Mock Version: 1.2.15 ENTER do(['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/ncbi.spec'], logger=shell=FalseprintOutput=Falseenv={'TERM': 'vt100', 'LANG': 'en_US.UTF-8', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin'}uid=1001chrootPath='/var/lib/mock/epel-7-x86_64-mockbuilder-2465/root'timeout=0gid=135user='mockbuild') Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/ncbi.spec'] with env {'TERM': 'vt100', 'LANG': 'en_US.UTF-8', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin'} and shell False warning: Could not canonicalize hostname: copr-builder-553177227.novalocal Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/ncbi-6.1-4.29.src.rpm Child return code was: 0 LEAVE do --> ENTER do(['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/ncbi.spec '], logger=shell=FalseprintOutput=Falseprivate_network=Trueuid=1001chrootPath='/var/lib/mock/epel-7-x86_64-mockbuilder-2465/root'timeout=0gid=135env={'TERM': 'vt100', 'LANG': 'en_US.UTF-8', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin'}user='mockbuild') Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/ncbi.spec '] with env {'TERM': 'vt100', 'LANG': 'en_US.UTF-8', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin'} and shell False Building target platforms: x86_64 Building for target x86_64 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.a6xpc2 + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf ncbi-6.1 + /usr/bin/mkdir -p ncbi-6.1 + cd ncbi-6.1 + /usr/bin/tar -xf - + /usr/bin/gzip -dc /builddir/build/SOURCES/ncbi.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + echo 'Patch #0 (ncbi-6.1-link-to-shared-motif.patch):' Patch #0 (ncbi-6.1-link-to-shared-motif.patch): + /usr/bin/cat /builddir/build/SOURCES/ncbi-6.1-link-to-shared-motif.patch + /usr/bin/patch -p0 --fuzz=0 patching file ncbi/platform/linux64.ncbi.mk patching file ncbi/platform/linux.ncbi.mk Patch #1 (ncbi-6.1-optflags.patch): + echo 'Patch #1 (ncbi-6.1-optflags.patch):' + /usr/bin/patch -p0 --fuzz=0 + /usr/bin/cat /builddir/build/SOURCES/ncbi-6.1-optflags.patch patching file ncbi/platform/linux64.ncbi.mk patching file ncbi/platform/linux.ncbi.mk patching file ncbi/platform/linux-x86.ncbi.mk + echo 'Patch #2 (ncbi-6.1-strncat-overflow.patch):' Patch #2 (ncbi-6.1-strncat-overflow.patch): + /usr/bin/cat /builddir/build/SOURCES/ncbi-6.1-strncat-overflow.patch + /usr/bin/patch -p0 --fuzz=0 patching file ncbi/cdromlib/cdnewlib.c patching file ncbi/corelib/ncbierr.c patching file ncbi/corelib/ncbisgml.c Patch #3 (ncbi-6.1-math-meaning.patch): + echo 'Patch #3 (ncbi-6.1-math-meaning.patch):' + /usr/bin/cat /builddir/build/SOURCES/ncbi-6.1-math-meaning.patch + /usr/bin/patch -p0 --fuzz=0 patching file ncbi/tools/readdb.c Hunk #1 succeeded at 4888 (offset 12 lines). Patch #4 (ncbi-6.1-null-pointer.patch): + echo 'Patch #4 (ncbi-6.1-null-pointer.patch):' + /usr/bin/patch -p0 --fuzz=0 + /usr/bin/cat /builddir/build/SOURCES/ncbi-6.1-null-pointer.patch patching file ncbi/vibrant/vibslate.c Hunk #1 succeeded at 1512 (offset 10 lines). Hunk #2 succeeded at 1541 (offset 10 lines). Hunk #3 succeeded at 2154 (offset 10 lines). Hunk #4 succeeded at 2310 (offset 10 lines). Hunk #5 succeeded at 2356 (offset 10 lines). Patch #5 (ncbi-6.1-no-return.patch): + echo 'Patch #5 (ncbi-6.1-no-return.patch):' + /usr/bin/patch -p0 --fuzz=0 + /usr/bin/cat /builddir/build/SOURCES/ncbi-6.1-no-return.patch patching file ncbi/biostruc/cdd/thrdbwfi.c patching file ncbi/biostruc/cdd/thrdcpal.c patching file ncbi/biostruc/cdd/thrdcpll.c patching file ncbi/biostruc/cdd/thrdcprl.c patching file ncbi/biostruc/cdd/thrdcxei.c patching file ncbi/biostruc/cdd/thrdsalu.c patching file ncbi/biostruc/cdd/thrdsgoi.c patching file ncbi/biostruc/cdd/thrdslou.c patching file ncbi/biostruc/cdd/thrdspea.c patching file ncbi/biostruc/cdd/thrdspel.c patching file ncbi/biostruc/cdd/thrdspni.c patching file ncbi/biostruc/cdd/thrdttb0.c patching file ncbi/biostruc/cdd/thrdzsc.c patching file ncbi/tools/taxblast.c Patch #6 (ncbi-6.1-sequence-point.patch): + echo 'Patch #6 (ncbi-6.1-sequence-point.patch):' + /usr/bin/cat /builddir/build/SOURCES/ncbi-6.1-sequence-point.patch + /usr/bin/patch -p0 --fuzz=0 patching file ncbi/api/samutil.c + chmod -x ncbi/doc/blast/web_blast.pl + chmod -x ncbi/doc/fwd_check.sh + chmod -x ncbi/doc/fa2htgs/updateHtgsDoc + cd ncbi/network/wwwblast + rm wwwblast.log psiblast.log rpsblast.log + sed -i s:/usr/local/bin/perl:/usr/bin/perl: config_setup.pl + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.62Ahgr + umask 022 + cd /builddir/build/BUILD + cd ncbi-6.1 + export 'CFLAGS=-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic' + CFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic' + ./ncbi/make/makedis.csh lsb_release: Command not found. libs version is: ls: No match. the gcc version is: Using built-in specs. COLLECT_GCC=gcc COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/4.8.5/lto-wrapper Target: x86_64-redhat-linux Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-linker-build-id --with-linker-hash-style=gnu --enable-languages=c,c++,objc,obj-c++,java,fortran,ada,go,lto --enable-plugin --enable-initfini-array --disable-libgcj --with-isl=/builddir/build/BUILD/gcc-4.8.5-20150702/obj-x86_64-redhat-linux/isl-install --with-cloog=/builddir/build/BUILD/gcc-4.8.5-20150702/obj-x86_64-redhat-linux/cloog-install --enable-gnu-indirect-function --with-tune=generic --with-arch_32=x86-64 --build=x86_64-redhat-linux Thread model: posix gcc version 4.8.5 20150623 (Red Hat 4.8.5-4) (GCC) Motif found at /usr/include/Xm Warning: Motif version 1.2 is recommended OpenGL found at /usr/include/GL platform is linux Linux copr-builder-553177227.novalocal 4.2.5-300.fc23.x86_64 #1 SMP Tue Oct 27 04:29:56 UTC 2015 x86_64 x86_64 x86_64 GNU/Linux Disabling assert(). BLAST version is 2.2.26 make CFLAGS1="-DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c " LDFLAGS1="-O3" OTHERLIBS="-lm" SHELL="/bin/sh" LCL="lnx" RAN="ranlib" AR="ar" CC="gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE" LIB30=libncbicn3d.a LIB28=libvibgif.a LIB4=libvibrant.a LIB20=libncbidesk.a LIB45=libddvlib.a VIBFLAG="-I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF" VIBLIBS="-L/usr/X11R6/lib -lXmu -lXm -Wl,-Bdynamic -lXft -lfontconfig -ljpeg -lpng -lXt -lSM -lICE -lXext -lXp -lX11 -ldl" all chmod -R ug+rw,o+r . ../include ./ln-if-absent ../corelib/tsprintf.h ../include ./ln-if-absent ../corelib/gifgen.h ../include ./ln-if-absent ../corelib/ncbi*.h ../include ./ln-if-absent ../corelib/tree*.h ../include ./ln-if-absent ../corelib/regex.h ../include ./ln-if-absent ../corelib/matrix.h ../include ./ln-if-absent ../corelib/binary.h ../include ./ln-if-absent ../corelib/morefile/*.h ../include ./ln-if-absent ../corelib/morefile/*.c . ./ln-if-absent ../link/macmet/MoreCarbonAccessors.h ../include ./ln-if-absent ../corelib/ncbilcl.lnx ../include/ncbilcl.h ./ln-if-absent ../corelib/*.c . ./ln-if-absent ../corelib/core*.h . ./ln-if-absent ../asnlib/*.h . rm -f ../include/asn.h mv asn.h ../include ./ln-if-absent ../asnlib/*.c . ./ln-if-absent ../connect/*.c . ./ln-if-absent ../connect/ncbi_ansi_ext.h . ./ln-if-absent ../connect/ncbi_assert.h . ./ln-if-absent ../connect/ncbi_priv.h . ./ln-if-absent ../connect/ncbi_comm.h . ./ln-if-absent ../connect/ncbi_config.h . ./ln-if-absent ../connect/ncbi_connssl.h . ./ln-if-absent ../connect/ncbi_lbsm.h . make: [copy] Error 1 (ignored) ./ln-if-absent ../connect/ncbi_lbsm_ipc.h . make: [copy] Error 1 (ignored) ./ln-if-absent ../connect/ncbi_host_infop.h . ./ln-if-absent ../connect/ncbi_server_infop.h . ./ln-if-absent ../connect/ncbi_servicep.h . ./ln-if-absent ../connect/ncbi_socketp.h . ./ln-if-absent ../connect/ncbi_dispd.h . ./ln-if-absent ../connect/ncbi_lbsmd.h . ./ln-if-absent ../connect/ncbi_local.h . ./ln-if-absent ../connect/ncbi_lb.h . ./ln-if-absent ../connect/ncbi_version.h . ./ln-if-absent ../connect/ncbi_base64.h . ./ln-if-absent ../connect/urlquery.h ../include mkdir ../include/connect chmod ug+rw,o+r ../include/connect cp -fp ../connect/ncbi_*.h ../connect/connect_export.h ../include/connect ./ln-if-absent ../util/tables/*.c . mkdir -p ../include/util/tables cp -fp ../util/tables/*.h ../include/util/tables ./ln-if-absent ../util/creaders/*.c . mkdir -p ../include/util/creaders cp -fp ../util/creaders/*.h ../include/util/creaders ./ln-if-absent ../ctools/*.c . ./ln-if-absent ../ctools/*.h . mkdir ../include/ctools chmod ug+rw,o+r ../include/ctools cp -fp ../ctools/*.h ../include/ctools ./ln-if-absent ../object/*.c . ./ln-if-absent ../object/*.h ../include ./ln-if-absent ../access/*.c . ./ln-if-absent ../access/*.h ../include ./ln-if-absent ../asnstat/*.h ../include ./ln-if-absent ../api/*.h ../include ./ln-if-absent ../api/*.c . ./ln-if-absent ../api/*.inc . ./ln-if-absent ../cdromlib/*.h ../include ./ln-if-absent ../cdromlib/*.c . ./ln-if-absent ../vibrant/*.h ../include ./ln-if-absent ../vibrant/*.c . ./ln-if-absent ../desktop/*.h ../include ./ln-if-absent ../desktop/*.c . ./ln-if-absent ../biostruc/*.h ../include ./ln-if-absent ../biostruc/*.c . ./ln-if-absent ../biostruc/cdd/*.h ../include ./ln-if-absent ../biostruc/cdd/*.c . ./ln-if-absent ../biostruc/cn3d/*.h ../include ./ln-if-absent ../biostruc/cn3d/*.c . ./ln-if-absent ../tools/*.h ../include ./ln-if-absent ../tools/*.c . ./ln-if-absent ../cn3d/*.h ../include ./ln-if-absent ../cn3d/*.c . ./ln-if-absent ../gif/*.c . ./ln-if-absent ../gif/*.h ../include ./ln-if-absent ../ddv/*.h ../include ./ln-if-absent ../ddv/*.c . ./ln-if-absent ../regexp/*.c . ./ln-if-absent ../regexp/*.h ../include ./ln-if-absent ../internal/compr/*.c . set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/compr/*.h ../include set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libindx/*.c . set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libindx/*.h ../include set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libpars/*.c . set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libpars/*.h ../include set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ideogram/*.c . set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ideogram/*.dat . set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ideogram/ideochr*.h ../include set: No match. ./ln-if-absent ../internal/ideogram/ideoorgs.h . make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ccap/*.c . make: [copy] Error 1 (ignored) set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ccap/*.dat . set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ccap/*.h ../include set: No match. ./ln-if-absent ncbidraw.c ncbidrwg.c make: [copy] Error 1 (ignored) ./ln-if-absent ncbithr.c ncbithrs.c ./ln-if-absent ../network/nsclilib/*.h ../include ./ln-if-absent ../network/blast3/client/*.h ../include ./ln-if-absent ../network/id1arch/*.h ../include ./ln-if-absent ../network/id2arch/*.h ../include mkdir -p ../include/algo/blast/core ./ln-if-absent ../algo/blast/core/*.c . ./ln-if-absent ../algo/blast/core/*.h . ./ln-if-absent ../algo/blast/core/*.inl . cp -fp ../algo/blast/core/*.h ../include/algo/blast/core mkdir -p ../include/algo/blast/composition_adjustment ./ln-if-absent ../algo/blast/composition_adjustment/*.c . ./ln-if-absent ../algo/blast/composition_adjustment/*.h ../include cp -fp ../algo/blast/composition_adjustment/*.h \ ../include/algo/blast/composition_adjustment mkdir -p ../include/algo/blast/api ./ln-if-absent ../algo/blast/api/*.c . cp -fp ../algo/blast/api/*.h ../include/algo/blast/api chmod -R ug+rw,o+r . echo Waiting...go Waiting...go gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbithr.c ncbithr.c: In function 's_TlsDestroyAll': ncbithr.c:2529:11: warning: variable 'err_code' set but not used [-Wunused-but-set-variable] int err_code = 0; ^ cp -p ncbithr.o ../lib gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbimain.c ncbimain.c:81:1: warning: return type defaults to 'int' [-Wreturn-type] main(int argc, char *argv[]) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbibs.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF wwwutils.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbierr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbienv.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbifile.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbiprop.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbimath.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbimem.c ncbimem.c:181:0: warning: "__USE_BSD" redefined [enabled by default] # define __USE_BSD ^ In file included from /usr/include/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbimem.c:163: /usr/include/features.h:309:0: note: this is the location of the previous definition # define __USE_BSD 1 ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbimisc.c ncbimisc.c: In function 'MergeStringArray': ncbimisc.c:1269:22: warning: 'return' with no value, in function returning non-void [-Wreturn-type] if (rsult == NULL) return; ^ ncbimisc.c: In function 'Nlm_MD5Final': ncbimisc.c:2242:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] ((Nlm_Uint4Ptr) ctx->in)[14] = ctx->bits[0]; ^ ncbimisc.c:2243:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] ((Nlm_Uint4Ptr) ctx->in)[15] = ctx->bits[1]; ^ ncbimisc.c:2250:26: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to dereference it? [-Wsizeof-pointer-memaccess] memset(ctx, 0, sizeof(ctx)); /* In case it's sensitive */ ^ ncbimisc.c: In function 'XmlPathSuffixIs': ncbimisc.c:2947:58: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (StringHasNoText (parentFilter) || parent != NULL && StringICmp (parent->name, parentFilter) == 0) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbimsg.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbistr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbisgml.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbitime.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbilang.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asnbufo.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asndebin.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asnenbin.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asngen.c asngen.c: In function 'AsnFindNthPieceOfObject': asngen.c:540:16: warning: variable 'aeop' set but not used [-Wunused-but-set-variable] AsnExpOptPtr aeop; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asnio.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asnlex.c asnlex.c:1322:13: warning: 'AsnLexWordUTF8' defined but not used [-Wunused-function] static Int2 AsnLexWordUTF8 (AsnIoPtr aip) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asnlext.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asnout.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asnprint.c asnprint.c: In function 'GetXMLModuleName': asnprint.c:102:2: warning: statement with no effect [-Wunused-value] for (currmod; currmod != NULL; currmod = currmod->next) ^ asnprint.c: In function 'AsnPrintCloseStruct': asnprint.c:1771:7: warning: variable 'isa' set but not used [-Wunused-but-set-variable] Int2 isa; ^ asnprint.c: In function 'AsnPrintModuleXMLInc': asnprint.c:2092:10: warning: variable 'ptr' set but not used [-Wunused-but-set-variable] CharPtr ptr; ^ asnprint.c: In function 'AsnPrintTreeType': asnprint.c:2572:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] ptr = (Uint4)(atp); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asntypes.c asntypes.c: In function 'AsnTreeLoad': asntypes.c:1274:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %d %d", &numval, &numtype, &nummod); ^ asntypes.c:1288:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %s %ld %lf %d", &isa, name, &intvalue, &realvalue, &next); ^ asntypes.c:1301:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %s %d %d %d %d %d %d %d %d %d %d %d", ^ asntypes.c:1333:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%s %s %d %d", name, fname, &type, &next); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asngenob.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gifgen.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF togif.c togif.c: In function 'gdImageCreateFromGif': togif.c:961:12: warning: variable 'AspectRatio' set but not used [-Wunused-but-set-variable] int AspectRatio; ^ togif.c:960:12: warning: variable 'Background' set but not used [-Wunused-but-set-variable] int Background; ^ togif.c:959:12: warning: variable 'ColorResolution' set but not used [-Wunused-but-set-variable] int ColorResolution; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNCBI_NOTHREADS_AVAIL -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbithrs.c ncbithrs.c: In function 's_TlsDestroyAll': ncbithrs.c:2529:11: warning: unused variable 'err_code' [-Wunused-variable] int err_code = 0; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DHAVE_STRING_H -DREGEX_MALLOC regex.c regex.c:27:0: warning: "_GNU_SOURCE" redefined [enabled by default] #define _GNU_SOURCE ^ :0:0: note: this is the location of the previous definition regex.c: In function 're_match_2': regex.c:3762:31: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] if ((int) old_regend[r] >= (int) regstart[r]) ^ regex.c:3762:54: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] if ((int) old_regend[r] >= (int) regstart[r]) ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2509:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] high_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4074:13: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (sdummy, pdummy, ^ regex.c:2512:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] low_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4074:13: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (sdummy, pdummy, ^ regex.c:4071:25: warning: variable 'sdummy' set but not used [-Wunused-but-set-variable] const char *sdummy; ^ regex.c:4070:28: warning: variable 'pdummy' set but not used [-Wunused-but-set-variable] unsigned char *pdummy; ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2509:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] high_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4288:11: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (d, p, ^ regex.c:2512:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] low_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4288:11: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (d, p, ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF tsprintf.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbiargs.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF tree.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF matrix.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_socket.c ncbi_socket.c: In function 's_GetLocalPort': ncbi_socket.c:386:33: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] if (getsockname(fd, (struct sockaddr*) &sin, &sinlen) == 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/sys/socket.h:128:12: note: expected 'socklen_t * __restrict__' but argument is of type 'TSOCK_socklen_t *' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_IsConnected': ncbi_socket.c:2435:9: warning: pointer targets in passing argument 5 of 'getsockopt' differ in signedness [-Wpointer-sign] if (getsockopt(sock->sock, SOL_SOCKET, SO_ERROR, (void*) error, &len) ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/sys/socket.h:220:12: note: expected 'socklen_t * __restrict__' but argument is of type 'TSOCK_socklen_t *' extern int getsockopt (int __fd, int __level, int __optname, ^ ncbi_socket.c: In function 'TRIGGER_Create': ncbi_socket.c:4002:18: warning: unused variable 'x_id' [-Wunused-variable] unsigned int x_id = ++s_ID_Counter; ^ ncbi_socket.c: In function 's_CreateListening': ncbi_socket.c:4454:9: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] x_error = getsockname(x_lsock, &addr.sa, &addrlen) != 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/sys/socket.h:128:12: note: expected 'socklen_t * __restrict__' but argument is of type 'TSOCK_socklen_t *' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_Accept': ncbi_socket.c:4722:5: warning: pointer targets in passing argument 3 of 'accept' differ in signedness [-Wpointer-sign] if ((x_sock = accept(lsock->sock, &addr.sa, &addrlen)) == SOCK_INVALID) { ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/sys/socket.h:244:12: note: expected 'socklen_t * __restrict__' but argument is of type 'TSOCK_socklen_t *' extern int accept (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_CreateOnTop': ncbi_socket.c:5174:5: warning: pointer targets in passing argument 3 of 'getpeername' differ in signedness [-Wpointer-sign] if (getpeername(fd, &peer.sa, &peerlen) != 0) { ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/sys/socket.h:142:12: note: expected 'socklen_t * __restrict__' but argument is of type 'TSOCK_socklen_t *' extern int getpeername (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c:5210:13: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] if (getsockname(fd, &peer.sa, &peerlen) != 0) ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/sys/socket.h:128:12: note: expected 'socklen_t * __restrict__' but argument is of type 'TSOCK_socklen_t *' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 'DSOCK_Bind': ncbi_socket.c:6609:9: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] x_error = getsockname(sock->sock, &addr.sa, &addrlen) != 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/sys/socket.h:128:12: note: expected 'socklen_t * __restrict__' but argument is of type 'TSOCK_socklen_t *' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 'DSOCK_RecvMsg': ncbi_socket.c:7002:35: warning: pointer targets in passing argument 6 of 'recvfrom' differ in signedness [-Wpointer-sign] (struct sockaddr*) &sin, &sinlen); ^ In file included from /usr/include/sys/socket.h:281:0, from ncbi_socketp.h:53, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/bits/socket2.h:64:1: note: expected 'socklen_t * __restrict__' but argument is of type 'TSOCK_socklen_t *' recvfrom (int __fd, void *__restrict __buf, size_t __n, int __flags, ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_buffer.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_types.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_core.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_core_c.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_util.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_priv.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_ansi_ext.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_connection.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_connector.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_connutil.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_file_connector.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_heapmgr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_http_connector.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_memory_connector.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_lbsmd_stub.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_host_info.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_server_info.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_service.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_version.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_service_connector.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_ftp_connector.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_dispd.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_lb.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_local.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_socket_connector.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urlquery.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF binary.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_sendmail.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_base64.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn_connection.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF raw_scoremat.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF drwnflpt.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF drwnfspc.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF drwnmfls.c rm -f libncbi.a ar cru libncbi.a ncbimain.o ncbibs.o wwwutils.o ncbierr.o ncbienv.o ncbifile.o ncbiprop.o ncbimath.o ncbimem.o ncbimisc.o ncbimsg.o ncbistr.o ncbisgml.o ncbitime.o ncbilang.o asnbufo.o asndebin.o asnenbin.o asngen.o asnio.o asnlex.o asnlext.o asnout.o asnprint.o asntypes.o asngenob.o gifgen.o togif.o ncbithrs.o regex.o tsprintf.o ncbiargs.o tree.o matrix.o ncbi_socket.o ncbi_buffer.o ncbi_types.o ncbi_core.o ncbi_core_c.o ncbi_util.o ncbi_priv.o ncbi_ansi_ext.o ncbi_connection.o ncbi_connector.o ncbi_connutil.o ncbi_file_connector.o ncbi_heapmgr.o ncbi_http_connector.o ncbi_memory_connector.o ncbi_lbsmd_stub.o ncbi_host_info.o ncbi_server_info.o ncbi_service.o ncbi_version.o ncbi_service_connector.o ncbi_ftp_connector.o ncbi_dispd.o ncbi_lb.o ncbi_local.o ncbi_socket_connector.o urlquery.o binary.o ncbi_sendmail.o ncbi_base64.o asn_connection.o raw_scoremat.o drwnflpt.o drwnfspc.o drwnmfls.o cp -p libncbi.a ../lib ranlib ../lib/libncbi.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objacces.