma::Math<eT>::inf() [with eT = double]' is deprecated [-Wdeprecated-declarations]
       iact.push_back(math::inf());
                                ^
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:62:29: note: declared here
   arma_deprecated static eT inf()       { return priv::Datum_helper::inf<eT>(); }  // use datum::inf instead
                             ^~~
mmcollapse.cpp:257:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < tokens.size(); i++) {
                ~~^~~~~~~~~~~~~~~
mmcollapse.cpp:317:28: warning: 'static eT arma::Math<eT>::inf() [with eT = double]' is deprecated [-Wdeprecated-declarations]
         sd.push_back(math::inf());
                            ^~~
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:62:29: note: declared here
   arma_deprecated static eT inf()       { return priv::Datum_helper::inf<eT>(); }  // use datum::inf instead
                             ^~~
mmcollapse.cpp:317:32: warning: 'static eT arma::Math<eT>::inf() [with eT = double]' is deprecated [-Wdeprecated-declarations]
         sd.push_back(math::inf());
                                ^
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:62:29: note: declared here
   arma_deprecated static eT inf()       { return priv::Datum_helper::inf<eT>(); }  // use datum::inf instead
                             ^~~
mmcollapse.cpp:318:30: warning: 'static eT arma::Math<eT>::inf() [with eT = double]' is deprecated [-Wdeprecated-declarations]
         iact.push_back(math::inf());
                              ^~~
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:62:29: note: declared here
   arma_deprecated static eT inf()       { return priv::Datum_helper::inf<eT>(); }  // use datum::inf instead
                             ^~~
mmcollapse.cpp:318:34: warning: 'static eT arma::Math<eT>::inf() [with eT = double]' is deprecated [-Wdeprecated-declarations]
         iact.push_back(math::inf());
                                  ^
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:62:29: note: declared here
   arma_deprecated static eT inf()       { return priv::Datum_helper::inf<eT>(); }  // use datum::inf instead
                             ^~~
mmcollapse.cpp: In function 'void collapse(arma::cube&, std::vector<std::__cxx11::basic_string<char> >&, std::map<std::__cxx11::basic_string<char>, int>&, std::vector<int, std::allocator<int> >)':
mmcollapse.cpp:398:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int s=0; s < R.n_slices; s++) {
                ~~^~~~~~~~~~~~
mmcollapse.cpp:399:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=0; t < candidates.size(); t++) {
                  ~~^~~~~~~~~~~~~~~~~~~
mmcollapse.cpp:400:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int j=1; j < indexes.size(); j++) {
                    ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:412:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=1; j < indexes.size(); j++) {
                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:415:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < R.n_cols; i++) {
                    ~~^~~~~~~~~~
mmcollapse.cpp:416:33: warning: 'static eT arma::Math<eT>::nan() [with eT = double]' is deprecated [-Wdeprecated-declarations]
         R(indexes[j],i,s)=math::nan();
                                 ^~~
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:59:29: note: declared here
   arma_deprecated static eT nan()       { return priv::Datum_helper::nan<eT>(); }  // use datum::nan instead
                             ^~~
mmcollapse.cpp:416:37: warning: 'static eT arma::Math<eT>::nan() [with eT = double]' is deprecated [-Wdeprecated-declarations]
         R(indexes[j],i,s)=math::nan();
                                     ^
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:59:29: note: declared here
   arma_deprecated static eT nan()       { return priv::Datum_helper::nan<eT>(); }  // use datum::nan instead
                             ^~~
mmcollapse.cpp:417:33: warning: 'static eT arma::Math<eT>::nan() [with eT = double]' is deprecated [-Wdeprecated-declarations]
         R(i,indexes[j],s)=math::nan();
                                 ^~~
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:59:29: note: declared here
   arma_deprecated static eT nan()       { return priv::Datum_helper::nan<eT>(); }  // use datum::nan instead
                             ^~~
mmcollapse.cpp:417:37: warning: 'static eT arma::Math<eT>::nan() [with eT = double]' is deprecated [-Wdeprecated-declarations]
         R(i,indexes[j],s)=math::nan();
                                     ^
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:59:29: note: declared here
   arma_deprecated static eT nan()       { return priv::Datum_helper::nan<eT>(); }  // use datum::nan instead
                             ^~~
mmcollapse.cpp:424:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < indexes.size(); i++) {
                ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:429:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=1; i < tset.size(); i++) {
                ~~^~~~~~~~~~~~~
mmcollapse.cpp:435:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=1; i < indexes.size(); i++) {
                ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp: In function 'std::map<int, int> join_traces(arma::mat&, std::vector<std::__cxx11::basic_string<char> >&, std::vector<std::__cxx11::basic_string<char> >)':
mmcollapse.cpp:443:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int t=0; t < allnames.size(); t++) tmap[allnames[t]]=t;
                ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:450:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int c=0; c < candidates.size(); c++) {
                ~~^~~~~~~~~~~~~~~~~~~
mmcollapse.cpp:454:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=0; t < tokens.size(); t++) {
                  ~~^~~~~~~~~~~~~~~
mmcollapse.cpp:462:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=1; t < indexes.size(); t++) {
                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:467:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=1; t < indexes.size(); t++) {
                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:474:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < toshed.size(); i++) {
                ~~^~~~~~~~~~~~~~~
mmcollapse.cpp: In function 'void mean_corrs(const cube&, const umat&, arma::mat&, arma::mat&, std::vector<int, std::allocator<int> >, std::vector<int, std::allocator<int> >, double)':
mmcollapse.cpp:484:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int v= 0; v < R.n_rows; v++) {
                   ~~^~~~~~~~~~
mmcollapse.cpp:490:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < u.size(); i++) {
                    ~~^~~~~~~~~~
mmcollapse.cpp: In function 'void get_corrs(arma::cube&, arma::mat&, const std::vector<std::__cxx11::basic_string<char> >&, std::map<std::__cxx11::basic_string<char>, int>&)':