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objalign.c objalign.c: In function 'CommonSeqAlignLabelFunc': objalign.c:135:27: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] CharPtr curr, typelabel, tmp; ^ objalign.c: In function 'SplicedSegAsnRead': objalign.c:2169:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseSegAsnRead': objalign.c:2409:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedExonAsnRead': objalign.c:2600:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedSegModifierFree': objalign.c:2858:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'ProductPosFree': objalign.c:3031:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'SplicedExonChunkFree': objalign.c:3204:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'SpliceSiteAsnRead': objalign.c:3446:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'ProtPosAsnRead': objalign.c:3600:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseAlignAsnRead': objalign.c:3769:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseSegExtAsnRead': objalign.c:3988:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedSegModifierAsnRead': objalign.c:2938:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objalign.c: In function 'SplicedExonChunkAsnRead': objalign.c:3305:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objall.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objbibli.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objfeat.c objfeat.c: In function 'ModelEvidenceSupportAsnRead': objfeat.c:1494:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ExperimentSupportAsnRead': objfeat.c:1739:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ProgramIdAsnRead': objfeat.c:1921:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'EvidenceBasisAsnRead': objfeat.c:2088:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'InferenceSupportAsnRead': objfeat.c:2252:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ModelEvidenceItemAsnRead': objfeat.c:2465:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SeqFeatSupportAsnRead': objfeat.c:2667:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAQualAsnRead': objfeat.c:4192:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAQualSetAsnRead': objfeat.c:4341:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAGenAsnRead': objfeat.c:4469:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'GeneNomenclatureAsnRead': objfeat.c:4649:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRPrimerAsnRead': objfeat.c:8191:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRPrimerSetAsnRead': objfeat.c:8333:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRReactionAsnRead': objfeat.c:8454:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRReactionSetAsnRead': objfeat.c:8597:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneRefAsnRead': objfeat.c:8724:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneSeqSetAsnRead': objfeat.c:8914:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneSeqAsnRead': objfeat.c:9044:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SomaticOriginAsnRead': objfeat.c:9393:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SomaticOriginConditionAsnRead': objfeat.c:9472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'VariationRefAsnRead': objfeat.c:9551:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ConsequenceAsnWrite': objfeat.c:10112:12: warning: variable 'av' set but not used [-Wunused-but-set-variable] DataVal av; ^ objfeat.c: In function 'Consequence_loss_of_heterozygosityAsnRead': objfeat.c:10572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_frameshiftAsnRead': objfeat.c:10650:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'VarRefDataFree': objfeat.c:10750:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'VarRefDataSetAsnRead': objfeat.c:10803:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_elementFree': objfeat.c:10997:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'VariationInstAsnRead': objfeat.c:11126:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: At top level: objfeat.c:11275:1: warning: "/*" within comment [-Wcomment] /************************************************** ^ objfeat.c: In function 'VariantPropertiesAsnRead': objfeat.c:11304:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PhenotypeAsnRead': objfeat.c:11625:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PopulationDataAsnRead': objfeat.c:11821:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ExtLocAsnRead': objfeat.c:12034:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Seq_seqFree': objfeat.c:12199:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'DeltaItemAsnRead': objfeat.c:12232:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_elementAsnRead': objfeat.c:10539:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objfeat.c: In function 'CodeBreakAsnWrite': objfeat.c:3647:19: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (! AsnWrite(aip, tmp, &av)) goto erret; ^ objfeat.c: In function 'VarRefDataAsnRead': objfeat.c:10965:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objgen.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objloc.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmedli.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objpub.c objpub.c: In function 'PubLabelUnique': objpub.c:1353:17: warning: unused variable 'pmid' [-Wunused-variable] Int4 muid = 0, pmid = 0; ^ objpub.c:1353:7: warning: unused variable 'muid' [-Wunused-variable] Int4 muid = 0, pmid = 0; ^ objpub.c: In function 'PubSetAsnRead': objpub.c:869:13: warning: 'func' may be used uninitialized in this function [-Wmaybe-uninitialized] pnt = (* func)(aip, atp); ^ objpub.c:880:25: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] cit->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objres.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objscoremat.c objscoremat.c: In function 'PssmAsnRead': objscoremat.c:93:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmIntermediateDataAsnRead': objscoremat.c:336:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmFinalDataAsnRead': objscoremat.c:544:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmParametersAsnRead': objscoremat.c:759:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmWithParametersAsnRead': objscoremat.c:936:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'BlockPropertyAsnRead': objscoremat.c:1102:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'CoreBlockAsnRead': objscoremat.c:1275:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'LoopConstraintAsnRead': objscoremat.c:1463:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'CoreDefAsnRead': objscoremat.c:1626:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'FormatRpsDbParametersAsnRead': objscoremat.c:1794:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objseq.c objseq.c: In function 'LinkageEvidenceAsnRead': objseq.c:1603:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objseq.c: In function 'SeqGapAsnRead': objseq.c:1755:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objseq.c: In function 'SeqDescrAsnWriteExtra': objseq.c:2023:48: warning: variable 'had_anp' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE, had_extra = FALSE, had_anp = FALSE; ^ objseq.c: In function 'SeqDescAsnRead': objseq.c:2446:28: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->data.ptrvalue = (Pointer)tmp; ^ objseq.c: In function 'BioseqAsnRead': objseq.c:976:27: warning: 'osp' may be used uninitialized in this function [-Wmaybe-uninitialized] osp->found_it = TRUE; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objblock.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objcode.c objcode.c:45:51: warning: "/*" within comment [-Wcomment] * environment variables to allow reading from data/*.val, replaced tabs in source code with spaces ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objsset.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objsub.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objprt.c objprt.c: In function 'PrintFormBooleanAsnRead': objprt.c:877:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormBooleanFree(ptr); ^ objprt.c: In function 'PrintFormEnumAsnRead': objprt.c:992:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormEnumFree(ptr); ^ objprt.c: In function 'PrintFormTextAsnRead': objprt.c:1100:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormTextFree(ptr); ^ objprt.c: In function 'PrintFormAsnRead': objprt.c:591:6: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp = PrintFormFree(vnp); ^ objprt.c: In function 'PrintFormatAsnRead': objprt.c:429:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormatFree(ptr); ^ objprt.c: In function 'PrintTemplateAsnRead': objprt.c:247:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintTemplateFree(ptr); ^ objprt.c: In function 'PrintFormBlockAsnRead': objprt.c:755:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormBlockFree(ptr); ^ objprt.c: In function 'UserFormatAsnRead': objprt.c:1209:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=UserFormatFree(ptr); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objfdef.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objalignloc.c objalignloc.c: In function 'AlignLocSetAsnRead': objalignloc.c:69:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c: In function 'Loc_locFree': objalignloc.c:196:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalignloc.c: In function 'AlignLocAsnRead': objalignloc.c:233:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:232:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'Loc_locAsnRead': objalignloc.c:313:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignIdFree': objalignloc.c:525:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalignloc.c: In function 'AlignIdAsnRead': objalignloc.c:557:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignBoxAsnRead': objalignloc.c:746:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:745:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignRowsAsnRead': objalignloc.c:925:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:924:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignColumnsAsnRead': objalignloc.c:1086:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:1085:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignIdAsnRead': objalignloc.c:613:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objtable.c objtable.c: In function 'SeqTableColumnInfoAsnRead': objtable.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableColumnAsnRead': objtable.c:268:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c:267:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableColumnAsnWrite': objtable.c:364:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'SeqTableAsnRead': objtable.c:472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonStringTableAsnRead': objtable.c:654:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonStringTableAsnWrite': objtable.c:729:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'CommonBytesTableAsnRead': objtable.c:815:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonBytesTableAsnWrite': objtable.c:890:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'SeqTableSingleDataFree': objtable.c:1220:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtable.c: In function 'SeqTableSingleDataAsnRead': objtable.c:1264:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableMultiDataAsnRead': objtable.c:1106:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtable.c: In function 'SeqTableSingleDataAsnRead': objtable.c:1349:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtable.c: In function 'SeqTableSparseIndexAsnRead': objtable.c:1554:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objpubme.c objpubme.c: In function 'PubmedEntryAsnRead': objpubme.c:89:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objpubme.c: In function 'PubmedUrlAsnRead': objpubme.c:285:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objpubme.c:284:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmdrs.c objmdrs.c: In function 'MedlarsEntryAsnRead': objmdrs.c:85:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmdrs.c: In function 'MedlarsRecordAsnRead': objmdrs.c:256:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmdrs.c:255:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objproj.c objproj.c: In function 'ProjectAsnRead': objproj.c:116:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objproj.c:115:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objproj.c: In function 'ProjectDescrAsnRead': objproj.c:718:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objproj.c: In function 'ProjdescFree': objproj.c:852:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objproj.c: In function 'ProjdescAsnRead': objproj.c:893:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: objproj.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objproj.c: In function 'ProjdescAsnRead': objproj.c:953:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objgbseq.c objgbseq.c: In function 'GBSetAsnRead': objgbseq.c:68:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBSeqAsnRead': objgbseq.c:229:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBReferenceAsnRead': objgbseq.c:725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentAsnRead': objgbseq.c:963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBStrucCommentAsnRead': objgbseq.c:1127:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBFeatureAsnRead': objgbseq.c:1295:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBFeatureSetAsnRead': objgbseq.c:1519:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBAltSeqDataAsnRead': objgbseq.c:1683:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBXrefAsnRead': objgbseq.c:1846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentParagraphAsnRead': objgbseq.c:2012:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentItemAsnRead': objgbseq.c:2163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBStrucCommentItemAsnRead': objgbseq.c:2330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBIntervalAsnRead': objgbseq.c:2506:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBQualifierAsnRead': objgbseq.c:2716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBAltSeqItemAsnRead': objgbseq.c:2887:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objtseq.c objtseq.c: In function 'TSeqAsnRead': objtseq.c:89:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtseq.c: In function 'TSeqSetAsnRead': objtseq.c:322:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtseq.c: In function 'BioseqToTSeq': objtseq.c:448:8: warning: variable 'seqcode' set but not used [-Wunused-but-set-variable] Uint1 seqcode; ^ objtseq.c: In function 'BioseqToMiniTSeq': objtseq.c:560:8: warning: variable 'seqcode' set but not used [-Wunused-but-set-variable] Uint1 seqcode; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objinsdseq.c objinsdseq.c: In function 'INSDSetAsnRead': objinsdseq.c:68:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDSeqAsnRead': objinsdseq.c:229:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDReferenceAsnRead': objinsdseq.c:725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentAsnRead': objinsdseq.c:963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDStrucCommentAsnRead': objinsdseq.c:1127:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDFeatureAsnRead': objinsdseq.c:1295:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDFeatureSetAsnRead': objinsdseq.c:1519:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDAltSeqDataAsnRead': objinsdseq.c:1683:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDXrefAsnRead': objinsdseq.c:1846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentParagraphAsnRead': objinsdseq.c:2012:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentItemAsnRead': objinsdseq.c:2163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDStrucCommentItemAsnRead': objinsdseq.c:2330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDIntervalAsnRead': objinsdseq.c:2506:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDQualifierAsnRead': objinsdseq.c:2716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDAltSeqItemAsnRead': objinsdseq.c:2887:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmacro.c objmacro.c: In function 'AECRActionAsnRead': objmacro.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseActionAsnRead': objmacro.c:269:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:268:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MacroActionListAsnRead': objmacro.c:472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:469:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MacroActionListAsnWrite': objmacro.c:525:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SuspectRuleSetAsnRead': objmacro.c:586:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:583:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SuspectRuleSetAsnWrite': objmacro.c:639:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'WordSubstitutionAsnRead': objmacro.c:719:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c: In function 'WordSubstitutionSetAsnRead': objmacro.c:884:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:881:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'WordSubstitutionSetAsnWrite': objmacro.c:937:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'StringConstraintAsnRead': objmacro.c:1025:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1024:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StringConstraintSetAsnRead': objmacro.c:1266:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1263:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'StringConstraintSetAsnWrite': objmacro.c:1319:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'LocationPosConstraintFree': objmacro.c:1359:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationPosConstraintAsnRead': objmacro.c:1388:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationConstraintAsnRead': objmacro.c:1587:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1586:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalValAsnRead': objmacro.c:1800:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1799:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalValChoiceFree': objmacro.c:1927:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FeatQualLegalValChoiceAsnRead': objmacro.c:1959:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalSetAsnRead': objmacro.c:2111:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2108:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FeatQualLegalSetAsnWrite': objmacro.c:2164:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FeatQualChoiceFree': objmacro.c:2204:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FeatQualChoiceAsnRead': objmacro.c:2236:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldAsnRead': objmacro.c:2415:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2414:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldLegalAsnRead': objmacro.c:2579:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2578:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldPairAsnRead': objmacro.c:2742:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2741:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaFeatTypeFree': objmacro.c:2882:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'RnaFeatTypeAsnRead': objmacro.c:2914:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaQualAsnRead': objmacro.c:3162:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3161:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaQualPairAsnRead': objmacro.c:3327:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3326:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualPairAsnRead': objmacro.c:3500:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3499:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualChoiceFree': objmacro.c:3625:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SourceQualChoiceAsnRead': objmacro.c:3654:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualTextValAsnRead': objmacro.c:3869:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3868:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualValChoiceFree': objmacro.c:3996:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SourceQualValChoiceAsnRead': objmacro.c:4028:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualValSetAsnRead': objmacro.c:4224:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4221:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SourceQualValSetAsnWrite': objmacro.c:4277:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'CDSGeneProtFieldPairAsnRead': objmacro.c:4353:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4352:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldFree': objmacro.c:4478:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MolinfoFieldAsnRead': objmacro.c:4507:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoMoleculePairAsnRead': objmacro.c:4732:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4731:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoTechniquePairAsnRead': objmacro.c:4893:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4892:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoCompletednessPairAsnRead': objmacro.c:5054:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5053:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoMolClassPairAsnRead': objmacro.c:5215:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoTopologyPairAsnRead': objmacro.c:5376:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5375:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoStrandPairAsnRead': objmacro.c:5537:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5536:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldPairFree': objmacro.c:5662:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MolinfoFieldPairAsnRead': objmacro.c:5709:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldListAsnRead': objmacro.c:5901:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5898:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MolinfoFieldListAsnWrite': objmacro.c:5954:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MolinfoFieldConstraintAsnRead': objmacro.c:6032:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6031:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldFree': objmacro.c:6160:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'StructuredCommentFieldAsnRead': objmacro.c:6192:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldPairAsnRead': objmacro.c:6386:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6385:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldPairAsnWrite': objmacro.c:6461:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'DBLinkFieldPairAsnRead': objmacro.c:6553:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6552:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldConstraintAsnRead': objmacro.c:6715:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6714:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeFree': objmacro.c:6843:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeAsnRead': objmacro.c:6872:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldSpecialConstraintAsnRead': objmacro.c:7087:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7086:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PublicationConstraintAsnRead': objmacro.c:7253:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7252:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceConstraintAsnRead': objmacro.c:7432:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7431:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtPseudoConstraintAsnRead': objmacro.c:7621:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7620:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtConstraintFieldFree': objmacro.c:7746:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'CDSGeneProtConstraintFieldAsnRead': objmacro.c:7775:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtQualConstraintAsnRead': objmacro.c:7948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7947:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtQualConstraintAsnWrite': objmacro.c:8030:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FieldConstraintAsnRead': objmacro.c:8129:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:8128:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldConstraintAsnWrite': objmacro.c:8204:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FieldTypeFree': objmacro.c:8260:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FieldTypeAsnRead': objmacro.c:8304:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintFree': objmacro.c:8511:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintAsnRead': objmacro.c:8540:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'QuantityConstraintFree': objmacro.c:8718:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'QuantityConstraintAsnRead': objmacro.c:8747:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceConstraintAsnRead': objmacro.c:8945:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:8944:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TranslationConstraintAsnRead': objmacro.c:9170:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9169:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConstraintChoiceFree': objmacro.c:9322:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConstraintChoiceAsnRead': objmacro.c:9384:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConstraintChoiceSetAsnRead': objmacro.c:9616:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9613:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'ConstraintChoiceSetAsnWrite': objmacro.c:9669:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextMarkerFree': objmacro.c:9709:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TextMarkerAsnRead': objmacro.c:9741:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TextPortionAsnRead': objmacro.c:9937:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9936:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldEditAsnRead': objmacro.c:10153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldPairTypeFree': objmacro.c:10300:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FieldPairTypeAsnRead': objmacro.c:10350:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyActionAsnRead': objmacro.c:10567:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10566:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditActionAsnRead': objmacro.c:10744:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10743:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditActionAsnWrite': objmacro.c:10819:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextTransformFree': objmacro.c:10875:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TextTransformAsnRead': objmacro.c:10910:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TextTransformSetAsnRead': objmacro.c:11081:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11078:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextTransformSetAsnWrite': objmacro.c:11134:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'ConvertActionAsnRead': objmacro.c:11214:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11213:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CopyActionAsnRead': objmacro.c:11406:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11405:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SwapActionAsnRead': objmacro.c:11572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SwapActionAsnWrite': objmacro.c:11647:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'AECRParseActionAsnRead': objmacro.c:11745:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11744:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveActionAsnRead': objmacro.c:11961:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11960:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveActionAsnWrite': objmacro.c:12029:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveOutsideActionAsnRead': objmacro.c:12119:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:12118:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ActionChoiceFree': objmacro.c:12259:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ActionChoiceAsnRead': objmacro.c:12312:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcOrgChoiceFree': objmacro.c:12499:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcOrgChoiceAsnRead': objmacro.c:12528:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcOrgAsnRead': objmacro.c:12711:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:12710:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcGeneralIdFree': objmacro.c:12839:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcGeneralIdAsnRead': objmacro.c:12871:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcFree': objmacro.c:13027:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcAsnRead': objmacro.c:13065:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseDstOrgAsnRead': objmacro.c:13319:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:13318:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseDestFree': objmacro.c:13447:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseDestAsnRead': objmacro.c:13485:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationIntervalAsnRead': objmacro.c:13693:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:13692:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationChoiceFree': objmacro.c:13818:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationChoiceAsnRead': objmacro.c:13850:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceListAsnRead': objmacro.c:14024:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14021:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SequenceListAsnWrite': objmacro.c:14077:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SequenceListChoiceFree': objmacro.c:14117:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SequenceListChoiceAsnRead': objmacro.c:14149:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyFeatureActionAsnRead': objmacro.c:14338:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14337:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveFeatureActionAsnRead': objmacro.c:14602:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14601:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFromCDSOptionsAsnRead': objmacro.c:14766:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14765:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureSrcOptionsFree': objmacro.c:14900:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConvertFeatureSrcOptionsAsnRead': objmacro.c:14932:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RegionTypeAsnRead': objmacro.c:15099:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15098:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureDstOptionsFree': objmacro.c:15215:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConvertFeatureDstOptionsAsnRead': objmacro.c:15250:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureActionAsnRead': objmacro.c:15464:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15463:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditLocationStrandAsnRead': objmacro.c:15670:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15669:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'Partial5SetActionAsnRead': objmacro.c:15831:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15830:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'Partial3SetActionAsnRead': objmacro.c:15992:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15991:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PartialBothSetActionAsnRead': objmacro.c:16153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ExtendToFeatureAsnRead': objmacro.c:16315:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16314:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationEditTypeFree': objmacro.c:16452:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationEditTypeAsnRead': objmacro.c:16499:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditFeatureLocationActionAsnRead': objmacro.c:16774:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16773:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoBlockAsnRead': objmacro.c:16971:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16970:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoBlockAsnWrite': objmacro.c:17053:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveDescriptorActionAsnRead': objmacro.c:17151:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17150:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AutodefActionAsnRead': objmacro.c:17317:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c: In function 'FixPubCapsActionAsnRead': objmacro.c:17488:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17487:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SortFieldsActionAsnRead': objmacro.c:17690:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17689:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixAuthorCapsAsnRead': objmacro.c:17866:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17865:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixCapsActionFree': objmacro.c:17982:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixCapsActionAsnRead': objmacro.c:18017:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixFormatActionFree': objmacro.c:18189:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixFormatActionAsnRead': objmacro.c:18218:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveDuplicateFeatureActionAsnRead': objmacro.c:18422:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18421:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'GeneXrefTypeAsnRead': objmacro.c:18613:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18612:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'XrefTypeFree': objmacro.c:18747:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'XrefTypeAsnRead': objmacro.c:18779:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveXrefsActionAsnRead': objmacro.c:18948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18947:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveXrefsActionAsnWrite': objmacro.c:19023:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MakeGeneXrefActionAsnRead': objmacro.c:19116:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19115:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AuthorFixActionAsnRead': objmacro.c:19281:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19280:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'UpdateSequencesActionAsnRead': objmacro.c:19447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CreateTSAIdsSrcFree': objmacro.c:19574:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'CreateTSAIdsSrcAsnRead': objmacro.c:19606:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CreateTSAIdsActionAsnRead': objmacro.c:19787:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19786:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AutofixActionAsnRead': objmacro.c:19966:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19965:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixSetsActionFree': objmacro.c:20084:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixSetsActionAsnRead': objmacro.c:20113:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TableMatchTypeFree': objmacro.c:20269:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TableMatchTypeAsnRead': objmacro.c:20301:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TableMatchAsnRead': objmacro.c:20547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:20546:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyTableExtraDataFree': objmacro.c:20675:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ApplyTableExtraDataAsnRead': objmacro.c:20704:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyTableActionAsnRead': objmacro.c:20877:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:20876:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddFileActionAsnRead': objmacro.c:21057:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21056:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddDescriptorListActionAsnRead': objmacro.c:21225:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21224:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddDescriptorListActionAsnWrite': objmacro.c:21300:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveSequencesActionAsnRead': objmacro.c:21393:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21392:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveSequencesActionAsnWrite': objmacro.c:21461:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MacroActionChoiceFree': objmacro.c:21512:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MacroActionChoiceAsnRead': objmacro.c:21613:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SearchFuncFree': objmacro.c:22093:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SearchFuncAsnRead': objmacro.c:22131:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SimpleReplaceAsnRead': objmacro.c:22400:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22399:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ReplaceFuncFree': objmacro.c:22536:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ReplaceFuncAsnRead': objmacro.c:22571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ReplaceRuleAsnRead': objmacro.c:22751:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22750:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SuspectRuleAsnRead': objmacro.c:22921:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22920:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualChoiceAsnRead': objmacro.c:3727:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SourceQualValChoiceAsnRead': objmacro.c:4098:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MolinfoFieldAsnRead': objmacro.c:4587:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MolinfoFieldPairAsnRead': objmacro.c:5771:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'StructuredCommentFieldAsnRead': objmacro.c:6251:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FieldTypeAsnRead': objmacro.c:8390:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ConstraintChoiceAsnRead': objmacro.c:9466:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcGeneralIdAsnRead': objmacro.c:12930:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixCapsActionAsnRead': objmacro.c:18084:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixFormatActionAsnRead': objmacro.c:18284:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixSetsActionAsnRead': objmacro.c:20172:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MacroActionChoiceAsnRead': objmacro.c:21852:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationPosConstraintAsnRead': objmacro.c:1447:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'RnaFeatTypeAsnRead': objmacro.c:3008:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeAsnRead': objmacro.c:6945:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintAsnRead': objmacro.c:8613:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'QuantityConstraintAsnRead': objmacro.c:8806:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'TextMarkerAsnRead': objmacro.c:9800:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FieldPairTypeAsnRead': objmacro.c:10416:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ActionChoiceAsnRead': objmacro.c:12382:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcOrgChoiceAsnRead': objmacro.c:12580:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcAsnRead': objmacro.c:13160:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseDestAsnRead': objmacro.c:13552:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationChoiceAsnRead': objmacro.c:13906:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ConvertFeatureDstOptionsAsnRead': objmacro.c:15320:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationEditTypeAsnRead': objmacro.c:16603:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'TableMatchTypeAsnRead': objmacro.c:20392:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SearchFuncAsnRead': objmacro.c:22236:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objent2.c objent2.c: In function 'Entrez2IdListAsnRead': objent2.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanExpAsnRead': objent2.c:276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2BooleanElementFree': objent2.c:414:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'Entrez2BooleanElementAsnRead': objent2.c:455:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LimitsAsnRead': objent2.c:664:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:663:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanTermAsnRead': objent2.c:841:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:840:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2RequestAsnRead': objent2.c:1037:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1036:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'E2RequestFree': objent2.c:1198:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'E2RequestAsnRead': objent2.c:1251:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2EvalBooleanAsnRead': objent2.c:1488:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1487:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermQueryAsnRead': objent2.c:1664:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1663:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermPosAsnRead': objent2.c:1842:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1841:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2HierQueryAsnRead': objent2.c:2028:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2027:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2GetLinksAsnRead': objent2.c:2215:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2IdAsnRead': objent2.c:2409:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2408:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DtFilterAsnRead': objent2.c:2573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2572:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2ReplyAsnRead': objent2.c:2750:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2749:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'E2ReplyFree': objent2.c:2922:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'E2ReplyAsnRead': objent2.c:2978:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2InfoAsnRead': objent2.c:3224:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2BooleanReplyAsnRead': objent2.c:3395:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:3394:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumListAsnRead': objent2.c:3572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2TermListAsnRead': objent2.c:3733:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2HierNodeAsnRead': objent2.c:3905:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2LinkSetAsnRead': objent2.c:4104:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4103:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkCountListAsnRead': objent2.c:4280:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2DbInfoAsnRead': objent2.c:4446:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2FieldInfoAsnRead': objent2.c:4685:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4684:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkInfoAsnRead': objent2.c:4928:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4927:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumFieldInfoAsnRead': objent2.c:5126:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5125:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumAsnRead': objent2.c:5301:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2DocsumDataAsnRead': objent2.c:5463:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5462:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermAsnRead': objent2.c:5629:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5628:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkCountAsnRead': objent2.c:5811:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5810:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanElementAsnRead': objent2.c:522:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objent2.c: In function 'E2ReplyAsnRead': objent2.c:3062:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ent2api.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pmfapi.c pmfapi.c: In function 'PubMedSynchronousQuery': pmfapi.c:1224:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubMedWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQueryEx': pmfapi.c:1458:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQueryTI': pmfapi.c:1636:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQuerySRA': pmfapi.c:1717:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiRevHistSynchronousQuery': pmfapi.c:1790:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiRevHistWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiAccVerSynchronousQuery': pmfapi.c:1842:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiAccVerWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'AccnRevHistSynchronousQuery': pmfapi.c:1893:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("AccnRevHistWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiSeqIdSetSynchronousQuery': pmfapi.c:1944:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiSeqIdSetWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'AccnListSynchronousQuery': pmfapi.c:1994:12: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("AccnListWaitForReply %ld\n", (long) (stoptime - starttime)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objtax3.c objtax3.c: In function 'Taxon3RequestAsnRead': objtax3.c:86:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3RequestFree': objtax3.c:200:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'SequenceOfIntAsnRead': objtax3.c:418:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'Taxon3ReplyAsnRead': objtax3.c:547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3ReplyFree': objtax3.c:661:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'T3ErrorAsnRead': objtax3.c:872:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3DataAsnRead': objtax3.c:1071:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'Value_valueFree': objtax3.c:1252:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'T3StatusFlagsAsnRead': objtax3.c:1282:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3RefreshFlagsAsnRead': objtax3.c:1606:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objtax3.c:5: objtax3.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objtax3.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from objtax3.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objtax3.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objtax3.c: In function 'T3RequestAsnRead': objtax3.c:297:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c: In function 'T3ReplyAsnRead': objtax3.c:741:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c: In function 'T3StatusFlagsAsnRead': objtax3.c:1420:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c:1361:10: note: 'choice' was declared here Uint1 choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF tax3api.c tax3api.c: In function 'Tax3SynchronousQuery': tax3api.c:188:27: warning: variable 't3' set but not used [-Wunused-but-set-variable] time_t t1, t2, t3; ^ tax3api.c: In function 'CheckSuggestedFixes': tax3api.c:753:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'TryNewSuggestedFixes': tax3api.c:865:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'GetSuggestedNamesFromRank': tax3api.c:1114:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'BioSourceFromBioSample': tax3api.c:3220:16: warning: unused variable 'max' [-Wunused-variable] time_t max = 0; ^ tax3api.c: At top level: tax3api.c:297:13: warning: 'SaveTaxon3Request' defined but not used [-Wunused-function] static void SaveTaxon3Request (Taxon3RequestPtr t3rp, CharPtr path) ^ tax3api.c:361:16: warning: 'HasMisspellingFlag' defined but not used [-Wunused-function] static Boolean HasMisspellingFlag (T3DataPtr t) ^ tax3api.c:616:28: warning: 'TaxFixItemOrigIsOk' defined but not used [-Wunused-function] static Boolean LIBCALLBACK TaxFixItemOrigIsOk (ValNodePtr vnp) ^ tax3api.c:1886:16: warning: 'EndsWithSp' defined but not used [-Wunused-function] static Boolean EndsWithSp (CharPtr str) ^ tax3api.c:2345:16: warning: 'StringIsExactMatchForOrgRef' defined but not used [-Wunused-function] static Boolean StringIsExactMatchForOrgRef (CharPtr str, OrgRefPtr org) ^ tax3api.c:3003:13: warning: 'AddBioSourcesToChecklist' defined but not used [-Wunused-function] static void AddBioSourcesToChecklist (ValNodePtr biop_list, ValNodePtr check_list) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objegkludge.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objentgene.c objentgene.c: In function 'EntrezgeneAsnRead': objentgene.c:103:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'EntrezgeneSetAsnRead': objentgene.c:411:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:408:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objentgene.c: In function 'EntrezgeneSetAsnWrite': objentgene.c:464:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objentgene.c: In function 'GeneTrackAsnRead': objentgene.c:545:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'GeneCommentaryAsnRead': objentgene.c:764:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'Method_methodFree': objentgene.c:1056:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objentgene.c: In function 'MapsAsnRead': objentgene.c:1087:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1086:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'Method_methodAsnRead': objentgene.c:1167:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'GeneSourceAsnRead': objentgene.c:1408:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1407:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'XtraTermsAsnRead': objentgene.c:1622:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1621:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'OtherSourceAsnRead': objentgene.c:1792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1791:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'MapsAsnRead': objentgene.c:1219:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objentgene.c:1166:10: note: 'choice' was declared here Uint1 choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmla2.c objmla2.c: In function 'Mla2RequestFree': objmla2.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmla2.c: In function 'Mla22RequestAsnRead': objmla2.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla2.c: In function 'TitleMsg2AsnRead': objmla2.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla2.c:446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla2.c: In function 'TitleMsgList2AsnRead': objmla2.c:612:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla2.c: In function 'Mla22RequestAsnRead': objmla2.c:249:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmla2.c: In function 'Mla2BackAsnRead': objmla2.c:902:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mla2api.