mmcollapse.cpp:517:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int s=0; s < basenames.size(); s++) {
                ~~^~~~~~~~~~~~~~~~~~
mmcollapse.cpp:541:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int t=0; t < tokens.size(); t++) {
                      ~~^~~~~~~~~~~~~~~
mmcollapse.cpp:544:60: warning: 'static eT arma::Math<eT>::nan() [with eT = double]' is deprecated [-Wdeprecated-declarations]
             if(str=="NA") myM(i,cand2ind[tokens[t]])=math::nan();
                                                            ^~~
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:59:29: note: declared here
   arma_deprecated static eT nan()       { return priv::Datum_helper::nan<eT>(); }  // use datum::nan instead
                             ^~~
mmcollapse.cpp:544:64: warning: 'static eT arma::Math<eT>::nan() [with eT = double]' is deprecated [-Wdeprecated-declarations]
             if(str=="NA") myM(i,cand2ind[tokens[t]])=math::nan();
                                                                ^
In file included from /usr/include/armadillo:115:0,
                 from mmcollapse.cpp:28:
/usr/include/armadillo_bits/constants_old.hpp:59:29: note: declared here
   arma_deprecated static eT nan()       { return priv::Datum_helper::nan<eT>(); }  // use datum::nan instead
                             ^~~
mmcollapse.cpp: In function 'int main(int, char**)':
mmcollapse.cpp:628:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=1; i < basenames.size(); i++) {
                ~~^~~~~~~~~~~~~~~~~~
mmcollapse.cpp:687:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int s=0; s < basenames.size(); s++) {
                ~~^~~~~~~~~~~~~~~~~~
mmcollapse.cpp:703:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < candidates.size(); i++) ts.push_back(i);
                ~~^~~~~~~~~~~~~~~~~~~
mmcollapse.cpp:728:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0 ;i < maxcorrs.size(); i++) {
                  ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:734:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0 ;i < mincorrs.size(); i++) {
                  ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:798:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0 ;i < maxcorrs.size(); i++) {
                      ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:804:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0 ;i < mincorrs.size(); i++) {
                      ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:823:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int s=0; s < basenames.size(); s++) {
                ~~^~~~~~~~~~~~~~~~~~
mmcollapse.cpp:848:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int t=0; t < tokens.size(); t++) {
                    ~~^~~~~~~~~~~~~~~
mmcollapse.cpp:878:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int t=0; t < tokens2.size(); t++) {
                    ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:930:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=0; t < M.n_cols; t++) {
                  ~~^~~~~~~~~~
mmcollapse.cpp:959:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=1; i < tokens2.size(); i++) {
                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:972:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(MM.size1() < i+1 ) factor1=2;
          ~~~~~~~~~~~^~~~~
mmcollapse.cpp:973:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(MM.size2() < j+1 ) factor2=2;
          ~~~~~~~~~~~^~~~~
mmcollapse.cpp:1006:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=0; t < ids.size(); t++) {
                  ~~^~~~~~~~~~~~
mmcollapse.cpp:1079:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < ids.size(); i++) {
                  ~~^~~~~~~~~~~~
mmcollapse.cpp:1088:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int v = 0; v < M.n_cols; v++) {
                    ~~^~~~~~~~~~
mmcollapse.cpp:836:9: warning: unused variable 'isident' [-Wunused-variable]
     int isident=0;
         ^~~~~~~
hitsio.cpp: In member function 'bool HitsfileReader::readReadMapRecordTranscriptID(std::__cxx11::string&)':
hitsio.cpp:447:1: warning: control reaches end of non-void function [-Wreturn-type]
 }
 ^
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -fopenmp -O2 bms.cpp bms.hpp -c bms.cpp
bms.cpp: In member function 'arma::Col<int> BMS::m2v(arma::Mat<double>)':
bms.cpp:37:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P.n_cols; i++) {
                ~~^~~~~~~~~~
bms.cpp:38:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < P.n_rows; j++) {
                  ~~^~~~~~~~~~
bms.cpp: In member function 'std::vector<double> BMS::meanvar(arma::Col<double>)':
bms.cpp:77:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0;i < v.n_elem; i++) {
               ~~^~~~~~~~~~
bms.cpp: In member function 'void BMS::print(bool)':
bms.cpp:94:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int feature=0; feature < y->n_rows; feature++) {
                      ~~~~~~~~^~~~~~~~~~~
bms.cpp:98:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < M.n_cols; i++) {
                    ~~^~~~~~~~~~
bms.cpp:103:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < P[model].n_cols; l++) {
                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::printtune(int)':
bms.cpp:133:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int feature=0; feature < y->n_rows; feature++) {
                      ~~~~~~~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_alpha()':
bms.cpp:186:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y->n_rows; j++) {
                  ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_beta()':
bms.cpp:254:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp:256:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int b=0; b < M.n_cols; b++) {
                    ~~^~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_eta()':
bms.cpp:333:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp:335:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int c=0; c < P[model].n_cols; c++) {
                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_sigmasq()':
bms.cpp:416:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_lambda()':
bms.cpp:505:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp:507:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < P[model].n_cols; l++) {
                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_rho()':
bms.cpp:560:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y->n_rows; j++) {
                  ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::copy_pseudo()':
bms.cpp:583:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp:586:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int c=0; c < P[0].n_cols; c++) {
                  ~~^~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_alpha(int, int, bool)':
bms.cpp:604:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y->n_cols; j++) {
                  ~~^~~~~~~~~~~