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF qblastapi.c qblastapi.c: In function 'SecondQBlastCallback': qblastapi.c:259:15: warning: variable 'waiting' set but not used [-Wunused-but-set-variable] Boolean waiting = FALSE; ^ qblastapi.c: In function 'BLASTGetSeqAnnotByRIDEx': qblastapi.c:823:18: warning: variable 'status' set but not used [-Wunused-but-set-variable] EIO_Status status; ^ qblastapi.c: In function 'BLASTGetQueryBioseqByRIDEx': qblastapi.c:868:18: warning: variable 'status' set but not used [-Wunused-but-set-variable] EIO_Status status; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vecscnapi.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmim.c objmim.c: In function 'MimSetAsnRead': objmim.c:86:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimDateAsnRead': objmim.c:248:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:247:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimEntryAsnRead': objmim.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimCitAsnRead': objmim.c:907:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:906:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimTextAsnRead': objmim.c:1093:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:1092:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimEditItemAsnRead': objmim.c:1272:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:1271:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimAllelicVariantAsnRead': objmim.c:1443:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimIndexTermAsnRead': objmim.c:1634:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimReferenceAsnRead': objmim.c:1812:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimLinkAsnRead': objmim.c:2187:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2186:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimAuthorAsnRead': objmim.c:2360:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2359:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimPageAsnRead': objmim.c:2525:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2524:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objvalid.c objvalid.c: In function 'FieldRuleAsnRead': objvalid.c:88:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:87:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'FieldSetAsnRead': objvalid.c:256:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:253:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'FieldSetAsnWrite': objvalid.c:309:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'DependentFieldRuleAsnRead': objvalid.c:390:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:389:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'DependentFieldSetAsnRead': objvalid.c:573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:570:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'DependentFieldSetAsnWrite': objvalid.c:626:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'CommentRuleAsnRead': objvalid.c:708:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:707:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'CommentSetAsnRead': objvalid.c:898:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:895:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'CommentSetAsnWrite': objvalid.c:951:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mimapi.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cddapi.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqport.c seqport.c: In function 'productLoc_to_locationLoc': seqport.c:4153:13: warning: variable 'is_cdregion' set but not used [-Wunused-but-set-variable] Boolean is_cdregion = FALSE; ^ seqport.c: In function 'NaLocFromNaInterval': seqport.c:4483:8: warning: variable 'p_end_pos' set but not used [-Wunused-but-set-variable] Int4 p_end_pos; /*the end of the product sequence in the current loc*/ ^ seqport.c: In function 'dnaLoc_to_aaLoc': seqport.c:4599:18: warning: variable 'cds_right' set but not used [-Wunused-but-set-variable] Int4 cds_left, cds_right; ^ seqport.c:4599:8: warning: variable 'cds_left' set but not used [-Wunused-but-set-variable] Int4 cds_left, cds_right; ^ seqport.c: In function 'DeltaRevComp': seqport.c:5281:21: warning: variable 'dspnext' set but not used [-Wunused-but-set-variable] DeltaSeqPtr dsp, dspnext; ^ seqport.c: In function 'SeqSearchEnterNucWord': seqport.c:6822:18: warning: variable 'patLen' set but not used [-Wunused-but-set-variable] Int2 next, patLen, state; ^ seqport.c: In function 'ProtSearchEnterProtWord': seqport.c:7696:18: warning: variable 'patLen' set but not used [-Wunused-but-set-variable] Int2 next, patLen, state; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqport.c:62: seqport.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sequtil.c sequtil.c: In function 'GetPointsForLeftAndRightOffsets': sequtil.c:7959:11: warning: variable 'first_strand' set but not used [-Wunused-but-set-variable] Uint1 first_strand, last_strand; ^ sequtil.c: In function 'SeqPointWriteEx': sequtil.c:8492:15: warning: variable 'fuzzlen' set but not used [-Wunused-but-set-variable] Int4 fuzzlen, id_len; ^ sequtil.c: In function 'TaxNameFromCommon': sequtil.c:8648:5: warning: missing braces around initializer [-Wmissing-braces] "Chinese hamsters", "Cricetulus sp." ^ sequtil.c:8648:5: warning: (near initialization for 'taxcommon[0]') [-Wmissing-braces] sequtil.c: In function 'GetBestScoreAndEvalueFromScorePtr': sequtil.c:9470:48: warning: variable 'sum_set' set but not used [-Wunused-but-set-variable] Boolean score_set=FALSE, evalue_set=FALSE, sum_set=FALSE, bit_set=FALSE; ^ sequtil.c: In function 'SeqIdFromAccessionEx': sequtil.c:10070:38: warning: variable 'sip2' set but not used [-Wunused-but-set-variable] SeqIdPtr sip2; ^ sequtil.c: In function 'GenericCompressDNAEx': sequtil.c:1328:15: warning: 'byte_from' may be used uninitialized in this function [-Wmaybe-uninitialized] byte_from <<= lshift_from; ^ sequtil.c: In function 'BSCompressDNAOld': sequtil.c:1521:15: warning: 'byte_from' may be used uninitialized in this function [-Wmaybe-uninitialized] byte_from <<= lshift_from; ^ sequtil.c: In function 'BSConvertSeq': sequtil.c:924:15: warning: 'byte_from' may be used uninitialized in this function [-Wmaybe-uninitialized] byte_from <<= lshift_from; ^ sequtil.c: In function 'SeqLocCoverage': sequtil.c:6875:12: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqIdPtr sip; ^ sequtil.c: In function 'GetThePointForOffsetEx': sequtil.c:7919:14: warning: 'last_strand' may be used uninitialized in this function [-Wmaybe-uninitialized] if (last_strand == Seq_strand_minus) ^ sequtil.c:7900:14: warning: 'first_strand' may be used uninitialized in this function [-Wmaybe-uninitialized] if (first_strand == Seq_strand_minus) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF prtutil.c prtutil.c: In function 'StdFormatPrint': prtutil.c:1422:10: warning: unused variable 'ptr' [-Wunused-variable] CharPtr ptr = NULL; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF simple.c In file included from simple.c:69:0: ../include/all.h:7192:0: warning: "RNA_QUAL" redefined [enabled by default] #define RNA_QUAL &at[2231] ^ ../include/all.h:5745:0: note: this is the location of the previous definition #define RNA_QUAL &at[1023] ^ simple.c: In function 'SimpleSeqAsnRead': simple.c:212:15: warning: 'b' may be used uninitialized in this function [-Wmaybe-uninitialized] b <<= 4; ^ simple.c:170:17: note: 'b' was declared here Uint1 base, b; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF tofasta.c tofasta.c: In function 'DoSpecialDefline': tofasta.c:1407:22: warning: variable 'gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr gene = NULL; ^ tofasta.c: At top level: tofasta.c:3072:16: warning: 'get_descr_on_top' defined but not used [-Wunused-function] static Boolean get_descr_on_top (GatherContextPtr gcp) ^ tofasta.c:3101:16: warning: 'get_descr' defined but not used [-Wunused-function] static Boolean get_descr (GatherContextPtr gcp) ^ tofasta.c:3196:19: warning: 'IndexedGatherDescrOnBioseq' defined but not used [-Wunused-function] static ValNodePtr IndexedGatherDescrOnBioseq (ItemInfoPtr iip, BioseqPtr bsp, Uint1 choice) ^ tofasta.c:3359:19: warning: 'GetCDSProtUnindexed' defined but not used [-Wunused-function] static SeqFeatPtr GetCDSProtUnindexed ( ^ tofasta.c:3445:19: warning: 'GatherSeqFeatProt' defined but not used [-Wunused-function] static SeqFeatPtr GatherSeqFeatProt(BioseqPtr bsp) ^ tofasta.c:3479:19: warning: 'GatherGenesForCDS' defined but not used [-Wunused-function] static ValNodePtr GatherGenesForCDS(SeqLocPtr slp) ^ tofasta.c: In function 'FastaToSeqEntryInternalExEx': tofasta.c:2736:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer+1, BuffSize, fd); ^ tofasta.c:2761:18: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer+i+1, FTSE_BUFF_CHUNK, fd); ^ tofasta.c: In function 'FastaReadSequenceInternalEx': tofasta.c:2476:43: warning: 'mask_to' may be used uninitialized in this function [-Wmaybe-uninitialized] mask_sint->to = mask_to; ^ tofasta.c: In function 'FastaToSeqEntryInternalExEx': tofasta.c:2852:19: warning: 'fd' may be used uninitialized in this function [-Wmaybe-uninitialized] ungetc(ch, fd); ^ tofasta.c:2672:25: warning: 'firstchar' may be used uninitialized in this function [-Wmaybe-uninitialized] const Char PNTR firstchar; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF tofile.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF tomedlin.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF valid.c valid.c: In function 'Valid1GatherProc': valid.c:2238:22: warning: variable 'sc_valid' set but not used [-Wunused-but-set-variable] EFieldValid sc_valid; ^ valid.c: In function 'ValidateSeqIdCase': valid.c:3342:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateGenProdSet': valid.c:5551:19: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'CountAdjacentProc': valid.c:6193:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateBioseqInst': valid.c:6584:19: warning: variable 'tech' set but not used [-Wunused-but-set-variable] Uint1 tech; ^ valid.c:6526:19: warning: variable 'prot' set but not used [-Wunused-but-set-variable] SeqFeatPtr prot; ^ valid.c: In function 'ValidateBioSource': valid.c:13688:19: warning: variable 'id' set but not used [-Wunused-but-set-variable] Int4 id; ^ valid.c: In function 'ValidateDblink': valid.c:14737:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateSeqDescrCommon': valid.c:14795:19: warning: variable 'pdp' set but not used [-Wunused-but-set-variable] PubdescPtr pdp; ^ valid.c: In function 'ValidateBioseqContextIndexed': valid.c:17742:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (bvsp->is_mrna || cdscount == 1 && genecount < 2) { ^ valid.c:17154:41: warning: variable 'utr3gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr cdsgene, utr5gene, utr3gene; ^ valid.c: In function 'ValidateBarcodeIndexNumber': valid.c:18667:21: warning: variable 'bin_len' set but not used [-Wunused-but-set-variable] Int4 bin_len; ^ valid.c: In function 'ValidateBioseqContext': valid.c:18775:19: warning: variable 'taxname' set but not used [-Wunused-but-set-variable] CharPtr taxname = NULL; ^ valid.c: In function 'ValidateRptUnit': valid.c:20323:32: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean badchars, found, just_nuc_letters, multi_rpt_unit; ^ valid.c: In function 'CheckForCommonCDSProduct': valid.c:22238:19: warning: variable 'is_nw' set but not used [-Wunused-but-set-variable] Boolean is_nw = FALSE; ^ valid.c:22235:19: warning: variable 'is_nc' set but not used [-Wunused-but-set-variable] Boolean is_nc = FALSE; ^ valid.c: In function 'CheckForIllegalDbxref': valid.c:22617:16: warning: variable 'id' set but not used [-Wunused-but-set-variable] Int4 id; ^ valid.c: In function 'ValidateAnticodon': valid.c:23348:53: warning: variable 'circular' set but not used [-Wunused-but-set-variable] ordered = TRUE, adjacent = FALSE, circular = FALSE, exception = FALSE; ^ valid.c:23347:19: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = TRUE, tmpval, mixed_strand = FALSE, unmarked_strand = FALSE, ^ valid.c: In function 'IsGeneXrefRedundant': valid.c:24599:17: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ valid.c: In function 'ValidateSeqFeat': valid.c:24763:19: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ valid.c:24741:19: warning: variable 'pdp' set but not used [-Wunused-but-set-variable] PubdescPtr pdp; ^ valid.c: In function 'CdTransCheck': valid.c:26675:19: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'SpliceCheckEx': valid.c:27477:19: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ valid.c: In function 'CdsProductIdCheck': valid.c:27823:15: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'ValidateSeqLoc': valid.c:27887:19: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = TRUE, tmpval, mixed_strand = FALSE, unmarked_strand = FALSE, ^ valid.c:27886:24: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqLocPtr tmp, prev; ^ valid.c: At top level: valid.c:1415:16: warning: 'IsNotUnclassifiedExcept' defined but not used [-Wunused-function] static Boolean IsNotUnclassifiedExcept (ValidStructPtr vsp) ^ valid.c:4089:13: warning: 'FindLongIdsThatCollideWhenTruncated' defined but not used [-Wunused-function] static void FindLongIdsThatCollideWhenTruncated (SeqEntryPtr sep, ValidStructPtr vsp, Int4 trunc_len) ^ valid.c:5438:13: warning: 'CheckMutSetSources' defined but not used [-Wunused-function] static void CheckMutSetSources (BioSourcePtr biop, Pointer userdata) ^ valid.c:6450:13: warning: 'ReportLongSeqId' defined but not used [-Wunused-function] static void ReportLongSeqId (SeqIdPtr sip, ValidStructPtr vsp, Int4 max_len) ^ valid.c:9394:16: warning: 'ConsistentWithC' defined but not used [-Wunused-function] static Boolean ConsistentWithC (Char ch) ^ valid.c:12157:16: warning: 'LatLonIsValid' defined but not used [-Wunused-function] static Boolean LatLonIsValid (CharPtr name) ^ valid.c:12959:16: warning: 'LatLonInRange' defined but not used [-Wunused-function] static Boolean LatLonInRange ( ^ valid.c:13056:16: warning: 'CountryIsClosestToLatLon' defined but not used [-Wunused-function] static Boolean CountryIsClosestToLatLon ( ^ valid.c:18292:19: warning: 'ListFeaturesContainedInLocation' defined but not used [-Wunused-function] static ValNodePtr ListFeaturesContainedInLocation (BioseqPtr bsp, SeqLocPtr slp, Uint1 seqfeatChoice, Uint1 featdefChoice) ^ valid.c:18342:28: warning: 'MultiGeneOverlapFree' defined but not used [-Wunused-function] static MultiGeneOverlapPtr MultiGeneOverlapFree (MultiGeneOverlapPtr m) ^ valid.c:24281:16: warning: 'CouldExtendPartial' defined but not used [-Wunused-function] static Boolean CouldExtendPartial (SeqLocPtr slp, Boolean partial5) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF valapi.c valapi.c: In function 'DoesStringMatchExpression': valapi.c:253:15: warning: variable 'errstr' set but not used [-Wunused-but-set-variable] const char *errstr; ^ valapi.c: In function 'ReorderStructuredCommentFields': valapi.c:777:82: warning: unused variable 'ufp_last' [-Wunused-variable] UserFieldPtr ufp, ufp_prev = NULL, new_list = NULL, new_prev = NULL, ufp_next, ufp_last = NULL; ^ valapi.c:777:72: warning: unused variable 'ufp_next' [-Wunused-variable] UserFieldPtr ufp, ufp_prev = NULL, new_list = NULL, new_prev = NULL, ufp_next, ufp_last = NULL; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF alignmgr.c alignmgr.c: In function 'AlnMgrIndexParentSA': alignmgr.c:1607:19: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] sap->saip = (Pointer)AMAlignIndexFree(amaip); ^ alignmgr.c: In function 'AlnMgrGetNthBlockRange': alignmgr.c:4182:21: warning: variable 'amaip' set but not used [-Wunused-but-set-variable] AMAlignIndexPtr amaip; ^ alignmgr.c: In function 'AlnMgrMakeFakeMultipleEx': alignmgr.c:5157:21: warning: variable 'nogap' set but not used [-Wunused-but-set-variable] Boolean nogap; ^ alignmgr.c: In function 'AlnMgrMapBioseqToBioseq': alignmgr.c:10840:19: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Uint1 gap; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from alignmgr.c:584: alignmgr.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignmgr.c:5405:13: warning: 'AlnMgrMergeNeighbors' defined but not used [-Wunused-function] static void AlnMgrMergeNeighbors(SeqAlignPtr salp) ^ alignmgr.c:10572:16: warning: 'am_merge_after_edit' defined but not used [-Wunused-function] static Boolean am_merge_after_edit (SeqAlignPtr sap) ^ alignmgr.c:6123:18: warning: 'AlnMgrConstructOverlaps' defined but not used [-Wunused-function] static AMmsmsPtr AlnMgrConstructOverlaps(AMmsmsPtr ams_head) ^ alignmgr.c:6650:16: warning: 'AlnMgrJaggedIndex' defined but not used [-Wunused-function] static Boolean AlnMgrJaggedIndex(SeqAlignPtr sap, AMmsmsPtr ams_head, AMmsmsPtr *ams_mhead, Int4 numrows) ^ alignmgr.c: In function 'AlnMgrUnpackSeqAlign': alignmgr.c:1149:33: warning: 'sap_segs_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] sap_segs_prev->next = (SeqAlignPtr)(sap_segs->segs); ^ alignmgr.c: In function 'AlnMgrPropagateSeqIdsBySapList': alignmgr.c:1755:23: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] sip->next = sip_tmp2; ^ alignmgr.c: In function 'AlnMgrGetNthSeqRangeInSA': alignmgr.c:4115:19: warning: 'tmp_end' may be used uninitialized in this function [-Wmaybe-uninitialized] *stop = tmp_end; ^ alignmgr.c:4113:20: warning: 'tmp_beg' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = tmp_beg; ^ alignmgr.c: In function 'am_is_consistent': alignmgr.c:10114:43: warning: 'n' may be used uninitialized in this function [-Wmaybe-uninitialized] AlnMgrGetNthUnalignedForNthRow(sap, n, i, &u_start, &u_stop); ^ alignmgr.c: In function 'AlnMgrGetSubAlign': alignmgr.c:9097:15: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] salp = am_cleanupsalp(salp); ^ alignmgr.c: In function 'AlnMgrMakeMultByIntersectOnMaster': alignmgr.c:5829:30: warning: 'sip_tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] salp->master = SeqIdDup(sip); ^ alignmgr.c:5553:17: note: 'sip_tmp' was declared here SeqIdPtr sip_tmp; ^ alignmgr.c:5885:21: warning: 'sip_tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] sip_tmp = sip_tmp->next; ^ alignmgr.c:5846:18: note: 'sip_tmp' was declared here SeqIdPtr sip_tmp; ^ alignmgr.c:5865:11: warning: 'sip_head' may be used uninitialized in this function [-Wmaybe-uninitialized] while (sip && !done) ^ alignmgr.c:5845:18: note: 'sip_head' was declared here SeqIdPtr sip_head; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF aliparse.c aliparse.c: In function 's_IsInterleaved': aliparse.c:929:37: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (s_configInfo.useMaybes == FALSE) && ^ aliparse.c:823:20: warning: variable 'isMaybe' set but not used [-Wunused-but-set-variable] Boolean isMaybe; ^ aliparse.c: In function 's_ProcessInterId': aliparse.c:1000:15: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_ProcessInterSeq': aliparse.c:1090:15: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr = NULL; ^ aliparse.c: In function 's_AnalyzeInterleaved': aliparse.c:1193:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && (s_configInfo.useMaybes == TRUE)) ^ aliparse.c: In function 's_ProcessContigId': aliparse.c:1385:18: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_ProcessContigSeq': aliparse.c:1476:18: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_AnalyzeContiguous': aliparse.c:1603:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && (s_configInfo.useMaybes == TRUE)) ^ aliparse.c: In function 's_CheckContext': aliparse.c:2150:33: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && ^ aliparse.c:2131:20: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 'PrintOutMultAlign': aliparse.c:3161:10: warning: statement with no effect [-Wunused-value] for (d; dnext = newSeqPart; ^ aliparse.c:655:18: warning: 'currentIdStr' may be used uninitialized in this function [-Wmaybe-uninitialized] if (StringCmp(existingId->id,currentIdStr) == 0) ^ aliparse.c: In function 'Ali_Read': aliparse.c:1355:14: warning: 'previousLength' may be used uninitialized in this function [-Wmaybe-uninitialized] errPtr = Ali_AddError (&(fileInfoPtr->errors),ERR_SEQ_LENGTH_MISMATCH, ^ aliparse.c:1154:20: note: 'previousLength' was declared here Int4 previousLength; ^ aliparse.c:930:14: warning: 'seqLinePtr' may be used uninitialized in this function [-Wmaybe-uninitialized] (seqLinePtr->maybe == FALSE)) ^ aliparse.c:820:20: note: 'seqLinePtr' was declared here SeqLineInfoPtr seqLinePtr; ^ aliparse.c: In function 'ALI_ConvertToNCBIData': aliparse.c:3276:26: warning: 'sep_new' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignAddInSeqEntry (sep_head, sanp); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF aliread.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/aliparse.h:15, from aliread.c:6: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF alignval.c alignval.c: In function 'ValidateSeqlengthInDenseSeg': alignval.c:1214:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(stptrtemp[j+i*aligndim]+lenptrtemp[i]>bslen) ^ alignval.c: In function 'PercentStringMatch': alignval.c:1495:32: warning: variable 'max_len' set but not used [-Wunused-but-set-variable] Int4 len1, len2, min_len, k, max_len; ^ alignval.c: In function 'CheckAlnSeqLens': alignval.c:1893:12: warning: variable 'aln_len' set but not used [-Wunused-but-set-variable] Int4 aln_len, start, stop; ^ alignval.c: In function 'ValidateSeqAlign': alignval.c:1991:16: warning: variable 'ans' set but not used [-Wunused-but-set-variable] MsgAnswer ans; ^ alignval.c: In function 'GetAlignmentColumnPercentIdentities': alignval.c:2371:14: warning: variable 'num_match' set but not used [-Wunused-but-set-variable] Int4 num_match; ^ alignval.c: In function 'WeightedAlignmentPercentIdentity': alignval.c:2681:14: warning: variable 'num_match' set but not used [-Wunused-but-set-variable] Int4 num_match; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from alignval.c:57: alignval.