bms.cpp:611:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_beta(int, int, bool)':
bms.cpp:632:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y->n_cols; j++) {
                  ~~^~~~~~~~~~~
bms.cpp:639:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < M.n_cols; i++) {
                  ~~^~~~~~~~~~
bms.cpp:647:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < M.n_cols; i++) {
                  ~~^~~~~~~~~~
bms.cpp:652:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < M.n_cols; i++) {
                  ~~^~~~~~~~~~
bms.cpp: In member function 'void BMS::update_eta(int, int, bool)':
bms.cpp:668:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:670:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < y->n_cols; i++) {
                    ~~^~~~~~~~~~~
bms.cpp:674:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:680:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:682:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < y->n_cols; i++) {
                    ~~^~~~~~~~~~~
bms.cpp:688:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:692:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:697:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_lambda(int, int, bool)':
bms.cpp:710:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:715:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:722:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_sigmasq(int, int, bool, bool)':
bms.cpp:740:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp:751:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp:762:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0; i < y->n_cols; i++) {
                      ~~^~~~~~~~~~~
bms.cpp:774:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0; i < y->n_cols; i++) {
                      ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_sigmasq_RW(int, int, bool, bool)':
bms.cpp:888:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp: In member function 'double BMS::log_target_posterior(int, int)':
bms.cpp:942:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < y->n_cols; i++) {
                ~~^~~~~~~~~~~
bms.cpp:951:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < M.n_cols; j++) {
                  ~~^~~~~~~~~~
bms.cpp:958:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'double BMS::log_target_pseudo(int, int)':
bms.cpp:979:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < M.n_cols; l++) {
                  ~~^~~~~~~~~~
bms.cpp:985:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::print_pseudo()':
bms.cpp:1094:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < M.n_cols; l++) {
                  ~~^~~~~~~~~~
bms.cpp:1097:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:1108:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < y->n_rows; i++) {
                ~~^~~~~~~~~~~
bms.cpp:1111:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < M.n_cols; l++) {
                    ~~^~~~~~~~~~
bms.cpp:1114:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < P[model].n_cols; l++) {
                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In constructor 'BMS::BMS(const arma::Mat<double>*, const arma::Mat<double>&, arma::Mat<double>, arma::Mat<double>, arma::Mat<double>, arma::Mat<int>, double, double, double, std::__cxx11::string, gsl_rng**, int, bool)':
bms.cpp:1196:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp:1200:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         if(C(i,model)+1 > _n.size()) {
            ~~~~~~~~~~~~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::initialise_streams(std::__cxx11::string)':
bms.cpp:1356:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < M.n_cols; i++) {
                ~~^~~~~~~~~~
bms.cpp:1362:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < M.n_cols; i++) {
                ~~^~~~~~~~~~
bms.cpp:1368:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P[0].n_cols; i++) {
                ~~^~~~~~~~~~~~~
bms.cpp:1374:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P[1].n_cols; i++) {
                ~~^~~~~~~~~~~~~
bms.cpp:1380:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P[0].n_cols; i++) {
                ~~^~~~~~~~~~~~~
bms.cpp:1386:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P[1].n_cols; i++) {
                ~~^~~~~~~~~~~~~
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -fopenmp -O3 sokal.o uh.o hitsio.o mmseq.cpp -o ../bin/mmseq -lgsl -lgslcblas -lboost_regex -lbam -lboost_iostreams -llapack -lblas -lgfortran -Wl,--as-needed -lz -larmadillo
mmseq.cpp: In function 'std::vector<double> meanvar(std::vector<double>, double, double)':
mmseq.cpp:129:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0;i < v.size(); i++) {
               ~~^~~~~~~~~~
mmseq.cpp: In function 'int main(int, char**)':
mmseq.cpp:243:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < tokens.size(); i++) {
                    ~~^~~~~~~~~~~~~~~
mmseq.cpp:422:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(M.size1() < m ) factor1=2;
          ~~~~~~~~~~^~~
mmseq.cpp:423:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(M.size2() < n ) factor2=2;
          ~~~~~~~~~~^~~
mmseq.cpp:593:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned t=0; t < n; t++)  {
                     ~~^~~
mmseq.cpp:735:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(unsigned t=0; t < n; t++)
                       ~~^~~
mmseq.cpp:764:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(unsigned t=0; t < n; t++)
                         ~~^~~
mmseq.cpp:773:11: warning: unused variable 'threadid' [-Wunused-variable]
       int threadid=OMP_GET_THREAD_NUM;
           ^~~~~~~~
mmseq.cpp:828:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned t=0; t < n; t++)
                     ~~^~~
mmseq.cpp:911:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(unsigned t=0; t < n; t++) {
                         ~~^~~
mmseq.cpp:939:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < identical_transcripts.size() * trace_length; i++) mu_trace_identical[i]=0;
                ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:960:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < gene2transcripts.size() * trace_length; i++) mu_trace_gene[i]=0;
                ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1097:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned t=0; t < n; t++) gofs << indexSid[t] << " ";
                     ~~^~~
mmseq.cpp:1111:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < percentiles.size(); i++) {
                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1135:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < percentiles.size(); j++) {
                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1143:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < percentiles.size(); j++) {
                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1148:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0;i < identical_transcripts.size(); i++) {
               ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1155:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < percentiles.size(); j++) {
                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1160:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0;i < gene2transcripts.size(); i++) {
               ~~^~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1167:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < percentiles.size(); j++) {
                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1178:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < percentiles.size(); j++) {
                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1188:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < percentiles.size(); j++) {
                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1207:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=0; t < identical_transcripts.size() ; t++) {
                  ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1211:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=0; t < gene2transcripts.size(); t++){
                  ~~^~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1225:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < identical_transcripts.size() ; i++) meanmu_identical[i] /= trace_length;
                ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1226:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < gene2transcripts.size(); i++) meanmu_gene[i]/= trace_length;
                ~~^~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1329:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int t=0; t < identical_transcripts.size(); t++) {
                ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1348:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int g=0; g < gene2transcripts.size(); g++) {
                ~~^~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1472:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < percentiles.size(); i++) {
                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1474:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if(i==percentiles.size()-1) {
        ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1481:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < percentiles.size(); i++) {
                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1483:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if(i==percentiles.size()-1) {
        ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1505:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < percentiles.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1507:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         if(i==percentiles.size()-1) {
            ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1513:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < percentiles.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1515:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         if(i==percentiles.size()-1) {
            ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1535:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < percentiles.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1537:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         if(i==percentiles.size()-1) {
            ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1543:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < percentiles.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1545:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         if(i==percentiles.size()-1) {
            ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1559:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < percentiles.size(); i++) {
                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1561:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if(i==percentiles.size()-1) {
        ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1581:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0; i < percentiles.size(); i++) {
                      ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1583:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
           if(i==percentiles.size()-1) {
              ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1598:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0; i < percentiles.size(); i++) {
                      ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1600:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
           if(i==percentiles.size()-1) {
              ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1618:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < percentiles.size(); i++) {
                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1620:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if(i==percentiles.size()-1) {
        ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1643:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0; i < percentiles.size(); i++) {
                      ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1645:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
           if(i==percentiles.size()-1) {
              ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1655:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0; i < percentiles.size(); i++) {
                      ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1657:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
           if(i==percentiles.size()-1) {
              ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:307:8: warning: unused variable 'buf16384' [-Wunused-variable]
   char buf16384[16384];
        ^~~~~~~~
mmseq.cpp:390:8: warning: variable 'doublehit' set but not used [-Wunused-but-set-variable]
   bool doublehit;
        ^~~~~~~~~
bms.cpp: In member function 'arma::Col<int> BMS::m2v(arma::Mat<double>)':
bms.cpp:37:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P.n_cols; i++) {
                ~~^~~~~~~~~~
bms.cpp:38:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < P.n_rows; j++) {
                  ~~^~~~~~~~~~
bms.cpp: In member function 'std::vector<double> BMS::meanvar(arma::Col<double>)':
bms.cpp:77:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0;i < v.n_elem; i++) {
               ~~^~~~~~~~~~
bms.cpp: In member function 'void BMS::print(bool)':
bms.cpp:94:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int feature=0; feature < y->n_rows; feature++) {
                      ~~~~~~~~^~~~~~~~~~~
bms.cpp:98:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < M.n_cols; i++) {
                    ~~^~~~~~~~~~
bms.cpp:103:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < P[model].n_cols; l++) {
                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::printtune(int)':
bms.cpp:133:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int feature=0; feature < y->n_rows; feature++) {