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignval.c:568:13: warning: 'delete_bioseqs' defined but not used [-Wunused-function] static void delete_bioseqs (ValNodePtr ids, Uint2 entityID) ^ alignval.c:1476:16: warning: 'IsSipContainedInStdseg' defined but not used [-Wunused-function] static Boolean IsSipContainedInStdseg(SeqIdPtr sip, StdSegPtr ssp) ^ alignval.c:1891:13: warning: 'CheckAlnSeqLens' defined but not used [-Wunused-function] static void CheckAlnSeqLens (SeqAlignPtr salp) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sqnutil1.c sqnutil1.c: In function 'GeneExtendFunc': sqnutil1.c:2514:18: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ sqnutil1.c: In function 'ParseAnticodon': sqnutil1.c:3961:14: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ sqnutil1.c: In function 'ParseCodeBreak': sqnutil1.c:4081:17: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ sqnutil1.c: In function 'CleanOrgModListEx': sqnutil1.c:6276:48: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if (last->subtype == omp->subtype && ^ sqnutil1.c: In function 'CleanUpPubdescAuthors': sqnutil1.c:9213:20: warning: variable 'prev' set but not used [-Wunused-but-set-variable] ValNodePtr PNTR prev; ^ sqnutil1.c: In function 'RemoveUnnecessaryGeneXrefs': sqnutil1.c:14155:24: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil1.c: In function 'LinkTwoFeatures': sqnutil1.c:18204:25: warning: variable 'prev_xref' set but not used [-Wunused-but-set-variable] SeqFeatXrefPtr xref, prev_xref, next_xref; ^ sqnutil1.c: In function 'RemoveBadCodonRecognizedCallback': sqnutil1.c:18750:13: warning: variable 'rcodon' set but not used [-Wunused-but-set-variable] Uint1 rcodon [4]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil1.c:63: sqnutil1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil1.c:2509:16: warning: 'GeneExtendFunc' defined but not used [-Wunused-function] static Boolean GeneExtendFunc (GatherContextPtr gcp) ^ sqnutil1.c:5290:13: warning: 'CleanupConsSplice' defined but not used [-Wunused-function] static void CleanupConsSplice (GBQualPtr gbq) ^ sqnutil1.c:7645:16: warning: 'IsStringSingleToken' defined but not used [-Wunused-function] static Boolean IsStringSingleToken (CharPtr str) ^ sqnutil1.c:10250:13: warning: 'SortGoTermsSfp' defined but not used [-Wunused-function] static void SortGoTermsSfp ( ^ sqnutil1.c:10364:16: warning: 'CleanUpSgml' defined but not used [-Wunused-function] static CharPtr CleanUpSgml ( ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sqnutil2.c sqnutil2.c: In function 'FindResidueByName': sqnutil2.c:5197:11: warning: variable 'last' set but not used [-Wunused-but-set-variable] Uint1 last; ^ sqnutil2.c: In function 'ReadFeatureTableEx': sqnutil2.c:7202:18: warning: variable 'isnote' set but not used [-Wunused-but-set-variable] Boolean isnote; ^ sqnutil2.c:7194:18: warning: variable 'endsinspace' set but not used [-Wunused-but-set-variable] Boolean endsinspace; ^ sqnutil2.c: In function 'SeqEntryCopyReplace': sqnutil2.c:9199:8: warning: variable 'type' set but not used [-Wunused-but-set-variable] Uint1 type = 0; ^ sqnutil2.c: In function 'StreamingReadBioseq': sqnutil2.c:10024:10: warning: variable 'level' set but not used [-Wunused-but-set-variable] Int2 level; ^ sqnutil2.c: In function 'StreamAsnForDescriptors': sqnutil2.c:10257:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (rval = StreamingReadSeqEntry (aip, sp, &sr)) { ^ sqnutil2.c: In function 'StreamingReadWriteSeqSubmit': sqnutil2.c:10637:1: warning: label 'ret' defined but not used [-Wunused-label] ret: ^ sqnutil2.c: In function 'WriteAsnWithReplacedDescriptors': sqnutil2.c:10676:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (rval = StreamingReadWriteSeqEntry(desc_stream_list, aip_in, aip_out, sp)) { ^ sqnutil2.c: In function 'ReadFeatureTableFile': sqnutil2.c:11627:18: warning: variable 'begin' set but not used [-Wunused-but-set-variable] Int4 begin; ^ sqnutil2.c: In function 'ReadFastaOnly': sqnutil2.c:11821:18: warning: variable 'seqid' set but not used [-Wunused-but-set-variable] Char seqid [2048]; ^ sqnutil2.c: In function 'ReadDeltaFastaWithEmptyDefline': sqnutil2.c:12352:29: warning: variable 'seqid' set but not used [-Wunused-but-set-variable] Char line [4096], seqid [2048]; ^ sqnutil2.c: In function 'PrintQualityScoresToBuffer': sqnutil2.c:12958:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil2.c: In function 'GetScoresbySeqId': sqnutil2.c:13367:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil2.c: In function 'IsStringInSpanInList': sqnutil2.c:17223:11: warning: variable 'str_val' set but not used [-Wunused-but-set-variable] Int4 str_val; ^ sqnutil2.c:17221:27: warning: variable 'suffix_len' set but not used [-Wunused-but-set-variable] Int4 prefix_len = 0, suffix_len; ^ sqnutil2.c: In function 'CreateStructuredCommentsFromFile': sqnutil2.c:19251:35: warning: variable 'vnp_h' set but not used [-Wunused-but-set-variable] ValNodePtr table, header, line, vnp_h, vnp_l, tmp; ^ sqnutil2.c: In function 'AlignmentIntervalToString': sqnutil2.c:19615:14: warning: variable 'target_strand' set but not used [-Wunused-but-set-variable] Uint1 target_strand; ^ sqnutil2.c:19614:14: warning: variable 'seq_len' set but not used [-Wunused-but-set-variable] Int4 seq_len; ^ sqnutil2.c: In function 'AdjustForConsensusSpliceCallback': sqnutil2.c:20781:33: warning: variable 'partial5_last' set but not used [-Wunused-but-set-variable] Boolean partial5, partial3, partial5_last, partial3_last, first = TRUE; ^ sqnutil2.c: In function 'RemoveGIProc': sqnutil2.c:21356:18: warning: variable 'nextid' set but not used [-Wunused-but-set-variable] SeqIdPtr nextid, sip; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil2.c:58: sqnutil2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil2.c:4661:16: warning: 'IsNonSeqChar' defined but not used [-Wunused-function] static Boolean IsNonSeqChar (Char ch, Boolean is_prot) ^ sqnutil2.c:8266:16: warning: 'DoesSeqEntryAccessionMatchList' defined but not used [-Wunused-function] static Boolean DoesSeqEntryAccessionMatchList (SeqEntryPtr sep, ValNodePtr accn_list) ^ sqnutil2.c:16055:13: warning: 'RevCompFeatsOnBioseq' defined but not used [-Wunused-function] static void RevCompFeatsOnBioseq (BioseqPtr bsp) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sqnutil3.c sqnutil3.c: In function 'BspLinkCDSmRNAbyOverlap': sqnutil3.c:526:22: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil3.c: In function 'CautiousSeqEntryCleanup': sqnutil3.c:2265:16: warning: variable 'taxserver' set but not used [-Wunused-but-set-variable] Boolean taxserver; ^ sqnutil3.c: In function 'ConvertSegSetsToDeltaSequences': sqnutil3.c:3376:17: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp, new_bsp = NULL; ^ sqnutil3.c:3370:26: warning: variable 'prev_sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sub_sep, prev_sep, next_sep; ^ sqnutil3.c: In function 'MakeSequinDataFromAlignmentEx': sqnutil3.c:5124:32: warning: variable 'num_sets' set but not used [-Wunused-but-set-variable] Int4 index, curr_seg, num_sets; ^ sqnutil3.c:5118:26: warning: variable 'salp_last' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp_list, salp_last; ^ sqnutil3.c:5118:15: warning: variable 'salp_list' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp_list, salp_last; ^ sqnutil3.c: In function 'GetCDSformRNA': sqnutil3.c:19157:8: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil3.c: In function 'FindTextInFlatfileEx': sqnutil3.c:20891:19: warning: variable 'okay' set but not used [-Wunused-but-set-variable] Boolean okay; ^ sqnutil3.c: In function 'CheckForTitleAuthorConflicts': sqnutil3.c:21972:14: warning: variable 'author_conflict' set but not used [-Wunused-but-set-variable] Boolean author_conflict = FALSE; ^ sqnutil3.c: In function 'SortVnpByBspProjectId': sqnutil3.c:25733:31: warning: the comparison will always evaluate as 'true' for the address of 'vnp2' will never be NULL [-Waddress] if (vnp1 != NULL &&& vnp2 != NULL) { ^ sqnutil3.c: In function 'GetDiscrepancyItemTextEx': sqnutil3.c:28202:21: warning: variable 'special_flag' set but not used [-Wunused-but-set-variable] Boolean special_flag = FALSE; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil3.c:62: sqnutil3.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil3.c:9621:19: warning: 'FreePrefixCheckList' defined but not used [-Wunused-function] static ValNodePtr FreePrefixCheckList (ValNodePtr prefix_list) ^ sqnutil3.c:9672:25: warning: 'InconsistentLocusTagPrefix' defined but not used [-Wunused-function] static ClickableItemPtr InconsistentLocusTagPrefix (PrefixCheckPtr pcp) ^ sqnutil3.c:9755:13: warning: 'GeneLocusTagDiscrepancyCallback' defined but not used [-Wunused-function] static void GeneLocusTagDiscrepancyCallback (ValNodePtr item_list, Pointer userdata) ^ sqnutil3.c:10252:13: warning: 'ExtractVnpByStringSearch' defined but not used [-Wunused-function] static void ExtractVnpByStringSearch (ValNodePtr PNTR list, CharPtr search) ^ sqnutil3.c:13399:16: warning: 'ContainsBracketsOrParentheses' defined but not used [-Wunused-function] static Boolean ContainsBracketsOrParentheses (CharPtr pattern, CharPtr search) ^ sqnutil3.c:16581:24: warning: 'IntervalPairFree' defined but not used [-Wunused-function] static IntervalPairPtr IntervalPairFree (IntervalPairPtr i) ^ sqnutil3.c:18676:24: warning: 'SortVnpByHaplotypeThenSequenceAllowNDiff' defined but not used [-Wunused-function] static int LIBCALLBACK SortVnpByHaplotypeThenSequenceAllowNDiff (VoidPtr ptr1, VoidPtr ptr2) ^ sqnutil3.c:19971:16: warning: 'FeatureCountHasNumFeats' defined but not used [-Wunused-function] static Boolean FeatureCountHasNumFeats (ValNodePtr vnp, Pointer data) ^ sqnutil3.c:23725:13: warning: 'FindSuspectrRNAProductsCallback' defined but not used [-Wunused-function] static void FindSuspectrRNAProductsCallback (SeqFeatPtr sfp, Pointer data) ^ sqnutil3.c:31396:13: warning: 'FindBadGPS' defined but not used [-Wunused-function] static void FindBadGPS (BioseqPtr bsp, Pointer userdata) ^ sqnutil3.c:31404:1: warning: 'BarcodeTestForSeqEntry' defined but not used [-Wunused-function] BarcodeTestForSeqEntry ^ sqnutil3.c:33544:13: warning: 'TestLatLonFormatting' defined but not used [-Wunused-function] static void TestLatLonFormatting (FILE *fp) ^ sqnutil3.c: In function 'FillInMissingTraces': sqnutil3.c:31968:12: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ sqnutil3.c: In function 'LinkCDSmRNAbyLabelAndLocationCallback': sqnutil3.c:889:23: warning: 'best_diff' may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (diff < best_diff) { ^ sqnutil3.c: In function 'ValidateInferenceQualifier': sqnutil3.c:6033:6: warning: 'rest' may be used uninitialized in this function [-Wmaybe-uninitialized] ch = *rest; ^ sqnutil3.c:6087:13: warning: 'best' may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (best == 12) { ^ sqnutil3.c: In function 'tRNASameStrandBioseqCallback': sqnutil3.c:16126:8: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized] if (strand == Seq_strand_minus) { ^ sqnutil3.c: In function 'CheckForDivConflicts': sqnutil3.c:7901:28: warning: 'sdp' may be used uninitialized in this function [-Wmaybe-uninitialized] else ValNodeAddPointer(&(grp_sdp[i]), OBJ_SEQDESC, sdp); ^ sqnutil3.c: In function 'FindMismatchedComments': sqnutil3.c:25390:47: warning: 'sdp' may be used uninitialized in this function [-Wmaybe-uninitialized] sprintf (fmt, sub_fmt, (CharPtr) sdp->data.ptrvalue); ^ sqnutil3.c: In function 'FixCountryColons': sqnutil3.c:7523:14: warning: 'biop' may be used uninitialized in this function [-Wmaybe-uninitialized] for (ssp = biop->subtype; ssp != NULL; ssp = ssp->next) { ^ sqnutil3.c: In function 'AddmRNAForCDS': sqnutil3.c:19565:3: warning: 'rna' may be used uninitialized in this function [-Wmaybe-uninitialized] return rna; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sqnutil4.c sqnutil4.c: In function 'ListClauses': sqnutil4.c:8272:43: warning: variable 'twobefore' set but not used [-Wunused-but-set-variable] FeatureClausePtr thisclause, onebefore, twobefore, oneafter, twoafter; ^ sqnutil4.c: In function 'SmashOneTallClause': sqnutil4.c:9576:20: warning: variable 'subclause_featlist' set but not used [-Wunused-but-set-variable] ValNodePtr subclause_featlist; ^ sqnutil4.c: In function 'GetFeatureClauseForSeg': sqnutil4.c:10448:21: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start, stop; ^ sqnutil4.c: In function 'IsAmplifiedMiscFeat': sqnutil4.c:10701:9: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && (StringNICmp (sfp->comment, phrase1, StringLen (phrase1)) == 0) ^ sqnutil4.c: In function 'ConvertProtToImpFunc': sqnutil4.c:13849:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil4.c: In function 'ExtraCDSCreationActions': sqnutil4.c:14728:28: warning: variable 'nsep' set but not used [-Wunused-but-set-variable] SeqEntryPtr psep, nsep; ^ sqnutil4.c: In function 'TESTDisplayQualCombo': sqnutil4.c:15752:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Int4 val; ^ sqnutil4.c: In function 'ConvertCDSToMatPeptideForOverlappingCDS': sqnutil4.c:17198:15: warning: variable 'crp' set but not used [-Wunused-but-set-variable] CdRegionPtr crp; ^ sqnutil4.c: In function 'AddNewUniqueAnnotations': sqnutil4.c:17372:39: warning: variable 'sap_tmp_next' set but not used [-Wunused-but-set-variable] SeqAnnotPtr sap, sap_next, sap_tmp, sap_tmp_next, sap_copy, last_sap; ^ sqnutil4.c: In function 'AssignBioseqToLineageGroup': sqnutil4.c:18024:27: warning: variable 'vnp_last' set but not used [-Wunused-but-set-variable] ValNodePtr list, vnp, vnp_last = NULL; ^ sqnutil4.c: In function 'ImportNucleotideFASTASequencesFromFile': sqnutil4.c:26442:17: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int4 count; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from sqnutil4.c:58: sqnutil4.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/tax3api.h:51:0, from sqnutil4.c:63: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil4.c:4945:13: warning: 'CountFeatures' defined but not used [-Wunused-function] static Int4 CountFeatures ( ^ sqnutil4.c:9510:13: warning: 'RemoveFeats' defined but not used [-Wunused-function] static void RemoveFeats ( ^ sqnutil4.c:9674:13: warning: 'SmashTallClauses' defined but not used [-Wunused-function] static void SmashTallClauses ( ^ sqnutil4.c:9705:19: warning: 'RemoveAllButLastCDS' defined but not used [-Wunused-function] static ValNodePtr RemoveAllButLastCDS ( ^ sqnutil4.c:15584:16: warning: 'RemoveFieldFromUniqBioSrcGrpList' defined but not used [-Wunused-function] static Boolean RemoveFieldFromUniqBioSrcGrpList (ValNodePtr list, FieldTypePtr field) ^ sqnutil4.c:15872:19: warning: 'ExpandOneComboListUsingAllPresentQuals' defined but not used [-Wunused-function] static ValNodePtr ExpandOneComboListUsingAllPresentQuals (QualComboPtr q) ^ sqnutil4.c:15901:13: warning: 'TESTDisplayList' defined but not used [-Wunused-function] static void TESTDisplayList (ValNodePtr new_list) ^ sqnutil4.c: In function 'ConvertProtToImpFunc': sqnutil4.c:14023:13: warning: 'topOfGbqList' may be used uninitialized in this function [-Wmaybe-uninitialized] sfp->qual = topOfGbqList; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF subutil.c subutil.c: In function 'AddSeqLitToBioseq': subutil.c:769:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ subutil.c: In function 'AddReferenceToSegmentedEntry': subutil.c:1163:22: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqEntryPtr tmp, prev; ^ subutil.c: In function 'GetDNAConv': subutil.c:1624:8: warning: array subscript has type 'char' [-Wchar-subscripts] dnaconv[*ptr] = *ptr; ^ subutil.c: In function 'GetProteinConv': subutil.c:1646:8: warning: array subscript has type 'char' [-Wchar-subscripts] protconv[*ptr] = *ptr; ^ subutil.c: In function 'AddBasesToByteStore': subutil.c:1669:9: warning: array subscript has type 'char' [-Wchar-subscripts] residue = dnaconv[ch]; ^ subutil.c: In function 'AddAAsToByteStore': subutil.c:1700:9: warning: array subscript has type 'char' [-Wchar-subscripts] residue = aaconv[ch]; ^ subutil.c: In function 'CitArtBuild': subutil.c:2683:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, tmp; ^ subutil.c: At top level: subutil.c:3546:20: warning: 'TranslateCdRegionNew' defined but not used [-Wunused-function] static SeqEntryPtr TranslateCdRegionNew ( ^ subutil.c: In function 'AddGapToSegmentedEntry': subutil.c:1140:27: warning: 'bsp' may be used uninitialized in this function [-Wmaybe-uninitialized] sip->id = SeqIdDup(bsp->id); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF edutil.c edutil.c: In function 'SeqLocsToDeltaSeqs': edutil.c:795:14: warning: variable 'sip' set but not used [-Wunused-but-set-variable] SeqIdPtr sip; ^ edutil.c: In function 'SeqLocCopyPart': edutil.c:2243:13: warning: variable 'done' set but not used [-Wunused-but-set-variable] Boolean done, started, wasa_null, hada_null; ^ edutil.c: In function 'IndexedSeqFeatsCopy': edutil.c:2400:16: warning: variable 'region' set but not used [-Wunused-but-set-variable] ValNodePtr region; ^ edutil.c: In function 'SeqFeatsCopy': edutil.c:2504:16: warning: variable 'region' set but not used [-Wunused-but-set-variable] ValNodePtr region; ^ edutil.c: In function 'SeqLocInsert': edutil.c:3686:10: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff, numpnt, i, tpos; ^ edutil.c: In function 'SeqEdRecreateDeletedFeats': edutil.c:4212:19: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SeqFeatPtr sfp; ^ edutil.c: In function 'SeqEdSeqLocInsert': edutil.c:4512:8: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff, numpnt, i, tpos; ^ edutil.c: In function 'SeqEdSeqLocDelete': edutil.c:5069:10: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff; ^ edutil.c: In function 'SeqEdInsertAdjustFeat': edutil.c:5300:7: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c: In function 'SeqEdDeleteFromBsp': edutil.c:6485:11: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c:6548:11: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c:6437:21: warning: variable 'merge_mode' set but not used [-Wunused-but-set-variable] Boolean merge_mode; ^ edutil.c:6428:21: warning: variable 'feats_altered' set but not used [-Wunused-but-set-variable] Boolean feats_altered = FALSE; ^ edutil.c: In function 'BioseqCopyEx': edutil.c:2152:25: warning: 'head' may be used uninitialized in this function [-Wmaybe-uninitialized] newbsp->seq_ext = (Pointer)head; ^ edutil.c: In function 'BioseqInsert': cc1: warning: assuming signed overflow does not occur when assuming that (X - c) > X is always false [-Wstrict-overflow] edutil.c: In function 'SeqEdInsert': cc1: warning: assuming signed overflow does not occur when assuming that (X - c) > X is always false [-Wstrict-overflow] gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2ff1.c asn2ff1.c: In function 'asn2ff_print': asn2ff1.c:289:17: warning: unused variable 'dsp' [-Wunused-variable] DescrStructPtr dsp = NULL; ^ asn2ff1.c: In function 'Asn2ffJobCreate': asn2ff1.c:351:18: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID = 0; ^ asn2ff1.c: In function 'SeqEntryToEntrez': asn2ff1.c:498:15: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp = NULL; ^ asn2ff1.c: In function 'SeqLocToFlat': asn2ff1.c:1518:19: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID=0; ^ asn2ff1.c: In function 'asn2ff_setup': asn2ff1.c:1579:12: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp; ^ asn2ff1.c: In function 'PrintStatusLine': asn2ff1.c:2197:15: warning: unused variable 'ptr' [-Wunused-variable] CharPtr u, ptr=NULL; ^ asn2ff1.c: In function 'asn2gb_setup': asn2ff1.c:2403:24: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (ajp->genome_view && gbp->map == FALSE || ajp->contig_view) { ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff1.c:45: asn2ff1.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff1.c:816:19: warning: 'SeqEntryToLinkStrEx' defined but not used [-Wunused-function] static LinkStrPtr SeqEntryToLinkStrEx(Asn2ffJobPtr ajp, SeqEntryPtr sep, LinkStrPtr lsp, Uint1 format) ^ asn2ff1.c:2171:16: warning: 'find_user_object' defined but not used [-Wunused-function] static Boolean find_user_object(BioseqPtr bsp) ^ asn2ff1.c:2189:13: warning: 'PrintStatusLine' defined but not used [-Wunused-function] static void PrintStatusLine(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff1.c: In function 'asn2embl_setup': asn2ff1.c:2754:7: warning: 'max' may be used uninitialized in this function [-Wmaybe-uninitialized] if (max == index+1) { ^ asn2ff1.c: In function 'asn2gp_setup': asn2ff1.c:2942:4: warning: 'feat_num' may be used uninitialized in this function [-Wmaybe-uninitialized] for (index=0; index < feat_num; index++) { ^ asn2ff1.c: In function 'SeqEntryToGBFlatNoSeq': asn2ff1.c:1292:15: warning: 'rsult' may be used uninitialized in this function [-Wmaybe-uninitialized] Boolean rsult; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2ff2.c asn2ff2.c: In function 'GetStrForBankit': asn2ff2.c:518:9: warning: unused variable 'i' [-Wunused-variable] Int2 i=0, ptrlen = 0; ^ asn2ff2.c: In function 'GetCommentByChoice': asn2ff2.c:769:34: warning: unused variable 'string' [-Wunused-variable] CharPtr buf = NULL, ptr = NULL, string=NULL, new_string=NULL, str=NULL; ^ asn2ff2.c: In function 'GP_GetSeqDescrComms': asn2ff2.c:1163:10: warning: unused variable 'got_comment' [-Wunused-variable] Boolean got_comment=FALSE; ^ asn2ff2.c: At top level: asn2ff2.c:1358:8: warning: return type defaults to 'int' [-Wreturn-type] static ChoicePID(SeqIdPtr sid) ^ asn2ff2.c: In function 'GetGibbsqCommentLength': asn2ff2.c:1600:7: warning: unused variable 'gibbsq' [-Wunused-variable] Int4 gibbsq=0, total; ^ asn2ff2.c: In function 'GatherDescrByChoice': asn2ff2.c:1864:8: warning: variable 'bspID' set but not used [-Wunused-but-set-variable] Uint2 bspID; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff2.c:218: asn2ff2.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff2.c:232:16: warning: 'has_comment' defined but not used [-Wunused-variable] static Boolean has_comment; ^ asn2ff2.c:680:16: warning: 'GetEvidence' defined but not used [-Wunused-function] static CharPtr GetEvidence(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff2.c:1190:16: warning: 'GetSPBlock' defined but not used [-Wunused-function] static CharPtr GetSPBlock (Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff2.c: In function 'GetCommentByChoice': asn2ff2.c:829:8: warning: 'is_other' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_other == TRUE && mfp->completeness) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2ff3.c asn2ff3.c: In function 'PutGeneFirst': asn2ff3.c:1662:26: warning: unused variable 'qual_temp' [-Wunused-variable] GBQualPtr gbqual, qual, qual_temp=NULL, qual_gene=NULL; ^ asn2ff3.c:1661:10: warning: unused variable 'still_looking' [-Wunused-variable] Boolean still_looking=TRUE; ^ asn2ff3.c: In function 'mRNAEvidenceComment': asn2ff3.c:1746:9: warning: unused variable 'Locus_id' [-Wunused-variable] Int4 Locus_id = 0; ^ asn2ff3.c: In function 'Add_gene_id': asn2ff3.c:3306:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'Nlm_VoidPtr' [-Wformat=] sprintf(val, "GeneID:%s", vnp->data.ptrvalue); ^ asn2ff3.c: In function 'Add_trid': asn2ff3.c:3712:7: warning: unused variable 'gi' [-Wunused-variable] Int4 gi = -1; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff3.c:628: asn2ff3.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff3.c:3291:13: warning: 'Add_gene_id' defined but not used [-Wunused-function] static void Add_gene_id (GeneStructPtr gsp, SeqFeatPtr sfp_out) ^ asn2ff3.c: In function 'GettRNAaa': asn2ff3.c:2185:8: warning: 'seq_code' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1 seq_code; ^ asn2ff3.c: In function 'Add_dbxref.isra.0': asn2ff3.c:858:14: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] if (val[0] != '\0') { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2ff4.c asn2ff4.c: In function 'FlatLocPoint': asn2ff4.c:437:15: warning: variable 'order' set but not used [-Wunused-but-set-variable] static Uint1 order[NUM_SEQID]; ^ asn2ff4.c: In function 'do_FlatLoc': asn2ff4.c:1122:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if ( ! FlatVirtLoc( bsp, slp)) ^ asn2ff4.c: At top level: asn2ff4.c:1347:8: warning: return type defaults to 'int' [-Wreturn-type] static CmpImpFeat (ImpFeatPtr f1, ImpFeatPtr f2) ^ asn2ff4.c: In function 'CreateImpFeatFromProt': asn2ff4.c:1659:14: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ asn2ff4.c: In function 'MatchNAGeneToFeat': asn2ff4.c:2196:17: warning: variable 'nsp' set but not used [-Wunused-but-set-variable] NoteStructPtr nsp; /* UNUSED */ ^ asn2ff4.c: In function 'MatchAAGeneToFeat': asn2ff4.c:2367:18: warning: variable 'nsp' set but not used [-Wunused-but-set-variable] NoteStructPtr nsp; /* UNUSED */ ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff4.c:273: asn2ff4.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff4.c: In function 'CheckNewSfpLoc.isra.0': asn2ff4.c:1767:16: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (SeqLocLen(slp) <= BioseqGetLen(bsp)) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2ff5.c asn2ff5.c: In function 'format_cit_sub': asn2ff5.c:1023:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] format == EMBLPEPT_FMT && afp->choice == 1) ^ asn2ff5.c:926:41: warning: variable 'need_space' set but not used [-Wunused-but-set-variable] Boolean need_comma = FALSE, /*UNUSED*/need_space = TRUE; ^ asn2ff5.c: In function 'format_thesis': asn2ff5.c:1213:20: warning: variable 'embl_format' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/embl_format = FALSE; ^ asn2ff5.c: In function 'format_book': asn2ff5.c:1296:10: warning: variable 'embl_format' set but not used [-Wunused-but-set-variable] Boolean embl_format = FALSE; ^ asn2ff5.c: In function 'format_jourarticle': asn2ff5.c:1680:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (ip->pages != NULL) ^ asn2ff5.c: In function 'StripParanthesis': asn2ff5.c:2124:12: warning: value computed is not used [-Wunused-value] temp++; *ptr_in++; ^ asn2ff5.c: In function 'PostARefErrMessage': asn2ff5.c:3005:20: warning: variable 'ignore_this' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/ignore_this, submit=FALSE, error; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff5.c:177: asn2ff5.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff5.c:188:26: warning: 'GetSubmitterName' declared 'static' but never defined [-Wunused-function] static CharPtr /*UNUSED*/GetSubmitterName PROTO ((Uint1 format, ValNodePtr pub)); ^ asn2ff5.c: In function 'FlatJournal': asn2ff5.c:1051:11: warning: 'afp' may be used uninitialized in this function [-Wmaybe-uninitialized] AffilPtr afp; ^ asn2ff5.c:2073:10: warning: 'temp' may be used uninitialized in this function [-Wmaybe-uninitialized] temp = StringMove (temp," "); ^ asn2ff5.c:1946:23: note: 'temp' was declared here CharPtr affil=NULL, temp, dup_pages=NULL, retval=NULL; ^ asn2ff5.c: In function 'CheckPubs': asn2ff5.c:2772:24: warning: 'status' may be used uninitialized in this function [-Wmaybe-uninitialized] PostARefErrMessage (ajp, bsp, psp, NULL, status, NULL); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2ff6.c asn2ff6.c: In function 'AddGBQual': asn2ff6.c:1327:18: warning: variable 'note' set but not used [-Wunused-but-set-variable] GBQualPtr curq, note = NULL; ^ asn2ff6.c: In function 'BioseqGetGBDivCodeEx': asn2ff6.c:1700:23: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int2 tech, /*UNUSED*/diff, retval = 0; ^ asn2ff6.c: In function 'GR_PrintPubs': asn2ff6.c:2297:41: warning: unused variable 'stop' [-Wunused-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2297:32: warning: unused variable 'start' [-Wunused-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2297:13: warning: variable 'pmid' set but not used [-Wunused-but-set-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2296:10: warning: unused variable 'descr' [-Wunused-variable] CharPtr descr = NULL; ^ asn2ff6.c: In function 'ValidateLocus': asn2ff6.c:2786:17: warning: variable 'base_locus_max' set but not used [-Wunused-but-set-variable] Int2 /*UNUSED*/base_locus_max, buf_index, exp, length, num_of_digits; ^ asn2ff6.c: In function 'ValidateOtherAccession': asn2ff6.c:2886:29: warning: unused variable 'FiveNum' [-Wunused-variable] Boolean FirstLetter=FALSE, FiveNum = FALSE; ^ asn2ff6.c:2886:10: warning: unused variable 'FirstLetter' [-Wunused-variable] Boolean FirstLetter=FALSE, FiveNum = FALSE; ^ asn2ff6.c: In function 'AddExtraAccessions': asn2ff6.c:3498:20: warning: variable 'ncbi' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/ncbi = FALSE; ^ In file included from ../include/asn2ff6.h:142:0, from asn2ff6.c:347: asn2ff6.