                      ~~~~~~~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_alpha()':
bms.cpp:186:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y->n_rows; j++) {
                  ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_beta()':
bms.cpp:254:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp:256:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int b=0; b < M.n_cols; b++) {
                    ~~^~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_eta()':
bms.cpp:333:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp:335:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int c=0; c < P[model].n_cols; c++) {
                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_sigmasq()':
bms.cpp:416:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_lambda()':
bms.cpp:505:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp:507:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < P[model].n_cols; l++) {
                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::set_pseudoprior_rho()':
bms.cpp:560:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y->n_rows; j++) {
                  ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::copy_pseudo()':
bms.cpp:583:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < y->n_rows; j++) {
                ~~^~~~~~~~~~~
bms.cpp:586:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int c=0; c < P[0].n_cols; c++) {
                  ~~^~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_alpha(int, int, bool)':
bms.cpp:604:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y->n_cols; j++) {
                  ~~^~~~~~~~~~~
bms.cpp:611:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_beta(int, int, bool)':
bms.cpp:632:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y->n_cols; j++) {
                  ~~^~~~~~~~~~~
bms.cpp:639:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < M.n_cols; i++) {
                  ~~^~~~~~~~~~
bms.cpp:647:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < M.n_cols; i++) {
                  ~~^~~~~~~~~~
bms.cpp:652:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < M.n_cols; i++) {
                  ~~^~~~~~~~~~
bms.cpp: In member function 'void BMS::update_eta(int, int, bool)':
bms.cpp:668:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:670:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < y->n_cols; i++) {
                    ~~^~~~~~~~~~~
bms.cpp:674:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:680:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:682:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < y->n_cols; i++) {
                    ~~^~~~~~~~~~~
bms.cpp:688:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:692:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:697:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_lambda(int, int, bool)':
bms.cpp:710:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:715:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:722:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_sigmasq(int, int, bool, bool)':
bms.cpp:740:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp:751:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp:762:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0; i < y->n_cols; i++) {
                      ~~^~~~~~~~~~~
bms.cpp:774:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int i=0; i < y->n_cols; i++) {
                      ~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::update_sigmasq_RW(int, int, bool, bool)':
bms.cpp:888:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp: In member function 'double BMS::log_target_posterior(int, int)':
bms.cpp:942:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < y->n_cols; i++) {
                ~~^~~~~~~~~~~
bms.cpp:951:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < M.n_cols; j++) {
                  ~~^~~~~~~~~~
bms.cpp:958:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'double BMS::log_target_pseudo(int, int)':
bms.cpp:979:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < M.n_cols; l++) {
                  ~~^~~~~~~~~~
bms.cpp:985:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function 'void BMS::print_pseudo()':
bms.cpp:1094:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < M.n_cols; l++) {
                  ~~^~~~~~~~~~
bms.cpp:1097:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int l=0; l < P[model].n_cols; l++) {
                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:1108:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < y->n_rows; i++) {
                ~~^~~~~~~~~~~
bms.cpp:1111:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < M.n_cols; l++) {
                    ~~^~~~~~~~~~
bms.cpp:1114:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < P[model].n_cols; l++) {
                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In constructor 'BMS::BMS(const arma::Mat<double>*, const arma::Mat<double>&, arma::Mat<double>, arma::Mat<double>, arma::Mat<double>, arma::Mat<int>, double, double, double, std::__cxx11::string, gsl_rng**, int, bool)':
bms.cpp:1196:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y->n_cols; i++) {
                  ~~^~~~~~~~~~~
bms.cpp:1200:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         if(C(i,model)+1 > _n.size()) {
            ~~~~~~~~~~~~~^~~~~~~~~~~
bms.cpp: In member function 'void BMS::initialise_streams(std::__cxx11::string)':
bms.cpp:1356:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < M.n_cols; i++) {
                ~~^~~~~~~~~~
bms.cpp:1362:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < M.n_cols; i++) {
                ~~^~~~~~~~~~
bms.cpp:1368:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P[0].n_cols; i++) {
                ~~^~~~~~~~~~~~~
bms.cpp:1374:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P[1].n_cols; i++) {
                ~~^~~~~~~~~~~~~
bms.cpp:1380:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P[0].n_cols; i++) {
                ~~^~~~~~~~~~~~~
bms.cpp:1386:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < P[1].n_cols; i++) {
                ~~^~~~~~~~~~~~~
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -fopenmp -O3 fasta.o hitsio.o bam2hits.cpp -o ../bin/bam2hits -lgsl -lgslcblas -lboost_regex -lbam -lboost_iostreams -llapack -lblas -lgfortran -Wl,--as-needed -lz -larmadillo
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -O3 fasta.o extract_transcripts.cpp -o ../bin/extract_transcripts
extract_transcripts.cpp: In function 'int main(int, char**)':
extract_transcripts.cpp:121:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < tokens2.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~
extract_transcripts.cpp:168:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < tokens.size(); i++) {
                  ~~^~~~~~~~~~~~~~~
extract_transcripts.cpp:194:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < it->starts()->size(); i++) {
                    ~~^~~~~~~~~~~~~~~~~~~~~~
extract_transcripts.cpp:202:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       while(faline < stitch.size()) {
             ~~~~~~~^~~~~~~~~~~~~~~
extract_transcripts.cpp:108:7: warning: unused variable 'line' [-Wunused-variable]
   int line=0;
       ^~~~
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -fopenmp -O3 hitsio.o hitstools.cpp -o ../bin/hitstools -lgsl -lgslcblas -lboost_regex -lbam -lboost_iostreams -llapack -lblas -lgfortran -Wl,--as-needed -lz -larmadillo
bam2hits.cpp: In function 'void outputMergeHeaders(std::vector<FastaRecord>&, char, const char*, bool, HitsfileWriter&)':
bam2hits.cpp:109:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < sortedfastas.size()-1; i++) {
                ~~^~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:119:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int j=0; j < curSet.size()-1; j++) {
                    ~~^~~~~~~~~~~~~~~~~
bam2hits.cpp:137:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < curSet.size()-1; j++) {
                ~~^~~~~~~~~~~~~~~~~
bam2hits.cpp: In function 'std::vector<Alignment> repetitiveTranscriptFilter(std::vector<Alignment>&, int)':
bam2hits.cpp:218:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j < alns.size(); j++) {
                ~~^~~~~~~~~~~~~
bam2hits.cpp:219:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if(i < torem.size() && j==torem[i]) {
        ~~^~~~~~~~~~~~~~
bam2hits.cpp: In function 'int main(int, char**)':
bam2hits.cpp:518:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         if(_B != tg[0].size()-2) {
            ~~~^~~~~~~~~~~~~~~~~
bam2hits.cpp:520:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
           if(_A == tg[0].size()-2) {
              ~~~^~~~~~~~~~~~~~~~~
bam2hits.cpp:522:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
             if(_A != tg[1].size()-2) {
                ~~~^~~~~~~~~~~~~~~~~
bam2hits.cpp:558:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=1; i < tokens2.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~
bam2hits.cpp:608:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < fastas.size(); i++) {
                  ~~^~~~~~~~~~~~~~~
bam2hits.cpp:643:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0;i < fastas.size(); i++) transcriptCounts[i] /= (double)fastas[i].seq().size();
                 ~~^~~~~~~~~~~~~~~
bam2hits.cpp:657:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < fastas.size(); i++) {
                  ~~^~~~~~~~~~~~~~~
bam2hits.cpp:660:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int j =0; j < fastas[i].seq().size(); j++) {
                       ~~^~~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:661:44: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
           int tag = (j <= MSEQ_BEFORE || j >= fastas[i].seq().size()-MSEQ_AFTER) ? -2 : 0;
                                          ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:790:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int j=MSEQ_BEFORE + 1; j <= fastas[i].seq().length()-MSEQ_AFTER; j++) {
                                  ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:669:11: warning: unused variable 'binpath' [-Wunused-variable]
     char *binpath = strdup(argv[0]);
           ^~~~~~~
bam2hits.cpp:918:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=1; j < frequencies.size()-WINDOWFORISIZEMODE + 1; j++) {
                  ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:946:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < testIsizes.size(); i++) {
                  ~~^~~~~~~~~~~~~~~~~~~
bam2hits.cpp:957:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < heights.size(); i++) {
                  ~~^~~~~~~~~~~~~~~~
bam2hits.cpp:995:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int fl=1; fl <= (it->seq()).size(); fl++) {
                     ~~~^~~~~~~~~~~~~~~~~~~~~
hitstools.cpp: In function 'void convert(char*, std::__cxx11::string)':
hitstools.cpp:50:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i = 0; i < transcriptName.size(); i++) {
                 ~~^~~~~~~~~~~~~~~~~~~~~~~
hitstools.cpp: In function 'int main(int, char**)':
hitstools.cpp:95:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i = 0; i < transcriptName.size(); i++) {
                  ~~^~~~~~~~~~~~~~~~~~~~~~~
hitstools.cpp:135:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i = 0; i < transcriptName.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~~~~~~~~
g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -fasynchronous-unwind-tables -fopenmp -O2 bms.o mmdiff.cpp -o ../bin/mmdiff -lgsl -lgslcblas -lboost_regex -lbam -lboost_iostreams -llapack -lblas -lgfortran -Wl,--as-needed -lz -larmadillo
mmdiff.cpp: In function 'void parse_mmseq(std::vector<std::__cxx11::basic_string<char> >, std::vector<std::__cxx11::basic_string<char> >&, arma::Mat<double>&, arma::Mat<double>&, arma::Mat<double>&, int, int, double, bool)':
mmdiff.cpp:99:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < filenames.size(); i++) {
                ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:110:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < tokens.size(); j++) {
                  ~~^~~~~~~~~~~~~~~
mmdiff.cpp:137:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(k + 1 > features.size()) {
          ~~~~~~^~~~~~~~~~~~~~~~~
mmdiff.cpp:146:14: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(k+1 > y.n_rows) {
          ~~~~^~~~~~~~~~
mmdiff.cpp:151:20: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
       if(!useprops && tokens[lmg_ind]=="NA" || useprops && tokens[mp_ind]=="NA") {
          ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:172:62: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   if(range_start >=0 && range_end > range_start && range_end < y.n_rows) {
                                                    ~~~~~~~~~~^~~~~~~~~~
mmdiff.cpp:93:46: warning: variable 'mcse_ind' set but not used [-Wunused-but-set-variable]
   int feature_ind=-1, lmg_ind=-1, sd_ind=-1, mcse_ind=-1, iact_ind=-1, mp_ind=-1, sp_ind=-1, uh_ind=-1;
                                              ^~~~~~~~
mmdiff.cpp:93:59: warning: variable 'iact_ind' set but not used [-Wunused-but-set-variable]
   int feature_ind=-1, lmg_ind=-1, sd_ind=-1, mcse_ind=-1, iact_ind=-1, mp_ind=-1, sp_ind=-1, uh_ind=-1;
                                                           ^~~~~~~~
mmdiff.cpp: In function 'void apply_normalisation(std::vector<std::__cxx11::basic_string<char> >, arma::Mat<double>&, arma::Mat<double>&, double)':
mmdiff.cpp:211:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < uh.n_rows; i++) {
                ~~^~~~~~~~~~~
mmdiff.cpp:213:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < uh.n_cols; j++) {
                  ~~^~~~~~~~~~~
mmdiff.cpp:229:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < use.size(); i++) {
                ~~^~~~~~~~~~~~