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff6.c:2883:13: warning: 'ValidateOtherAccession' defined but not used [-Wunused-function] static Int2 ValidateOtherAccession(CharPtr new_buf, CharPtr orig_buf) ^ asn2ff6.c: In function 'ValidateLocus': asn2ff6.c:2786:44: warning: 'exp' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 /*UNUSED*/base_locus_max, buf_index, exp, length, num_of_digits; ^ asn2ff6.c: In function 'MakeBaseLocusAwp': asn2ff6.c:3070:49: warning: 'num_of_digits' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 index, length, base_locus_max, name_len, num_of_digits, num_seg; ^ asn2ff6.c: In function 'AddExtraAccessions': asn2ff6.c:3570:11: warning: 'si' may be used uninitialized in this function [-Wmaybe-uninitialized] si->to = bsp->length - 1; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2gnb1.c asn2gnb1.c: In function 'IsWholeWordSubstr': asn2gnb1.c:2092:19: warning: variable 'right' set but not used [-Wunused-but-set-variable] Boolean left, right; ^ asn2gnb1.c: In function 'DoOneSection': asn2gnb1.c:2363:24: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ asn2gnb1.c:2357:24: warning: variable 'bkmask' set but not used [-Wunused-but-set-variable] BlockMask bkmask; ^ asn2gnb1.c: In function 'Count2Seg': asn2gnb1.c:3215:18: warning: variable 'to' set but not used [-Wunused-but-set-variable] Int4 to; ^ asn2gnb1.c:3213:18: warning: variable 'parent' set but not used [-Wunused-but-set-variable] BioseqPtr parent; ^ asn2gnb1.c: At top level: asn2gnb1.c:3492:3: warning: missing braces around initializer [-Wmissing-braces] {TRUE, TRUE, TRUE, TRUE, TRUE, ^ asn2gnb1.c:3492:3: warning: (near initialization for 'flagTable[0].flags') [-Wmissing-braces] asn2gnb1.c: In function 'SeqIdWriteForTable': asn2gnb1.c:5571:13: warning: variable 'pdb' set but not used [-Wunused-but-set-variable] pdb = NULL, general = NULL, gi = NULL; ^ asn2gnb1.c:5570:40: warning: variable 'patent' set but not used [-Wunused-but-set-variable] SeqIdPtr accn = NULL, local = NULL, patent = NULL, ^ In file included from ../include/ncbi.h:58:0, from asn2gnb1.c:43: asn2gnb1.c: In function 'DoImmediateFormat': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb1.c:6704:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb1.c:6683:20: warning: variable 'is_www' set but not used [-Wunused-but-set-variable] Boolean is_www; ^ In file included from ../include/ncbi.h:58:0, from asn2gnb1.c:43: asn2gnb1.c: In function 'asn2gnbk_format': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb1.c:6825:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb1.c: In function 'asn2gnbk_cleanup': asn2gnb1.c:6871:21: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ asn2gnb1.c: In function 'SeqEntryToGnbk': asn2gnb1.c:7057:22: warning: variable 'userdata' set but not used [-Wunused-but-set-variable] Pointer userdata = NULL; ^ asn2gnb1.c:7052:22: warning: variable 'gbseq' set but not used [-Wunused-but-set-variable] GBSeqPtr gbseq = NULL; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb1.c:58: asn2gnb1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2gnb2.c asn2gnb2.c: In function 's_LocusAddSuffix': asn2gnb2.c:206:11: warning: variable 'ch' set but not used [-Wunused-but-set-variable] Char ch; ^ asn2gnb2.c: In function 'AddLocusBlock': asn2gnb2.c:1323:66: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if ((moltype >= 2 && moltype <= 8) || moltype >= 10 && moltype <= 11) { ^ asn2gnb2.c: In function 'AddDblinkBlock': asn2gnb2.c:2756:22: warning: variable 'parentID' set but not used [-Wunused-but-set-variable] Int4 parentID; ^ asn2gnb2.c: In function 'GetRefsOnBioseq': asn2gnb2.c:5448:22: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ asn2gnb2.c:5445:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb2.c:5439:22: warning: variable 'right' set but not used [-Wunused-but-set-variable] Int4 right; ^ asn2gnb2.c:5433:22: warning: variable 'left' set but not used [-Wunused-but-set-variable] Int4 left; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb2.c:57: asn2gnb2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2gnb3.c asn2gnb3.c: In function 'GetStatusForRefTrack': asn2gnb3.c:601:22: warning: variable 'urf' set but not used [-Wunused-but-set-variable] UserFieldPtr ufp, urf = NULL; ^ asn2gnb3.c: In function 'GetSourcesOnBioseq': asn2gnb3.c:4151:22: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ asn2gnb3.c:4149:22: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start; ^ asn2gnb3.c:4148:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb3.c: In function 'GetFeatsOnCdsProduct': asn2gnb3.c:5007:22: warning: variable 'isRefSeq' set but not used [-Wunused-but-set-variable] Boolean isRefSeq; ^ asn2gnb3.c: In function 'GetRemoteFeatsOnCdsProduct': asn2gnb3.c:5155:20: warning: variable 'lastsfp' set but not used [-Wunused-but-set-variable] SeqFeatPtr lastsfp; ^ asn2gnb3.c:5154:20: warning: variable 'lastsap' set but not used [-Wunused-but-set-variable] SeqAnnotPtr lastsap; ^ asn2gnb3.c:5153:20: warning: variable 'lastright' set but not used [-Wunused-but-set-variable] Int4 lastright; ^ asn2gnb3.c:5152:20: warning: variable 'lastleft' set but not used [-Wunused-but-set-variable] Int4 lastleft; ^ asn2gnb3.c:5151:20: warning: variable 'isRefSeq' set but not used [-Wunused-but-set-variable] Boolean isRefSeq; ^ asn2gnb3.c: In function 'GetFeatsOnBioseq': asn2gnb3.c:5376:22: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start; ^ asn2gnb3.c:5349:22: warning: variable 'icp' set but not used [-Wunused-but-set-variable] IntCdsBlockPtr icp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb3.c:57: asn2gnb3.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2gnb4.c asn2gnb4.c: In function 'FormatFeatureBlockQuals': asn2gnb4.c:3591:50: warning: "/*" within comment [-Wcomment] StringChr (str + 1, '(') == NULL /* && StringChr (str, ',') != NULL */) { ^ asn2gnb4.c:2969:24: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb4.c:2910:24: warning: variable 'at_end' set but not used [-Wunused-but-set-variable] Boolean at_end = FALSE; ^ asn2gnb4.c: In function 'FF_asn2gb_www_featkey': asn2gnb4.c:5180:16: warning: variable 'prefix' set but not used [-Wunused-but-set-variable] CharPtr prefix = "?"; ^ asn2gnb4.c: In function 'FormatFeatureBlockEx': asn2gnb4.c:6354:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ In file included from ../include/ncbi.h:58:0, from asn2gnb4.c:42: asn2gnb4.c: In function 'DoImmediateRemoteFeatureFormat': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb4.c:8448:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb4.c: In function 'FormatFeatureQuals': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb4.c:8521:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb4.c:57: asn2gnb4.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ asn2gnb4.c: In function 'FormatFeatureBlockEx': asn2gnb4.c:7398:24: warning: 'sep' may be used uninitialized in this function [-Wmaybe-uninitialized] oldscope = SeqEntrySetScope (sep); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2gnb5.c asn2gnb5.c: In function 'FormatCitBookArt': asn2gnb5.c:1874:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb5.c:57: asn2gnb5.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2gnb6.c asn2gnb6.c: In function 'FlatLocElement': asn2gnb6.c:2386:27: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (sintp->to > 0 && ^ asn2gnb6.c: In function 'FormatContigBlock': asn2gnb6.c:5401:20: warning: variable 'dspnext' set but not used [-Wunused-but-set-variable] DeltaSeqPtr dspnext; ^ asn2gnb6.c: In function 'FormatSequenceBlock': asn2gnb6.c:5855:21: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb6.c:57: asn2gnb6.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ftusrstr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gbfeat.c gbfeat.c: In function 'CkLabelType': gbfeat.c:1529:33: warning: suggest parentheses around '&&' within '||' [-Wparentheses] for (str = bptr; *str != '\0' && IS_ALPHA(*str) || IS_DIGIT(*str) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gbftglob.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gbparint.c gbparint.c: In function 'Nlm_gbparselex': gbparint.c:2128:24: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (*current_col != '\0') ^ gbparint.c: In function 'Nlm_gbparselex_ver': gbparint.c:2514:24: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (*current_col != '\0') ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF utilpars.c utilpars.c:113:8: warning: missing braces around initializer [-Wmissing-braces] "Ala", 'A', ^ utilpars.c:113:8: warning: (near initialization for 'ParFlat_AA_array[0]') [-Wmissing-braces] gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF utilpub.c utilpub.c: In function 'FindCit': utilpub.c:998:24: warning: variable 'ifp' set but not used [-Wunused-but-set-variable] ImpFeatPtr /*UNUSED*/ifp; ^ utilpub.c: In function 'ChangeCitQual': utilpub.c:1053:53: warning: variable 'pub' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, pubset = NULL, pub_min, /*UNUSED*/pub; ^ utilpub.c:1052:34: warning: variable 'descr' set but not used [-Wunused-but-set-variable] ValNodePtr PNTR vnpp, /*UNUSED*/descr; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ffprint.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF wprint.c ffprint.c: In function 'FFBSPrint': ffprint.c:347:19: warning: unused variable 'byte_sp' [-Wunused-variable] ByteStorePtr byte_sp = NULL; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from ffprint.c:127: ffprint.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ ffprint.c:420:16: warning: 'ff_print_insert' defined but not used [-Wunused-function] static CharPtr ff_print_insert(CharPtr str, CharPtr ins) ^ wprint.c: In function 'LocPrintGenome': wprint.c:1696:14: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep = NULL; ^ wprint.c:1695:25: warning: unused variable 'b' [-Wunused-variable] BioseqPtr bsp = NULL, b = NULL; ^ wprint.c:1695:13: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp = NULL, b = NULL; ^ wprint.c:1692:34: warning: unused variable 'temp' [-Wunused-variable] static Char buf[14], val[166], temp[166]; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from wprint.c:51: wprint.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ wprint.c:77:13: warning: 'link_pir' defined but not used [-Wunused-variable] static Char link_pir[MAX_WWWBUF]; ^ wprint.c:79:13: warning: 'link_gdb_map' defined but not used [-Wunused-variable] static Char link_gdb_map[MAX_WWWBUF]; ^ wprint.c: In function 'www_xref': wprint.c:1378:18: warning: 'prefix' may be used uninitialized in this function [-Wmaybe-uninitialized] ll = StringLen(prefix); ^ wprint.c:1377:17: warning: 'link' may be used uninitialized in this function [-Wmaybe-uninitialized] l = StringLen(link); ^ wprint.c: In function 'www_xref_button': wprint.c:1421:18: warning: 'prefix' may be used uninitialized in this function [-Wmaybe-uninitialized] ll = StringLen(prefix); ^ wprint.c:1420:17: warning: 'link' may be used uninitialized in this function [-Wmaybe-uninitialized] l = StringLen(link); ^ wprint.c: In function 'PrintSPBlock': wprint.c:1570:13: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] AddLink(s); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF satutil.c satutil.c: In function 'CopyFeatureFromAlign': satutil.c:1011:10: warning: variable 'check_gap' set but not used [-Wunused-but-set-variable] Boolean check_gap; ^ satutil.c: At top level: satutil.c:168:16: warning: 'bk_map_one_location' defined but not used [-Wunused-function] static Boolean bk_map_one_location(SeqLocPtr source_loc, SeqAlignPtr align, SeqIdPtr target_sip, Boolean check_gap, Int4Ptr r_start, Int4Ptr r_stop, SeqLocPtr PNTR head_slp) ^ satutil.c: In function 'CopyFeatureFromAlign': satutil.c:1329:13: warning: 'c_slp' may be used uninitialized in this function [-Wmaybe-uninitialized] new_slp = map_one_location(c_slp, align, target_id, gap_choice, &r_start, &r_stop); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqmgr.c seqmgr.c: In function 'SeqEntrySetScope': seqmgr.c:313:13: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean found; ^ seqmgr.c: In function 'ClearBioseqFindCache': seqmgr.c:899:14: warning: variable 'smp' set but not used [-Wunused-but-set-variable] SeqMgrPtr smp; ^ seqmgr.c: In function 'SeqMgrGetExtraDataForOmdp': seqmgr.c:3736:14: warning: variable 'omp' set but not used [-Wunused-but-set-variable] ObjMgrPtr omp; ^ seqmgr.c: In function 'CheckForTransSplice': seqmgr.c:5644:14: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqLocPtr prev, tmp; ^ seqmgr.c: In function 'SeqEntryAsnOut': seqmgr.c:11692:41: warning: variable 'aopp_desc' set but not used [-Wunused-but-set-variable] AsnOptionPtr aopp_feat = NULL, aopp_desc = NULL; ^ seqmgr.c:11692:23: warning: variable 'aopp_feat' set but not used [-Wunused-but-set-variable] AsnOptionPtr aopp_feat = NULL, aopp_desc = NULL; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqmgr.c:65: seqmgr.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ seqmgr.c: In function 'SeqMgrGetNextDescriptor': seqmgr.c:9580:71: warning: 'bssp' may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (omdp->datatype == OBJ_BIOSEQSET && bssp != NULL && bssp->seqentry != NULL) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmgr.c objmgr.c: In function 'ObjMgrSelectFunc2': objmgr.c:4031:22: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ objmgr.c: In function 'ObjMgrAlsoSelect': objmgr.c:4109:55: warning: 'ssp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqLocChangeIntervalle ((SeqLocPtr)ssp->region, (Int4)(SeqLocStart(region)), -1); ^ objmgr.c:4030:22: note: 'ssp' was declared here SelStructPtr ssp, next; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gather.c gather.c: In function 'AttachDataProc': gather.c:4825:30: warning: variable 'into_seqentry' set but not used [-Wunused-but-set-variable] Boolean no_good = FALSE, into_seqentry = FALSE; ^ gather.c: In function 'GatherSeqFeat': gather.c:1570:42: warning: 'newid' may be used uninitialized in this function [-Wmaybe-uninitialized] tslp = SeqLocReMap(newid, slp, cbp->loc, offset, rev); ^ gather.c:1530:86: warning: 'max_interval' may be used uninitialized in this function [-Wmaybe-uninitialized] lrdp = (GatherRangePtr)MemNew((size_t)((max_interval + 20) * sizeof(GatherRange))); ^ gather.c:1570:42: warning: 'offset' may be used uninitialized in this function [-Wmaybe-uninitialized] tslp = SeqLocReMap(newid, slp, cbp->loc, offset, rev); ^ gather.c:1532:40: warning: 'lrdp' may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(trdp); ^ gather.c: In function 'gather_align_data': gather.c:2447:33: warning: 'master_loc' may be used uninitialized in this function [-Wmaybe-uninitialized] c_start = SeqLocStart(master_loc); ^ gather.c:2436:70: warning: 'mag_val' may be used uninitialized in this function [-Wmaybe-uninitialized] t_range.right = t_range.left+len * mag_val -1; ^ gather.c: In function 'GatherBioseqFunc': gather.c:3314:34: warning: 'tlen' may be used uninitialized in this function [-Wmaybe-uninitialized] tlen -= seglen; ^ gather.c:3296:40: warning: 'trunc_r' may be used uninitialized in this function [-Wmaybe-uninitialized] if (trunc_r) ^ gather.c:3291:39: warning: 'trunc_l' may be used uninitialized in this function [-Wmaybe-uninitialized] if (trunc_l) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF accmmdbs.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF acccn3ds.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF lsqfetch.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF findrepl.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF codon.c codon.c: In function 'make_cds_paragraph': codon.c:262:7: warning: variable 'space_len' set but not used [-Wunused-but-set-variable] Int4 space_len, i; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF jzcoll.c jzcoll.c: In function 'load_default_matrix': jzcoll.c:99:4: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = webb_blosum62[i][j]; ^ jzcoll.c:99:4: warning: array subscript has type 'char' [-Wchar-subscripts] jzcoll.c:101:3: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]]['*'] = ss['*'][pchars[i]] = -4; ^ jzcoll.c:101:3: warning: array subscript has type 'char' [-Wchar-subscripts] jzcoll.c: In function 'GetUseThisGi': jzcoll.c:143:10: warning: unused variable 'retval' [-Wunused-variable] Boolean retval=FALSE; ^ jzcoll.c: In function 'buffer_for_feature': jzcoll.c:514:7: warning: unused variable 'i' [-Wunused-variable] Int2 i=0; ^ jzcoll.c: In function 'ProcessTextInsertion': jzcoll.c:878:7: warning: variable 'last_ins' set but not used [-Wunused-but-set-variable] Int4 last_ins; ^ jzcoll.c: In function 'satcollfunc': jzcoll.c:1723:12: warning: variable 'head' set but not used [-Wunused-but-set-variable] SeqLocPtr head; ^ jzcoll.c:1721:8: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ jzcoll.c:1720:7: warning: variable 'current_pos' set but not used [-Wunused-but-set-variable] Int4 current_pos; ^ jzcoll.c:1714:12: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp = NULL; ^ jzcoll.c: In function 'collect_anpnode_with_option': jzcoll.c:3053:13: warning: unused variable 'prev' [-Wunused-variable] ValNodePtr prev = NULL; ^ jzcoll.c: In function 'ck_seqfeat_extra': jzcoll.c:3414:10: warning: unused variable 'has_gb' [-Wunused-variable] Boolean has_gb = FALSE, has_med = FALSE; ^ jzcoll.c: In function 'load_open_close_sts_mark': jzcoll.c:4010:10: warning: variable 'collected' set but not used [-Wunused-but-set-variable] Boolean collected = FALSE; ^ jzcoll.c: In function 'FeatNodeCompProc': jzcoll.c:4225:20: warning: variable 'gr2' set but not used [-Wunused-but-set-variable] GatherRange gr1, gr2; ^ jzcoll.c:4225:15: warning: variable 'gr1' set but not used [-Wunused-but-set-variable] GatherRange gr1, gr2; ^ jzcoll.c: At top level: jzcoll.c:1654:16: warning: 'collect_sequence_label' defined but not used [-Wunused-function] static Boolean collect_sequence_label(Uint1 format) ^ jzcoll.c:2316:16: warning: 'stop_collecting_alignment' defined but not used [-Wunused-function] static Boolean stop_collecting_alignment(ValNodePtr anp_list, Int4 max_num) ^ jzcoll.c: In function 'load_text': jzcoll.c:421:39: warning: 'smtp' may be used uninitialized in this function [-Wmaybe-uninitialized] stdaa_res = SeqMapTableConvert(smtp, m_res); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF jzmisc.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF maputil.c maputil.c: In function 'load_gene_list': maputil.c:690:8: warning: variable 'val' set but not used [-Wunused-but-set-variable] Uint1 val; ^ maputil.c: In function 'gmarkfunc': maputil.c:985:13: warning: variable 'syn' set but not used [-Wunused-but-set-variable] ValNodePtr syn = NULL; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mconsist.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF macroapi.c macroapi.c: In function 'AdvancedStringCompare': macroapi.c:4416:23: warning: variable 'init_target_match_len' set but not used [-Wunused-but-set-variable] Int4 len1, len2, init_target_match_len = 0, target_match_len = 0; ^ macroapi.c: In function 'RemoveGBQualMatch': macroapi.c:6919:27: warning: variable 'does_match' set but not used [-Wunused-but-set-variable] Boolean rval = FALSE, does_match, do_remove; ^ macroapi.c: In function 'SetNameInPrimerList': macroapi.c:10517:21: warning: variable 'prev_pp' set but not used [-Wunused-but-set-variable] PCRPrimerPtr pp, prev_pp = NULL; ^ macroapi.c: In function 'SetSeqInPrimerList': macroapi.c:10538:21: warning: variable 'prev_pp' set but not used [-Wunused-but-set-variable] PCRPrimerPtr pp, prev_pp = NULL; ^ macroapi.c: In function 'GetCitListsForSeqEntry': macroapi.c:15443:19: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ macroapi.c:15441:19: warning: variable 'okay' set but not used [-Wunused-but-set-variable] Boolean okay; ^ macroapi.c: In function 'GetPubMLStatus': macroapi.c:17914:14: warning: variable 'csp' set but not used [-Wunused-but-set-variable] CitSubPtr csp; ^ macroapi.c: In function 'ApplyPartial5SetActionToSeqFeat': macroapi.c:24814:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'ApplyPartial3SetActionToSeqFeat': macroapi.c:24937:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'ApplyPartialBothSetActionToSeqFeat': macroapi.c:25004:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'FindPosBeforeFeat': macroapi.c:25301:15: warning: variable 'regulator' set but not used [-Wunused-but-set-variable] SeqFeatPtr regulator = NULL, candidate; ^ macroapi.c: In function 'PerformAutofixInSeqEntry': macroapi.c:28058:8: warning: unused variable 'num_created' [-Wunused-variable] Int4 num_created = 0; ^ macroapi.c: In function 'AddFileDescriptors': macroapi.c:28453:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (sdp = SeqDescAsnRead (aip, NULL)) { ^ macroapi.c: In function 'PreprocessAddDescriptorListMacro': macroapi.c:30069:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (sdp = SeqDescAsnRead (aip, NULL)) { ^ macroapi.c: In function 'SummarizeRemoveOutsideAction': macroapi.c:30940:11: warning: unused variable 'case_insensitive' [-Wunused-variable] CharPtr case_insensitive = " (case insensitive)"; ^ macroapi.c: In function 'GetObjectTableForTabTable': macroapi.c:35366:63: warning: variable 'last' set but not used [-Wunused-but-set-variable] ValNodePtr obj_table = NULL, obj_row, last_obj = NULL, tmp, last = NULL; ^ macroapi.c: In function 'CheckObjTableForExistingText': macroapi.c:35930:14: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ macroapi.c: In function 'FixSuspectProductNamesInEntrezGene': macroapi.c:38178:18: warning: variable 'prefix' set but not used [-Wunused-but-set-variable] CharPtr prefix = NULL; ^ macroapi.c: At top level: macroapi.c:1189:16: warning: 'IsObjectAppropriateForFieldPair' defined but not used [-Wunused-function] static Boolean IsObjectAppropriateForFieldPair (Uint1 choice, Pointer data, FieldPairTypePtr fieldpair) ^ macroapi.c:2760:13: warning: 'OriginFromOriginName' defined but not used [-Wunused-function] static Int4 OriginFromOriginName (CharPtr origin_name) ^ macroapi.c:4543:13: warning: 'TestAdvancedStringMatch' defined but not used [-Wunused-function] static void TestAdvancedStringMatch (void) ^ macroapi.c:5435:16: warning: 'DoesLocationMatchConstraint' defined but not used [-Wunused-function] static Boolean DoesLocationMatchConstraint (SeqLocPtr slp, LocationConstraintPtr lcp) ^ macroapi.c:10224:16: warning: 'HasMultiplePrimerSets' defined but not used [-Wunused-function] static Boolean HasMultiplePrimerSets (CharPtr value) ^ macroapi.c:15632:13: warning: 'InitBatchExtraForAECRActionAndObjectList' defined but not used [-Wunused-function] static void InitBatchExtraForAECRActionAndObjectList (BatchExtraPtr batch_extra, AECRActionPtr action, ValNodePtr object_list) ^ macroapi.c:35102:16: warning: 'IsFieldTypeProteinDesc' defined but not used [-Wunused-function] static Boolean IsFieldTypeProteinDesc (FieldTypePtr ft) ^ macroapi.c:20392:13: warning: 'GetFieldsFromAECR' defined but not used [-Wunused-function] static void GetFieldsFromAECR (AECRActionPtr act, FieldTypePtr PNTR pField, ValNodePtr PNTR pFieldPair) ^ macroapi.c:26150:13: warning: 'GetDescriptorTypeFromDescriptorChoice' defined but not used [-Wunused-function] static Int4 GetDescriptorTypeFromDescriptorChoice (Uint1 descriptor_choice) ^ macroapi.c: In function 'GetFeatureListForProteinBioseq': macroapi.c:34248:10: warning: 'sfp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (sfp != NULL) ^ macroapi.c: In function 'ConvertToSite': macroapi.c:24223:7: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] bsp = GetBioseqGivenSeqLoc (slp, sfp->idx.entityID); ^ macroapi.c: In function 'ConvertToBond': macroapi.c:24176:7: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] bsp = GetBioseqGivenSeqLoc (slp, sfp->idx.entityID); ^ macroapi.c: In function 'SetAuthorListFromString': macroapi.c:14074:30: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] name_list = FreeNameList (1, vnp); ^ macroapi.c: In function 'GetSourceQualFromBioSource': macroapi.c:10861:47: warning: 'subfield' may be used uninitialized in this function [-Wmaybe-uninitialized] str = GetThreeFieldSubfield (ssp->name, subfield); ^ macroapi.c: In function 'GetMultipleSourceQualsFromBioSource': macroapi.c:11008:45: warning: 'subfield' may be used uninitialized in this function [-Wmaybe-uninitialized] str = GetThreeFieldSubfield (ssp->name, subfield); ^ macroapi.c: In function 'RemoveSourceQualFromBioSource': macroapi.c:11189:52: warning: 'subfield' may be used uninitialized in this function [-Wmaybe-uninitialized] rval |= RemoveThreeFieldSubfield (&(ssp->name), subfield); ^ macroapi.c: In function 'CaptureRefBlockSerialNumbers': macroapi.c:15424:26: warning: 'ppr' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp->data.ptrvalue = ppr; ^ macroapi.c: In function 'SetFieldValueForObjectEx': macroapi.c:13405:29: warning: 'ipp' may be used uninitialized in this function [-Wmaybe-uninitialized] new_ipp[i] = ipp[i]; ^ macroapi.c:13352:21: note: 'ipp' was declared here Int4Ptr ipp, new_ipp; ^ macroapi.c:13378:29: warning: 'cpp' may be used uninitialized in this function [-Wmaybe-uninitialized] new_cpp[i] = cpp[i]; ^ macroapi.c:13350:21: note: 'cpp' was declared here CharPtr PNTR cpp; ^ macroapi.c: In function 'SetDBxrefForBioSource': macroapi.c:22815:12: warning: 'dbtag' may be used uninitialized in this function [-Wmaybe-uninitialized] if (dbtag->tag == NULL) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salpedit.c salpedit.c: In function 'SeqAlignInsert': salpedit.c:162:12: warning: variable 'ssp' set but not used [-Wunused-but-set-variable] StdSegPtr ssp; ^ salpedit.c:161:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ salpedit.c: At top level: salpedit.c:158:20: warning: 'SeqAlignInsert' defined but not used [-Wunused-function] static SeqAlignPtr SeqAlignInsert(SeqIdPtr from_id, Int4 from, Int4 to, Uint1 strand, SeqIdPtr to_id, Int4 pos, SeqAlignPtr head, Boolean merge, Boolean add_insertion) ^ salpedit.c:254:16: warning: 'is_gap_segment' defined but not used [-Wunused-function] static Boolean is_gap_segment(Int4Ptr c_starts, Int2 dim) ^ salpedit.c:1169:20: warning: 'JZSeqAlignMerge' defined but not used [-Wunused-function] static SeqAlignPtr JZSeqAlignMerge(SeqAlignPtr f_align, SeqIdPtr from_id, Int4 from, Int4 to, Uint1 strand, SeqIdPtr to_id, Int4 pos, SeqAlignPtr t_align) ^ salpedit.c:1281:13: warning: 'attach_new_align' defined but not used [-Wunused-function] static void attach_new_align(SeqAlignPtr new_salp, SeqAlignPtr PNTR old) { ^ salpedit.c:1387:14: warning: 'has_too_much_overlap' defined but not used [-Wunused-function] static Uint1 has_too_much_overlap (Int4 start_1, Int4 stop_1, Int4 start_2, Int4 stop_2) ^ salpedit.c:1422:16: warning: 'convert_ddp_to_array' defined but not used [-Wunused-function] static Int4Ptr convert_ddp_to_array (ValNodePtr ddp_list, Uint1 strand, Int2 s_order, Int4Ptr p_num) ^ salpedit.c:1479:16: warning: 'filter_this_seg' defined but not used [-Wunused-function] static Boolean filter_this_seg (DenseDiagPtr curr, DenseDiagPtr PNTR h_list, Int2 order) ^ salpedit.c:1560:13: warning: 'filter_wrong_orientation' defined but not used [-Wunused-function] static void filter_wrong_orientation (SeqAlignPtr align, Boolean same_orient) ^ salpedit.c:1605:16: warning: 'is_overlap' defined but not used [-Wunused-function] static Boolean is_overlap(BoolPtr status, Int4 from, Int4 len) ^ salpedit.c:1665:16: warning: 'free_diag_in_list' defined but not used [-Wunused-function] static Boolean free_diag_in_list(ValNodePtr ddp_list, DenseDiagPtr ddp) ^ salpedit.c:2653:16: warning: 'FigureAlignRange' defined but not used [-Wunused-function] static Boolean FigureAlignRange(SeqAlignPtr align, SeqLocPtr m_loc, SeqLocPtr s_loc) ^ salpedit.c:2835:13: warning: 'SeqAnnotWrite' defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^ salpedit.c:2939:20: warning: 'open_annot' defined but not used [-Wunused-function] static SeqAnnotPtr open_annot(CharPtr f_name) ^ salpedit.c:3836:13: warning: 'get_align_list_len' defined but not used [-Wunused-function] static Int4 get_align_list_len(SeqAlignPtr align) ^ salpedit.c:3850:13: warning: 'save_output' defined but not used [-Wunused-function] static void save_output (SeqIdPtr sip, CharPtr f_name, SeqAlignPtr align) ^ salpedit.c:3937:13: warning: 'reverse_seqloc' defined but not used [-Wunused-function] static void reverse_seqloc (SeqLocPtr s_loc) ^ salpedit.c:3968:18: warning: 'create_fake_bioseq' defined but not used [-Wunused-function] static BioseqPtr create_fake_bioseq(SeqLocPtr seq_loc, CharPtr fake_name) ^ salpedit.c:4016:18: warning: 'dup_mul_locs' defined but not used [-Wunused-function] static SeqLocPtr dup_mul_locs(SeqLocPtr slp) ^ salpedit.c:4046:16: warning: 'second_seq_has_gap' defined but not used [-Wunused-function] static Boolean second_seq_has_gap(BioseqPtr s_bsp) ^ salpedit.c:4073:17: warning: 'get_best_id' defined but not used [-Wunused-function] static SeqIdPtr get_best_id(BioseqPtr bsp) ^ salpedit.c:4120:18: warning: 'build_slp_for_gcontig' defined but not used [-Wunused-function] static SeqLocPtr build_slp_for_gcontig (BioseqPtr gcontig_bsp, SeqIdPtr gcontig_sip) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salpstat.c salpstat.c: In function 'DenseSegStats': salpstat.c:310:10: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if(dsp && (((mmatches || mmismatches) && bsp_1 && bsp_2)) || !(mmatches || mmismatches)) { ^ salpstat.c: In function 'SeqAlignScoreFix': salpstat.c:162:20: warning: 'sp_last' may be used uninitialized in this function [-Wmaybe-uninitialized] sp_last->next = (ScorePtr) MemNew(sizeof(Score)); ^ salpstat.c: In function 'DenseSegStats': salpstat.c:382:18: warning: 'spp_2' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(spp_2); ^ salpstat.c:381:18: warning: 'spp_1' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(spp_1); ^ salpstat.c: In function 'SeqAlignWindowScoreFN': salpstat.c:2038:45: warning: 'score' may be used uninitialized in this function [-Wmaybe-uninitialized] residue_score[pos]=score; ^ salpstat.c:2020:34: warning: 'pos' may be used uninitialized in this function [-Wmaybe-uninitialized] qgaps_score[last_pos]=-(g_open+len*g_ext); ^ salpstat.c: In function 'SeqAlignWindowScore': salpstat.c:2142:16: warning: 'scoreptr' may be used uninitialized in this function [-Wmaybe-uninitialized] FloatHiPtr scoreptr; ^ salpstat.c: In function 'SeqAlignSameIdMerge': salpstat.c:2291:33: warning: 'salp_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] salp_prev->next = SeqAlignNew(); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salpacc.c salpacc.c: In function 'SeqAlignStrand': salpacc.c:334:20: warning: unused variable 'this_strand' [-Wunused-variable] Uint1Ptr this_strand=Seq_strand_unknown; ^ salpacc.c: In function 'SeqAlignStop': salpacc.c:561:13: warning: 'this_stop' may be used uninitialized in this function [-Wmaybe-uninitialized] if(this_stop!=-1) ^ salpacc.c: In function 'SeqAlignMolType': salpacc.c:626:7: warning: 'bsp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (bsp!=NULL) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salprop.c salprop.c: In function 'CopySeqLocFromSeqAlign': salprop.c:291:12: warning: variable 'check_gap' set but not used [-Wunused-but-set-variable] Boolean check_gap; ^ salprop.c: In function 'FeatListToProp': salprop.c:1336:20: warning: variable 'feat_itemID' set but not used [-Wunused-but-set-variable] Uint4 feat_itemID; ^ In file included from salprop.c:42:0: salprop.c: At top level: ../include/salprop.h:50:16: warning: 'GBFeat' defined but not used [-Wunused-variable] static CharPtr GBFeat[number_GBFeat] = { ^ In file included from ../include/sqnutils.h:51:0, from salprop.c:46: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salprop.c: In function 'ApplyNewSeqFeat': salprop.c:620:11: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] j = stop - SeqLocStop(sfp_location); ^ salprop.c:514:17: note: 'stop' was declared here stop, ^ salprop.c:727:13: warning: 'sfp' may be used uninitialized in this function [-Wmaybe-uninitialized] crp = (CdRegionPtr) (sfp->data.value.ptrvalue); ^ salprop.c:674:17: note: 'sfp' was declared here SeqFeatPtr sfp; ^ salprop.c:733:24: warning: 'ppp.p5' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!sfp_p5 && ppp.p5) ^ salprop.c:679:17: note: 'ppp.p5' was declared here ParTials ppp; ^ salprop.c:679:17: warning: 'ppp.p3' may be used uninitialized in this function [-Wmaybe-uninitialized] salprop.c:861:53: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((val2=is_id_unique (entityID, SeqLocId(sfp->product)))) ^ salprop.c: In function 'MergeFunc': salprop.c:1299:22: warning: 'to_overlapp' may be used uninitialized in this function [-Wmaybe-uninitialized] target_slp=SeqLocIntNew (from_overlapp, to_overlapp, Seq_strand_plus, target_id); ^ salprop.c:1299:22: warning: 'from_overlapp' may be used uninitialized in this function [-Wmaybe-uninitialized] gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salsap.c salsap.c: In function 'DenseDiagToDenseSegFunc': salsap.c:2912:30: warning: variable 'slpstop2' set but not used [-Wunused-but-set-variable] slpstop1 = 0, slpstop2 = 0; ^ salsap.c:2912:16: warning: variable 'slpstop1' set but not used [-Wunused-but-set-variable] slpstop1 = 0, slpstop2 = 0; ^ salsap.c:2911:31: warning: variable 'slpstart2' set but not used [-Wunused-but-set-variable] Int4 slpstart1 = 0, slpstart2 = 0, ^ salsap.c:2911:16: warning: variable 'slpstart1' set but not used [-Wunused-but-set-variable] Int4 slpstart1 = 0, slpstart2 = 0, ^ salsap.c:2909:28: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start1 = 0, start2 = 0, ^ salsap.c:2909:16: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1 = 0, start2 = 0, ^ In file included from ../include/sqnutils.h:51:0, from salsap.c:47: salsap.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salsap.c:2157:16: warning: 'AreDenseSegSegmentsValid' defined but not used [-Wunused-function] static Boolean AreDenseSegSegmentsValid (DenseSegPtr dsp, Int4 start, Int4 num) ^ salsap.c:3631:13: warning: 'FindSeqAlignCallback' defined but not used [-Wunused-function] static void FindSeqAlignCallback (SeqEntryPtr sep, Pointer mydata, ^ salsap.c: In function 'SeqAlignEndExtend': salsap.c:986:18: warning: 'n_strands' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1Ptr n_strands; ^ salsap.c: In function 'CleanStrandsSeqAlign': salsap.c:1614:15: warning: 'dim' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 dim; ^ salsap.c:1669:39: warning: 'numseg' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j=0, k=numseg-1; jstrands = NULL; ^ salsap.c:1648:25: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->strands = NULL; ^ salsap.c: In function 'LocalAlignToSeqAnnotDimn': salsap.c:1851:9: warning: 'the_lens' may be used uninitialized in this function [-Wmaybe-uninitialized] while ( j < lens ) ^ salsap.c: In function 'multseqalign_from_pairseqalign': salsap.c:4394:19: warning: 'strandp' may be used uninitialized in this function [-Wmaybe-uninitialized] strandp++; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salstruc.c salstruc.c: In function 'data_collect_arrange': salstruc.c:1338:22: warning: variable 'maxscroll' set but not used [-Wunused-but-set-variable] Int4 maxscroll; ^ salstruc.c: In function 'ShowAlignmentText': salstruc.c:2203:29: warning: variable 'itemtype' set but not used [-Wunused-but-set-variable] Uint2 entityID, itemtype; ^ In file included from ../include/sqnutils.h:51:0, from salstruc.c:40: salstruc.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from salstruc.c:41: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salstruc.c: In function 'prot_to_rputprot': salstruc.c:739:6: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] for (k=0; kfeattype) == OBJ_BIOSEQ && (is_seqvisible(entityID, itemID, adp->seq_info)) ) ^ salstruc.c:872:19: note: 'entityID' was declared here Uint2 entityID; ^ salstruc.c:1093:44: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] seq_info->entityID=entityID; ^ salstruc.c:1005:17: note: 'entityID' was declared here Uint2 entityID; ^ salstruc.c: In function 'ShowAlignmentText': salstruc.c:2194:19: warning: 'bspsip' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqIdPtr bspsip; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salutil.c salutil.c: In function 'ReadBufferFromSap': salutil.c:128:24: warning: variable 'buffstart' set but not used [-Wunused-but-set-variable] Int4 bufflen, buffstart; ^ salutil.c:127:15: warning: variable 'sumstart' set but not used [-Wunused-but-set-variable] Int4 sumstart; ^ salutil.c: In function 'IS_protSeqLoc': salutil.c:594:11: warning: variable 'seq' set but not used [-Wunused-but-set-variable] CharPtr seq; ^ salutil.c: In function 'ReplaceSeqIdWithSeqId': salutil.c:1236:20: warning: variable 'oldscope' set but not used [-Wunused-but-set-variable] SeqEntryPtr oldscope; ^ salutil.c: In function 'del_ssp_fromid': salutil.c:1722:24: warning: variable 'pressp' set but not used [-Wunused-but-set-variable] SelEdStructPtr ssp, pressp = NULL; ^ salutil.c: In function 'checkCDSselect_forprotein': salutil.c:2510:12: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (feat != NULL) ^ salutil.c: In function 'NoMoreSegGapForOneAlignment': salutil.c:3647:8: warning: implicit declaration of function 'AlnMgr2IndexSingleChildSeqAlign' [-Wimplicit-function-declaration] AlnMgr2IndexSingleChildSeqAlign(salp); /* make sure it's dense-seg */ ^ In file included from ../include/sqnutils.h:51:0, from salutil.c:53: salutil.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salutil.c: In function 'sesp_to_slp': salutil.c:1927:18: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 j,k; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF udvseq.c udvseq.c: In function 'UDV_EncodeIdxFeat': udvseq.c:448:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Int4Ptr) index_g); ^ udvseq.c: In function 'UDV_BigEncodeIdxFeat': udvseq.c:473:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blocks.c blocks.c: In function 'IndexBlocks': blocks.c:928:19: warning: operation on 'segp_align->to' may be undefined [-Wsequence-point] segp_align->to = segp_align->to = -1; ^ blocks.c: In function 'IndexNewBlocks': blocks.c:1084:19: warning: operation on 'segp_align->to' may be undefined [-Wsequence-point] segp_align->to = segp_align->to = -1; ^ blocks.c: In function 'GetBlockOrientation': blocks.c:2383:4: warning: 'orient' may be used uninitialized in this function [-Wmaybe-uninitialized] return orient; ^ blocks.c: In function 'SAMergeBlocks': blocks.c:2165:21: warning: 'tmp2' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp2 = tmp2->next; ^ blocks.c:1572:28: warning: 'tmp_head' may be used uninitialized in this function [-Wmaybe-uninitialized] merged->segp_head = tmp_head; ^ blocks.c:1470:27: warning: 'tmp_curr' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp1->prev = tmp_curr; ^ blocks.c:1709:27: warning: 'prev' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp1->prev = prev; ^ blocks.c:1670:34: warning: 'new_sabp1' may be used uninitialized in this function [-Wmaybe-uninitialized] new_sabp1->segp_head = tmp_head; ^ blocks.c: In function 'SASplitBlock': blocks.c:2796:25: warning: 'segp2_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] segp2->prev = segp2_prev; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pgppop.c pgppop.c:309:4: warning: missing braces around initializer [-Wmissing-braces] 255, 255, 255, /* default 0 0xffffff - */ ^ pgppop.c:309:4: warning: (near initialization for 'DDV_PaletteRGB[0]') [-Wmissing-braces] pgppop.c: In function 'DDV_WWW_get_CDS_minus': pgppop.c:578:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ pgppop.c:576:5: warning: variable 'numivals2' set but not used [-Wunused-but-set-variable] numivals2=0; ^ pgppop.c: In function 'DDV_WWW_get_CDS_plus': pgppop.c:700:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ pgppop.c: In function 'GetClrFromClrGlobal': pgppop.c:1326:4: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] if (*((Uint4Ptr)rgb1 )== *((Uint4Ptr)rgb2)){ ^ pgppop.c:1326:4: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] pgppop.c: In function 'DDV_DisplayTopScale': pgppop.c:1549:7: warning: unused variable 'szBlank' [-Wunused-variable] Char szBlank[TABLE_LEFT_MARGIN+5]={""}; ^ pgppop.c: In function 'DDV_GetBLASTCompLine_1': pgppop.c:1985:21: warning: array subscript has type 'char' [-Wchar-subscripts] if (matrix[s][q]>0){ ^ pgppop.c:1985:21: warning: array subscript has type 'char' [-Wchar-subscripts] pgppop.c: In function 'DDV_DisplayDefaultAlign': pgppop.c:3418:13: warning: unused variable 'sabp' [-Wunused-variable] SABlockPtr sabp=NULL;/*indexed SeqAlign*/ ^ pgppop.c: In function 'DDV_ShowSeqAlign': pgppop.c:3761:10: warning: unused variable 'szPopSetAuth' [-Wunused-variable] Char szPopSetAuth[INFO_SIZE+1]={""}; ^ pgppop.c:3759:10: warning: unused variable 'szPopSetName' [-Wunused-variable] Char szPopSetName[INFO_SIZE+1]={""};/*article title of the Pop-Set*/ ^ pgppop.c: In function 'DDV_PrintPopSetSummary': pgppop.c:3932:9: warning: variable 'bPairwise' set but not used [-Wunused-but-set-variable] Boolean bPairwise=TRUE,bPrintTax,bPrintCom; ^ In file included from ../include/sqnutils.h:51:0, from pgppop.c:298: pgppop.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/asn2ff6.h:142:0, from pgppop.c:300: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/ddvcreate.h:143, from pgppop.c:303: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ pgppop.c:563:13: warning: 'DDV_WWW_get_CDS_minus' defined but not used [-Wunused-function] static void DDV_WWW_get_CDS_minus(SeqMgrFeatContextPtr context,Int4 start, ^ pgppop.c:2090:13: warning: 'DDV_HideMaskedLetters' defined but not used [-Wunused-function] static void DDV_HideMaskedLetters(CharPtr szSeqMaster,ParaGPtr pgp,ValNodePtr mask) ^ pgppop.c:2865:13: warning: 'DDV_GetGappedSequence' defined but not used [-Wunused-function] static void DDV_GetGappedSequence(SegmentPtr segp,CharPtr szSequence, ^ pgppop.c:2912:13: warning: 'DDV_PrintFastaGappedSequence' defined but not used [-Wunused-function] static void DDV_PrintFastaGappedSequence(CharPtr szSequence,FILE *fp) ^ pgppop.c: In function 'DDV_PopDisplay2': pgppop.c:1246:40: warning: 'pgp2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (pgp2 && ((pgp2->StopLetter-pgp2->StartLetter+1)>=AbsLengthAli)) { ^ pgppop.c:1253:14: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp->next=NULL; ^ pgppop.c: In function 'DDV_Print_Sequence': pgppop.c:1343:38: warning: 'idx' may be used uninitialized in this function [-Wmaybe-uninitialized] StringCpy(szColor,DDV_PaletteRGB_NAV[idx]); ^ pgppop.c:1308:9: note: 'idx' was declared here Uint4 i,idx; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF samutil.c samutil.c: In function 'DDE_Add': samutil.c:1850:22: warning: operation on 'pStack->StackMin' may be undefined [-Wsequence-point] pStack->StackMin = ++pStack->StackMin % DDE_STACK_SIZE; ^ samutil.c:1861:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_Prev': samutil.c:1925:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_Next': samutil.c:1956:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_ShowRow': samutil.c:2223:26: warning: variable 'NumRows' set but not used [-Wunused-but-set-variable] Int4 i, NumRows, HiRow, LowRow, tmp1, tmp2; ^ samutil.c: In function 'DDE_AddGapToEndOfAllRows': samutil.c:3345:41: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr ptxtList, last_vnp, vnp; ^ samutil.c: In function 'DDE_RightAddNode': samutil.c:3946:33: warning: variable 'new_vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, next_vnp, new_vnp; ^ samutil.c: In function 'DDE_LeftMergeAndAddNodeList': samutil.c:3996:24: warning: variable 'RetVal2' set but not used [-Wunused-but-set-variable] Boolean RetVal1, RetVal2, IsLeftAlignedGap, NodeDeleted; ^ samutil.c: In function 'DDE_RightMergeAndAddNodeList': samutil.c:4052:38: warning: variable 'RetVal2' set but not used [-Wunused-but-set-variable] Boolean RetVal=FALSE, RetVal1, RetVal2, HeadChanged; ^ samutil.c: In function 'DDE_ShiftRightBoundaryLeft1': samutil.c:4831:41: warning: variable 'Index' set but not used [-Wunused-but-set-variable] Int4 NumBlocks, i, NumRows, Index, BlockCount=0; ^ samutil.c: In function 'DDE_CreateArraysForDenseSeg': samutil.c:5267:22: warning: variable 'NumSegs' set but not used [-Wunused-but-set-variable] Int4 NumRows, NumSegs, i, StartIndex, StopIndex, ArrayIndex=0; ^ samutil.c: In function 'DDE_GetLastVNP': samutil.c:3382:3: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] return(last_vnp); ^ samutil.c: In function 'DDE_GetNumResidues': samutil.c:3405:13: warning: 'to' may be used uninitialized in this function [-Wmaybe-uninitialized] return((to-from) + 1); ^ samutil.c: In function 'DDE_RemoveGapFromEndOfAllRows': samutil.c:3293:14: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(last_vnp); ^ samutil.c:3273:15: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] last_msap = (MsaTxtDispPtr) last_vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_AddAGap': samutil.c:2660:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (vnp == pMidtxtList) { ^ samutil.c:3376:15: note: 'last_vnp' was declared here ValNodePtr last_vnp; ^ samutil.c: In function 'DDE_AddGapToEndOfAllRows': samutil.c:3357:9: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp = DDE_AddAGap(pEditInfo, i, last_vnp, FALSE, TRUE); ^ samutil.c: In function 'DDE_ShiftLeftList': samutil.c:4162:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) last_vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_ShiftRowLeft1': samutil.c:2564:13: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] last_msap = (MsaTxtDispPtr) last_vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_RemoveGap': samutil.c:3093:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_ShiftRowRight1': samutil.c:2595:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) DDE_GetLastVNP(ptxtList)->data.ptrvalue; ^ samutil.c: In function 'DDE_LastColumnIsAligned': samutil.c:4449:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_ShiftRightBoundaryLeft1': samutil.c:4449:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] samutil.c:3376:15: note: 'last_vnp' was declared here ValNodePtr last_vnp; ^ samutil.c: In function 'DDE_ShiftRightBoundaryRight1': samutil.c:4449:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) vnp->data.ptrvalue; ^ samutil.c:3376:15: note: 'last_vnp' was declared here ValNodePtr last_vnp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ddvcolor.c ddvcolor.c: In function 'DDV_GetColor': ddvcolor.c:1422:10: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ In file included from ../include/samutil.h:234:0, from ddvcolor.c:165: ddvcolor.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF viewmgr.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from viewmgr.c:167: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from viewmgr.c:168: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ viewmgr.c:683:13: warning: 'ViewMgr_Swap' defined but not used [-Wunused-function] static void ViewMgr_Swap(SeqAlign *salp1, SeqAlign *salp2) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ddvcreate.c ddvcreate.c:292:4: warning: missing braces around initializer [-Wmissing-braces] 255, 255, 255, /* default 0 0xffffff - */ ^ ddvcreate.c:292:4: warning: (near initialization for 'DDV_PaletteRGB[0]') [-Wmissing-braces] ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_1': ddvcreate.c:493:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgrGetNextAlnBit(mpplp->sap, amp)) ^ ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_2': ddvcreate.c:529:21: warning: variable 'more' set but not used [-Wunused-but-set-variable] Boolean more; ^ ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_EX2': ddvcreate.c:779:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgrGetNextAlnBit(mpplp->sap, amp)) ^ ddvcreate.c:690:21: warning: variable 'last' set but not used [-Wunused-but-set-variable] Boolean last; ^ ddvcreate.c:686:21: warning: variable 'PopulateTo' set but not used [-Wunused-but-set-variable] Int4 PopulateTo; ^ ddvcreate.c: In function 'DDV_DisplayNewBLAST': ddvcreate.c:1942:16: warning: variable 'what' set but not used [-Wunused-but-set-variable] Uint1 what; ^ ddvcreate.c: In function 'UDV_BigEncodeIdxFeat4': ddvcreate.c:2878:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/ddvcreate.h:143, from ddvcreate.c:245: ddvcreate.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ddvcreate.c:249: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ ddvcreate.c:525:16: warning: 'DDV_CreateDisplayFromIndex_2' defined but not used [-Wunused-function] static Boolean DDV_CreateDisplayFromIndex_2(SeqAlignPtr sap, MsaParaGPopListPtr mpplp, Int2 LineSize) ^ ddvcreate.c:2362:16: warning: 'DDV_DisplayBlastSAP' defined but not used [-Wunused-function] static Boolean DDV_DisplayBlastSAP(SeqAlignPtr sap, ValNodePtr mask, ^ ddvcreate.c: In function 'UAMgrIntUAMsg': ddvcreate.c:1141:11: warning: 'stop_middle' may be used uninitialized in this function [-Wmaybe-uninitialized] ubd->from=Start; ^ ddvcreate.c:1158:73: note: 'stop_middle' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1195:18: warning: 'start_middle' may be used uninitialized in this function [-Wmaybe-uninitialized] UABitDescrInit(&uamp->ubd[0],0,start_middle-1,TRUE); ^ ddvcreate.c:1158:60: note: 'start_middle' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1201:60: warning: 'halfBspLengthSeqR' may be used uninitialized in this function [-Wmaybe-uninitialized] UABitDescrInit(&uamp->ubd[1],halfBspLengthSeqL,MaxLength-halfBspLengthSeqR-1,TRUE); ^ ddvcreate.c:1158:24: note: 'halfBspLengthSeqR' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1141:11: warning: 'halfBspLengthSeqL' may be used uninitialized in this function [-Wmaybe-uninitialized] ubd->from=Start; ^ ddvcreate.c:1158:6: note: 'halfBspLengthSeqL' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c: In function 'DDV_PopulateDisplayForDisc': ddvcreate.c:1048:16: warning: 'vnp_para' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp_list[n-1]=vnp_para; ^ ddvcreate.c: In function 'UABuildDescriptor2': ddvcreate.c:1541:13: warning: 'stopcopy' may be used uninitialized in this function [-Wmaybe-uninitialized] *TotLength+=(stopcopy-startcopy);/*to be used for the display coord. system*/ ^ ddvcreate.c: In function 'DDV_DumpSAPInAFile': ddvcreate.c:1798:20: warning: 'matrix' may be used uninitialized in this function [-Wmaybe-uninitialized] DDV_AffichageParaG(mpplp,0,0,mpplp->LengthAli-1,mpplp->LengthAli,0,option, ^ ddvcreate.c: In function 'DDV_ReadSeqBin': ddvcreate.c:2571:13: warning: 'btr' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1Ptr btr; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF jsavlt.