mmdiff.cpp:231:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y.n_cols; j++) {
                  ~~^~~~~~~~~~
mmdiff.cpp:238:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int sample=0; sample < y.n_cols; sample++) {
                     ~~~~~~~^~~~~~~~~~
mmdiff.cpp:240:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < use.size(); i++) {
                  ~~^~~~~~~~~~~~
mmdiff.cpp:245:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < y.n_rows; i++) {
                  ~~^~~~~~~~~~
mmdiff.cpp: In function 'void apply_permutation(arma::Mat<double>&, arma::Mat<double>&)':
mmdiff.cpp:256:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0; j< y.n_cols; j++) randinds.push_back(j);
                ~^~~~~~~~~~
mmdiff.cpp:257:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < y.n_rows; i++) {
                ~~^~~~~~~~~~
mmdiff.cpp:259:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int j=0; j < y.n_cols; j++) {
                  ~~^~~~~~~~~~
mmdiff.cpp: In function 'void parse_matrices(std::__cxx11::string, arma::Mat<double>&, arma::Mat<double>&, arma::Mat<double>&, arma::Mat<int>&, int)':
mmdiff.cpp:309:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int t=0; t < tokens.size(); t++) {
                  ~~^~~~~~~~~~~~~~~
mmdiff.cpp: In function 'int main(int, char**)':
mmdiff.cpp:419:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < arguments.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:430:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int i=0; i < arguments.size(); i++) {
                    ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:438:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       while(ss < arguments.size()) {
             ~~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:450:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(ss != arguments.size()) {
          ~~~^~~~~~~~~~~~~~~~~~~
mmdiff.cpp:577:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0; i < arguments.size(); i++) {
                ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:639:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int i=0; i < simple_de.size(); i++) {
                  ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:758:17: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
     if(inburnin && iter == OUTLEN/10 || !inburnin && iter==tuneiters) {
        ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:763:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int feature=0; feature < features.size(); feature++) {
                        ~~~~~~~~^~~~~~~~~~~~~~~~~
mmdiff.cpp:836:17: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
     if(inburnin && iter % subsample_burnin ==0 || !inburnin && iter >= tuneiters && (iter - tuneiters) % subsample_iter == 0) {
        ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:885:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int l=0; l < M.n_cols; l++) {
                    ~~^~~~~~~~~~
mmdiff.cpp:897:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int f=0; f < samplenames.size(); f++) {
                ~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:901:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       found2 = found2==string::npos ? -1 : found2;
                ~~~~~~^~~~~~~~
mmdiff.cpp:906:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int f=0; f < samplenames.size(); f++) {
                ~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:908:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if(f < samplenames.size()-1) cout << "\t";
        ~~^~~~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:913:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int feature=0; feature < features.size(); feature++) {
                      ~~~~~~~~^~~~~~~~~~~~~~~~~
mmdiff.cpp:924:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for(int l=0; l < M.n_cols; l++) {
                      ~~^~~~~~~~~~
mmdiff.cpp:934:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int f=0; f < samplenames.size(); f++) {
                  ~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:937:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(int f=0; f < samplenames.size(); f++) {
                  ~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:939:12: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       if(f < samplenames.size()-1) cout << "\t";
          ~~^~~~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:949:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for(int feature=0; feature < features.size(); feature++) {
                          ~~~~~~~~^~~~~~~~~~~~~~~~~
/tmp/cclusOyC.o: In function `main':
/builddir/build/BUILD/mmseq-1.0.8a/src/bam2hits.cpp:651: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.ZZbhBD
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386
++ dirname /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386
+ cd mmseq-1.0.8a
+ rm -rf /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386
+ mkdir -p /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/bam2hits /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/extract_transcripts /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/hitstools /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/mmcollapse /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/mmdiff /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/mmseq /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/offsetGTF /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/t2g_hits /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/fastagrep.sh bin/mouse_strain_transcriptome.sh bin/usage.sh /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/filterGTF.rb bin/haploref.rb bin/testregexp.rb /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ install -p -m 0755 bin/ensembl_gtf_to_gff.pl /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin
+ /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m --build-id-seed 1.0.8a-19.fc27 --unique-debug-suffix -1.0.8a-19.fc27.i386 --unique-debug-src-base mmseq-1.0.8a-19.fc27.i386 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 /builddir/build/BUILD/mmseq-1.0.8a
extracting debug info from /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin/t2g_hits
extracting debug info from /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin/offsetGTF
extracting debug info from /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin/mmseq
extracting debug info from /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin/mmdiff
extracting debug info from /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin/mmcollapse
extracting debug info from /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin/hitstools
extracting debug info from /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin/extract_transcripts
extracting debug info from /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/bin/bam2hits
/usr/lib/rpm/sepdebugcrcfix: Updated 8 CRC32s, 0 CRC32s did match.
525 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1
+ /usr/lib/rpm/brp-python-hardlink
Processing files: mmseq-1.0.8a-19.fc27.i686
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.u082iz
+ umask 022
+ cd /builddir/build/BUILD
+ cd mmseq-1.0.8a
+ DOCDIR=/builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/share/doc/mmseq
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/share/doc/mmseq
+ cp -pr README.md /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/share/doc/mmseq
+ cp -pr COPYING /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/share/doc/mmseq
+ cp -pr doc/ /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386/usr/share/doc/mmseq
+ exit 0
Provides: mmseq = 1.0.8a-19.fc27 mmseq(x86-32) = 1.0.8a-19.fc27
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /bin/bash /bin/sh /usr/bin/env libarmadillo.so.7 libbam.so.1 libblas.so.3 libboost_iostreams.so.1.63.0 libboost_regex.so.1.63.0 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_2.2) libc.so.6(GLIBC_2.3) libc.so.6(GLIBC_2.3.4) libc.so.6(GLIBC_2.4) libgcc_s.so.1 libgcc_s.so.1(GCC_3.0) libgfortran.so.4 libgomp.so.1 libgomp.so.1(GOMP_1.0) libgomp.so.1(GOMP_4.0) libgomp.so.1(OMP_1.0) libgsl.so.23 libgslcblas.so.0 liblapack.so.3 libm.so.6 libm.so.6(GLIBC_2.0) libm.so.6(GLIBC_2.1) libstdc++.so.6 libstdc++.so.6(CXXABI_1.3) libstdc++.so.6(CXXABI_1.3.8) libstdc++.so.6(CXXABI_1.3.9) libstdc++.so.6(GLIBCXX_3.4) libstdc++.so.6(GLIBCXX_3.4.11) libstdc++.so.6(GLIBCXX_3.4.15) libstdc++.so.6(GLIBCXX_3.4.20) libstdc++.so.6(GLIBCXX_3.4.21) libstdc++.so.6(GLIBCXX_3.4.9) perl(strict) rtld(GNU_HASH)
Processing files: mmseq-debuginfo-1.0.8a-19.fc27.i686
Provides: debuginfo(build-id) = 0f0aa124eb8e3626277bb845a42d998ea8254dbc debuginfo(build-id) = 67180d5970361ba0890f96cc32161c61dc5e4fee debuginfo(build-id) = 6d71e04fdba4e1360a7e19ad454f6b6004a0ad51 debuginfo(build-id) = 8d547f00aac334dacafa762655f4d88a72ac063c debuginfo(build-id) = b5cc0196a5a58596f240cb586b4e288d2eaa6298 debuginfo(build-id) = b69620598651ef53b114d378655d46a9c54a02bf debuginfo(build-id) = dd14c41d7e7c95434975d08418b2edba44c07826 debuginfo(build-id) = ed38a2049ad1cfce87e7285c374bc1b489ad5d1a mmseq-debuginfo = 1.0.8a-19.fc27 mmseq-debuginfo(x86-32) = 1.0.8a-19.fc27
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386
Wrote: /builddir/build/RPMS/mmseq-1.0.8a-19.fc27.i686.rpm
Wrote: /builddir/build/RPMS/mmseq-debuginfo-1.0.8a-19.fc27.i686.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.3e2URz
+ umask 022
+ cd /builddir/build/BUILD
+ cd mmseq-1.0.8a
+ rm -rf /builddir/build/BUILDROOT/mmseq-1.0.8a-19.fc27.i386
+ exit 0
Finish: rpmbuild mmseq-1.0.8a-19.fc27.src.rpm
Finish: build phase for mmseq-1.0.8a-19.fc27.src.rpm
INFO: Done(intermediate-srpm/mmseq-1.0.8a-19.fc27.src.rpm) Config(child) 1 minutes 34 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