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF needleman.c needleman.c: In function 'NeedlemanWunschQuadraticByLoc': needleman.c:281:24: warning: variable 'bestDbPos' set but not used [-Wunused-but-set-variable] Int4 bestQueryPos, bestDbPos; /*position ending best score in ^ needleman.c:281:10: warning: variable 'bestQueryPos' set but not used [-Wunused-but-set-variable] Int4 bestQueryPos, bestDbPos; /*position ending best score in ^ needleman.c: In function 'FetchSequenceByLoc': needleman.c:202:13: warning: 'query' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1 * query; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF txalign.c txalign.c: In function 'addLinkoutForDefline': txalign.c:706:13: warning: variable 'hasLinkout' set but not used [-Wunused-but-set-variable] Boolean hasLinkout=FALSE; ^ txalign.c: In function 'addLinkoutForBioseq': txalign.c:774:13: warning: variable 'hasLinkout' set but not used [-Wunused-but-set-variable] Boolean hasLinkout=FALSE; ^ txalign.c: In function 'load_align_sum_for_StdSeg': txalign.c:2746:13: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (bsp = BioseqLockById(SeqLocId(ssp->loc->next))) { ^ txalign.c: In function 'ShowAlignNodeText2Ex': txalign.c:3546:13: warning: variable 'is_end' set but not used [-Wunused-but-set-variable] Boolean is_end, strip_semicolon=TRUE; ^ txalign.c: In function 'Tx_PrintDefLine': txalign.c:4595:7: warning: unused variable 'seqid_length' [-Wunused-variable] Int4 seqid_length = 0, total_length = 0; ^ txalign.c: In function 'PrintDefLinesFromSeqAlignWithPath': txalign.c:5010:39: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if (bestid != NULL && !(options & TXALIGN_NO_DUMPGNL) || (options & TXALIGN_NO_ENTREZ)) ^ txalign.c:5014:29: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (bsp = BioseqLockById(bestid)) { ^ txalign.c:4716:10: warning: unused variable 'ColumnDistance' [-Wunused-variable] Int2 ColumnDistance=2, extraSpace=0, extraSpace2=0, strLen=0, maxEvalWidth=5, maxNWidth=2; ^ txalign.c:4708:43: warning: unused variable 'sip_list' [-Wunused-variable] SeqIdPtr bestid, gi_list, subject_id, sip_list=NULL, last_id; ^ txalign.c:4704:17: warning: variable 'ptr_start' set but not used [-Wunused-but-set-variable] Char *ptr, *ptr_start, *eval_buff_ptr, *bit_score_buff_ptr; ^ txalign.c: In function 'FormatScoreFromSeqAlignEx': txalign.c:5333:25: warning: unused variable 't_adj' [-Wunused-variable] Int4 m_adj = 0, t_adj = 0; ^ txalign.c:5332:29: warning: unused variable 'last_t_to' [-Wunused-variable] Int4 last_m_to = 0, last_t_to = 0; ^ txalign.c: In function 'FSFPrintOneDefline': txalign.c:5441:14: warning: variable 'seqid_len' set but not used [-Wunused-but-set-variable] Int4 gi, seqid_len = 0; ^ txalign.c: In function 'FormatScoreFunc': txalign.c:5658:13: warning: variable 'allocated' set but not used [-Wunused-but-set-variable] Boolean allocated, first; ^ txalign.c: In function 'OOFShowSingleAlignment': txalign.c:6324:13: warning: array subscript has type 'char' [-Wchar-subscripts] else if(matrix[line1[line_index]][line2[line_index]] > 0) ^ txalign.c:6324:13: warning: array subscript has type 'char' [-Wchar-subscripts] txalign.c:6091:13: warning: variable 'lines' set but not used [-Wunused-but-set-variable] Int4 i, lines, k, shift_info = 0; ^ txalign.c: In function 'OOFDisplayTraceBack1': txalign.c:6579:33: warning: unused variable 'st' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c:6579:9: warning: unused variable 'tmp' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c: In function 'OOFDisplayTraceBack2': txalign.c:6653:33: warning: unused variable 'st' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c: In function 'FDGetTaxNamesFromBioseq': txalign.c:6755:21: warning: variable 'bdsp' set but not used [-Wunused-but-set-variable] BlastDefLinePtr bdsp; ^ txalign.c: At top level: txalign.c:630:16: warning: 'getNameInitials' defined but not used [-Wunused-function] static CharPtr getNameInitials(CharPtr name){ ^ txalign.c:828:19: warning: 'ProcessTextInsertion' declared 'static' but never defined [-Wunused-function] static ValNodePtr ProcessTextInsertion PROTO((AlignNodePtr anp, Int4 m_left, Int4 m_right, BioseqPtr bsp, Int4 line_len, Int1 frame)); ^ txalign.c:2336:16: warning: 'has_hit_in_region' defined but not used [-Wunused-function] static Boolean has_hit_in_region(Uint1Ptr all_frame) ^ txalign.c:3431:1: warning: 'get_seq_id' defined but not used [-Wunused-function] get_seq_id(SeqAlignPtr sap, Int2 index) ^ txalign.c: In function 'CreateMaskByteStore': txalign.c:940:4: warning: 'mol' may be used uninitialized in this function [-Wmaybe-uninitialized] if(mol == Seq_mol_aa) ^ txalign.c:988:8: note: 'mol' was declared here Uint1 mol; ^ txalign.c: In function 'OOFShowSingleAlignment.isra.9': txalign.c:6047:16: warning: 'pro_line_start' may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ^ txalign.c:6087:48: note: 'pro_line_start' was declared here Int4 dna_index, pro_index, dna_line_start, pro_line_start; ^ txalign.c:6047:16: warning: 'dna_line_start' may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ^ txalign.c:6087:32: note: 'dna_line_start' was declared here Int4 dna_index, pro_index, dna_line_start, pro_line_start; ^ txalign.c: In function 'find_score_in_align': txalign.c:2596:33: warning: 'smtp' may be used uninitialized in this function [-Wmaybe-uninitialized] stdaa_res = SeqMapTableConvert(smtp, t_res); ^ txalign.c:2496:20: note: 'smtp' was declared here SeqMapTablePtr smtp; ^ txalign.c:2457:31: warning: 't_spp' may be used uninitialized in this function [-Wmaybe-uninitialized] if(m_spp == NULL || t_spp == NULL) { ^ txalign.c:2392:23: note: 't_spp' was declared here SeqPortPtr m_spp, t_spp; ^ txalign.c:2457:14: warning: 'm_spp' may be used uninitialized in this function [-Wmaybe-uninitialized] if(m_spp == NULL || t_spp == NULL) { ^ txalign.c:2392:16: note: 'm_spp' was declared here SeqPortPtr m_spp, t_spp; ^ txalign.c: In function 'ShowAlignNodeText2Ex.isra.10': txalign.c:2282:25: warning: 'm_len' may be used uninitialized in this function [-Wmaybe-uninitialized] to = MIN(master_len-1, to + 3); ^ txalign.c:3541:10: note: 'm_len' was declared here Int4 m_len; /*length of the master sequence*/ ^ txalign.c: In function 'ShowTextAlignFromAnnot3': txalign.c:1244:13: warning: 'retval' may be used uninitialized in this function [-Wmaybe-uninitialized] Boolean retval, matrix_loaded=FALSE; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF fdlobj.c fdlobj.c: In function 'BlastDefLineSetAsnRead': fdlobj.c:69:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ fdlobj.c: In function 'BlastDefLineAsnRead': fdlobj.c:202:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF alignmgr2.c alignmgr2.c: In function 'AlnMgr2IndexSingleDenseSegSA': alignmgr2.c:875:13: warning: statement with no effect [-Wunused-value] for (j; jnumseg && next == -1; j++) ^ alignmgr2.c: In function 'AlnMgr2CopySeg': alignmgr2.c:2967:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (ldelta = ABS(s->beg - beg)) { ^ alignmgr2.c: In function 'AlnMgr2AddInNewPairwiseSA': alignmgr2.c:3204:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (a = AlnMgr2GetNextSeqPiece(a)) { ^ alignmgr2.c:3206:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (b = AlnMgr2GetNextLimitedSeqPiece(b, a)) { ^ alignmgr2.c:3216:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (A = AlnMgr2GetNextSeqPiece(A)) { ^ alignmgr2.c:3220:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (B = AlnMgr2GetNextLimitedSeqPiece(B, A)) {}; ^ alignmgr2.c: In function 'AlnMgr2SetUnaln': alignmgr2.c:5393:22: warning: variable 'dsp' set but not used [-Wunused-but-set-variable] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2PrintSeqAlign': alignmgr2.c:5606:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgr2GetNextAlnBit(sap, amp)) ^ alignmgr2.c: In function 'AlnMgr2GetNextAlnBit': alignmgr2.c:5702:21: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean found; ^ alignmgr2.c: In function 'AlnMgr2GetUnalignedInfo': alignmgr2.c:6068:22: warning: variable 'saip' set but not used [-Wunused-but-set-variable] SAIndex2Ptr saip; ^ alignmgr2.c: In function 'AlnMgr2GetInterruptInfo': alignmgr2.c:6314:7: warning: statement with no effect [-Wunused-value] for (i; isegnum; i++) ^ alignmgr2.c: In function 'AlnMgr2ComputeScoreForSeqAlign': alignmgr2.c:8324:17: warning: variable 'numseqs' set but not used [-Wunused-but-set-variable] Int4 numseqs; ^ alignmgr2.c:8322:17: warning: variable 'mismatch' set but not used [-Wunused-but-set-variable] Int4 mismatch; ^ alignmgr2.c:8321:17: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from alignmgr2.c:232: alignmgr2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignmgr2.c:2123:13: warning: 'AlnMgr2SortVerticesByNumEdges' defined but not used [-Wunused-function] static void AlnMgr2SortVerticesByNumEdges(AMVertexPtr PNTR vertexarray, Int4 numvertices) ^ alignmgr2.c:2351:18: warning: 'AlnMgr2GetEdgeList' defined but not used [-Wunused-function] static AMEdgePtr AlnMgr2GetEdgeList(Int4 vertexnum, AMEdgePtr edge_head, AMEdgePtr already_used) ^ alignmgr2.c:3540:13: warning: 'AlnMgr2AddInNewSA' defined but not used [-Wunused-function] static void AlnMgr2AddInNewSA(SeqAlignPtr parent, SeqAlignPtr sap) ^ alignmgr2.c:1051:13: warning: 'AlnMgr2UnpackSeqAlignChain' defined but not used [-Wunused-function] static void AlnMgr2UnpackSeqAlignChain(SeqAlignPtr sap) ^ alignmgr2.c: In function 'AlnMgr2GetLongestSeqLoc': alignmgr2.c:10114:15: warning: 'slp_longest' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqLocPtr slp_longest; ^ alignmgr2.c: In function 'AlnMgr2IndexLite': alignmgr2.c:991:33: warning: 'sap_segs_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] sap_segs_prev->next = (SeqAlignPtr)(sap_segs->segs); ^ alignmgr2.c:958:17: note: 'sap_segs_prev' was declared here SeqAlignPtr sap_segs_prev; ^ alignmgr2.c: In function 'AlnMgr2GetUnalignedInfo': alignmgr2.c:6095:54: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *from = dsp->starts[dsp->dim*i+row-1]+dsp->lens[i]; ^ alignmgr2.c: In function 'AlnMgr2GetMaxUnalignedLength': alignmgr2.c:7031:22: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] SAIndex2Ptr saip; ^ alignmgr2.c:7060:19: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] for (i=0; idim; i++) ^ alignmgr2.c: In function 'AlnMgr2GetInterruptInfo': alignmgr2.c:6336:16: warning: 'iip' may be used uninitialized in this function [-Wmaybe-uninitialized] iip->strand = strand; ^ alignmgr2.c:6165:19: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] trans = saip->srdp[saip->anchor-1]->sect; ^ alignmgr2.c:6321:32: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] iip->lens[k] += dsp->lens[i]; ^ alignmgr2.c: In function 'AlnMgr2GetNthSeqRangeInSA': alignmgr2.c:6459:16: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (n > saip->numrows || n <= 0) ^ alignmgr2.c:6472:57: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] beg = dsp->starts[srdp->sect[srdp->numsect-1]*(dsp->dim) + n-1]; ^ alignmgr2.c: In function 'AlnMgr2GetNthRowSpanInSA': alignmgr2.c:6516:16: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (n > saip->numrows || n <= 0) ^ alignmgr2.c:6541:41: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *stop = saip->aligncoords[i] + dsp->lens[srdp->sect[srdp->numsect-1]] - 1; ^ alignmgr2.c: In function 'AlnMgr2GetAlnLength': alignmgr2.c:6772:45: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] len += AlnMgr2GetMaxUnalignedLength(salp, i); ^ alignmgr2.c:6759:15: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->anchor == -1) ^ alignmgr2.c:6769:22: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] for (i=0; inumseg; i++) ^ alignmgr2.c: In function 'AlnMgr2GetNextAlnBit': alignmgr2.c:5757:44: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] start_sect = binary_search_on_uint4_list(saip->aligncoords, amp->real_from, saip->numseg); ^ alignmgr2.c:5978:19: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] endoffset = dsp->lens[trans[stop_sect]] - (amp->to_aln - saip->aligncoords[stop_sect]) - 1; ^ alignmgr2.c: In function 'AlnMgr2IsSAPDiscAli': alignmgr2.c:6796:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->numunaln > 0) ^ alignmgr2.c: In function 'AlnMgr2GetNumAlnBlocks': alignmgr2.c:6819:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->numunaln >= 0) ^ alignmgr2.c: In function 'AlnMgr2GetNthBlockRange': alignmgr2.c:6853:20: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = saip->aligncoords[saip->unaln[n-1]+1]; ^ alignmgr2.c: In function 'AlnMgr2GetNthUnalignedForNthRow': alignmgr2.c:6909:75: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] i = binary_search_on_uint2_list(saip->srdp[row-1]->unaligned, seg, saip->srdp[row-1]->numunaln); ^ alignmgr2.c:6919:65: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = dsp->starts[(saip->srdp[row-1]->unaligned[i])*dsp->dim+row-1] + dsp->lens[(saip->srdp[row-1]->unaligned[i])]; ^ alignmgr2.c: In function 'AlnMgr2GetNextLengthBit': alignmgr2.c:7001:25: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (*seg < saip->numunaln) ^ alignmgr2.c:6937:22: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2GetNumSegsInRange': alignmgr2.c:7168:62: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] start = binary_search_on_uint4_list(aligncoords, from, dsp->numseg); ^ alignmgr2.c:6021:13: warning: 'aligncoords' may be used uninitialized in this function [-Wmaybe-uninitialized] if (list == NULL || listlen == 0) ^ alignmgr2.c:7133:21: note: 'aligncoords' was declared here Uint4Ptr aligncoords; ^ alignmgr2.c: In function 'AlnMgr2MapBioseqToSeqAlign': alignmgr2.c:7602:18: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (row > saip->numrows) ^ alignmgr2.c:7573:21: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2MapSeqAlignToBioseq': alignmgr2.c:7700:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->anchor > 0) ^ alignmgr2.c:7713:36: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] return (dsp->starts[sect*(dsp->dim)+row-1] + dsp->lens[sect] - 1 - offset); ^ alignmgr2.c: In function 'AlnMgr2GetSubAlign': alignmgr2.c:8019:7: warning: 'sap_real' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((a = AlnMgr2FindAnchor(sap_real)) > 0) ^ alignmgr2.c: In function 'AlnMgr2FillInUnaligned': alignmgr2.c:9852:12: warning: 'offset' may be used uninitialized in this function [-Wmaybe-uninitialized] curr = curr + 1 + offset; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF alnread.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF acerdapi.c acerdapi.c: In function 'DoesSeqStringMatchBsp': acerdapi.c:201:30: warning: variable 'seq_len' set but not used [-Wunused-but-set-variable] Int4 ctr, pos = 0, i, len, seq_len; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from acerdapi.c:40: acerdapi.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF aceread.c aceread.c:134:12: warning: 's_IsGapChar' defined but not used [-Wunused-function] static int s_IsGapChar (char ch, char *gap_chars) ^ aceread.c:247:13: warning: 'AdjustGapInfoFor5Trim' defined but not used [-Wunused-function] static void AdjustGapInfoFor5Trim (TGapInfoPtr gap_info, int trim) ^ aceread.c:276:13: warning: 'AdjustGapInfoFor3Trim' defined but not used [-Wunused-function] static void AdjustGapInfoFor3Trim (TGapInfoPtr gap_info, int new_len) ^ aceread.c:3308:12: warning: 's_GetUngappedPosition' defined but not used [-Wunused-function] static int s_GetUngappedPosition (int gapped_pos, char *seq) ^ aceread.c: In function 's_ReadContig': aceread.c:1477:38: warning: 'linestring' may be used uninitialized in this function [-Wmaybe-uninitialized] if (linestring != NULL) free (linestring); ^ rm -f libncbiobj.a ar cru libncbiobj.a objacces.o objalign.o objall.o objbibli.o objfeat.o objgen.o objloc.o objmedli.o objpub.o objres.o objscoremat.o objseq.o objblock.o objcode.o objsset.o objsub.o objprt.o objfdef.o objalignloc.o objtable.o objpubme.o objmdrs.o objproj.o objgbseq.o objtseq.o objinsdseq.o objmacro.o objent2.o ent2api.o pmfapi.o objtax3.o tax3api.o objegkludge.o objentgene.o objmla2.o mla2api.o qblastapi.o vecscnapi.o objmim.o objvalid.o mimapi.o cddapi.o seqport.o sequtil.o prtutil.o simple.o tofasta.o tofile.o tomedlin.o valid.o valapi.o alignmgr.o aliparse.o aliread.o alignval.o sqnutil1.o sqnutil2.o sqnutil3.o sqnutil4.o subutil.o edutil.o asn2ff1.o asn2ff2.o asn2ff3.o asn2ff4.o asn2ff5.o asn2ff6.o asn2gnb1.o asn2gnb2.o asn2gnb3.o asn2gnb4.o asn2gnb5.o asn2gnb6.o ftusrstr.o gbfeat.o gbftglob.o gbparint.o utilpars.o utilpub.o ffprint.o wprint.o satutil.o seqmgr.o objmgr.o gather.o accmmdbs.o acccn3ds.o lsqfetch.o findrepl.o codon.o jzcoll.o jzmisc.o maputil.o mconsist.o macroapi.o salpedit.o salpstat.o salpacc.o salprop.o salsap.o salstruc.o salutil.o udvseq.o blocks.o pgppop.o samutil.o ddvcolor.o viewmgr.o ddvcreate.o jsavlt.o needleman.o txalign.o fdlobj.o alignmgr2.o alnread.o acerdapi.o aceread.o cp -p libncbiobj.a ../lib ranlib ../lib/libncbiobj.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cdentrez.c cdentrez.c:1616:26: warning: 'FreePostingList' defined but not used [-Wunused-function] static ByteStorePtr NEAR FreePostingList (ByteStorePtr lst) ^ cdentrez.c:2935:23: warning: 'MedSumAsnRead' defined but not used [-Wunused-function] static DocSumPtr NEAR MedSumAsnRead (AsnIoPtr aip, DocUid uid) ^ cdentrez.c:283:23: warning: 'CdEntMlSumGet' declared 'static' but never defined [-Wunused-function] static DocSumPtr NEAR CdEntMlSumGet PROTO((Int4 uid)); ^ cdentrez.c:307:20: warning: 'BIOSEQ_id_E' defined but not used [-Wunused-variable] static AsnTypePtr BIOSEQ_id_E = NULL; ^ cdentrez.c:310:23: warning: 'CdEntSeqSumGet' declared 'static' but never defined [-Wunused-function] static DocSumPtr NEAR CdEntSeqSumGet PROTO((Int4 uid, DocType type)); ^ cdentrez.c: In function 'CdEntrezMergeTerm': cdentrez.c:2675:17: warning: 'total' may be used uninitialized in this function [-Wmaybe-uninitialized] *totl = total; ^ cdentrez.c:2672:17: warning: 'special' may be used uninitialized in this function [-Wmaybe-uninitialized] *spcl = special; ^ cdentrez.c:2640:20: warning: 'termpage' may be used uninitialized in this function [-Wmaybe-uninitialized] cd3_CdTermScan (db, fld, termpage, (Int4)0, ScanAndFreeProc); ^ cdentrez.c: In function 'CdLinkUidList': cdentrez.c:938:2: warning: 'count' may be used uninitialized in this function [-Wmaybe-uninitialized] return count; ^ cdentrez.c: In function 'CdTermListByTerm': cdentrez.c:1036:10: warning: 'first' may be used uninitialized in this function [-Wmaybe-uninitialized] rsult = cd3_CdTermScan(type,field,first,0,TermListTermScanProc); ^ cdentrez.c: In function 'CdEntTLAddTerm': cdentrez.c:1895:24: warning: 'total' may be used uninitialized in this function [-Wmaybe-uninitialized] if (scanOk && total > 0) { ^ cdentrez.c:1787:13: note: 'total' was declared here Int4 total; ^ cdentrez.c: In function 'CdEntrezFindTerm': cdentrez.c:1121:14: warning: 'ctp' may be used uninitialized in this function [-Wmaybe-uninitialized] *spcl = ctp->special_count; ^ cdentrez.c: In function 'CdEntMedlineEntryListGet': cdentrez.c:2717:9: warning: 'aip' may be used uninitialized in this function [-Wmaybe-uninitialized] mep = MedlineEntryAsnRead(aip, NULL); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cdromlib.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cdnewlib.c cdnewlib.c:601:2: warning: missing braces around initializer [-Wmissing-braces] "", 0, 0, ^ cdnewlib.c:601:2: warning: (near initialization for '_finfo[0]') [-Wmissing-braces] cdnewlib.c:615:2: warning: missing braces around initializer [-Wmissing-braces] SYS_KEYNAME, SYS_DIRNAME, NULL, NULL, ^ cdnewlib.c:615:2: warning: (near initialization for '_dir[0]') [-Wmissing-braces] cdnewlib.c: In function 'cd3_CdDocAsnOpen': cdnewlib.c:1342:12: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (AsnIo*) CatastrophicFailure(1); ^ cdnewlib.c:1327:9: warning: unused variable 'fdir' [-Wunused-variable] char *fdir = NULL; ^ cdnewlib.c: In function 'UidIndex_ReadPage': cdnewlib.c:1937:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (long*)CatastrophicFailure(1); ^ cdnewlib.c:1945:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (long*)CatastrophicFailure(1); ^ cdnewlib.c: In function 'CdDevice_Init': cdnewlib.c:2739:6: warning: variable 'cd_num' set but not used [-Wunused-but-set-variable] int cd_num; ^ cdnewlib.c: At top level: cdnewlib.c:3506:12: warning: 'Cache_Delete' defined but not used [-Wunused-function] static int Cache_Delete (Cache *cache, long id) ^ cdnewlib.c:3569:12: warning: 'Cache_Touch' defined but not used [-Wunused-function] static int Cache_Touch (Cache *cache, long id) ^ cdnewlib.c:3592:14: warning: 'Cache_Peek' defined but not used [-Wunused-function] static void* Cache_Peek (Cache *cache, long id) ^ cdnewlib.c:3605:13: warning: 'Cache_Purge' defined but not used [-Wunused-function] static void Cache_Purge (Cache *cache) ^ cdnewlib.c:582:15: warning: '_empty_string' defined but not used [-Wunused-variable] static char * _empty_string = ""; ^ cdnewlib.c:638:18: warning: '_div' defined but not used [-Wunused-variable] static DivInfo * _div; ^ cdnewlib.c: In function 'UnixFileGets': cdnewlib.c:1509:6: warning: 'ch' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ch == '\0') { ^ cdnewlib.c: In function 'trmncmp': cdnewlib.c:2379:2: warning: 'c2' may be used uninitialized in this function [-Wmaybe-uninitialized] return (c1 - c2); ^ cdnewlib.c:2379:2: warning: 'c1' may be used uninitialized in this function [-Wmaybe-uninitialized] cdnewlib.c: In function 'TrmIndex_Lookup': cdnewlib.c:2136:24: warning: 'd' may be used uninitialized in this function [-Wmaybe-uninitialized] int lo, hi, mid, len, d; ^ cdnewlib.c:2168:33: warning: 'term' may be used uninitialized in this function [-Wmaybe-uninitialized] if (d==0 && len == (int)strlen(term)) ^ cdnewlib.c: In function 'UidIndex_Lookup': cdnewlib.c:1986:20: warning: 'p' may be used uninitialized in this function [-Wmaybe-uninitialized] page_num = (uid < *p && mid >0) ? mid-1 : mid; ^ cdnewlib.c:1986:42: warning: 'mid' may be used uninitialized in this function [-Wmaybe-uninitialized] page_num = (uid < *p && mid >0) ? mid-1 : mid; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF casn.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cdconfig.c In file included from ../include/ncbi.h:58:0, from cdconfig.c:75: cdconfig.c: In function 'ChangeMedia': ../include/ncbistd.h:278:15: warning: statement with no effect [-Wunused-value] #define FALSE ((Nlm_Boolean)0) ^ ../include/ncbifile.h:169:76: note: in expansion of macro 'FALSE' #define EjectCd(sVolume, deviceName, rawDeviceName, mountPoint, mountCmd) FALSE ^ cdconfig.c:941:29: note: in expansion of macro 'EjectCd' EjectCd(toBeEjected->entrez_info->volume_label, ^ ../include/ncbistd.h:278:15: warning: statement with no effect [-Wunused-value] #define FALSE ((Nlm_Boolean)0) ^ ../include/ncbifile.h:170:76: note: in expansion of macro 'FALSE' #define MountCd(sVolume, deviceName, mountPoint, mountCmd) FALSE ^ cdconfig.c:960:17: note: in expansion of macro 'MountCd' MountCd(newMedia->entrez_info->volume_label, cdm->device_name, ^ cdconfig.c: At top level: cdconfig.c:191:17: warning: 'UnMarkLRUineligible' declared 'static' but never defined [-Wunused-function] static void UnMarkLRUineligible PROTO((void)); ^ cdconfig.c: In function 'EntrezInfoMerge': cdconfig.c:1250:44: warning: 'besttype' may be used uninitialized in this function [-Wmaybe-uninitialized] new->types[i].num_bucket = besttype->num_bucket; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objentr.c objentr.c: In function 'DocSumAsnRead': objentr.c:970:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentr.c:969:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentr.c: At top level: objentr.c:771:16: warning: 'EntrezLinkInfo_AsnWrite' defined but not used [-Wunused-function] static Boolean EntrezLinkInfo_AsnWrite (const EntrezLinkInfo *link, AsnIo *stream, AsnType *type) ^ objentr.c:806:23: warning: 'EntrezDivInfo_Destruct' defined but not used [-Wunused-function] static EntrezDivInfo* EntrezDivInfo_Destruct (EntrezDivInfo *div) ^ objentr.c: In function 'EntrezInfoAsnRead': objentr.c:818:5: warning: 'div' may be used uninitialized in this function [-Wmaybe-uninitialized] if (div == NULL) ^ objentr.c:241:17: note: 'div' was declared here EntrezDivInfo *div; ^ objentr.c:763:17: warning: 'link' may be used uninitialized in this function [-Wmaybe-uninitialized] link->datasize = (int) val.intvalue; ^ objentr.c:240:18: note: 'link' was declared here EntrezLinkInfo *link; ^ objentr.c:704:19: warning: 'fld' may be used uninitialized in this function [-Wmaybe-uninitialized] fld->post_type = (PostType) val.intvalue; ^ objentr.c:239:19: note: 'fld' was declared here EntrezFieldInfo *fld; ^ objentr.c:649:18: warning: 'tinf' may be used uninitialized in this function [-Wmaybe-uninitialized] tinf->asntype = (char*) val.ptrvalue; ^ objentr.c:238:18: note: 'tinf' was declared here EntrezTypeInfo *tinf; ^ objentr.c:856:14: warning: 'i' may be used uninitialized in this function [-Wmaybe-uninitialized] div->docs[i++] = val.intvalue; ^ objentr.c:824:7: note: 'i' was declared here int i; ^ rm -f libncbicdr.a ar cru libncbicdr.a cdentrez.o cdromlib.o cdnewlib.o casn.o cdconfig.o objentr.o cp -p libncbicdr.a ../lib ranlib ../lib/libncbicdr.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibbutns.c vibbutns.c: In function 'Nlm_CheckCallback': vibbutns.c:328:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_RadioCallback': vibbutns.c:347:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_SetButtonStatus': vibbutns.c:668:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Nlm_Int2 val; ^ vibbutns.c: In function 'Nlm_NewButton.isra.1': vibbutns.c:1133:17: warning: 'call' may be used uninitialized in this function [-Wmaybe-uninitialized] XtAddCallback (c, call, Nlm_ButtonCallback, (XtPointer) b); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibextra.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibfiles.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibforms.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibgroup.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF viblists.c viblists.c: In function 'Nlm_SetListPosition': viblists.c:1118:15: warning: variable 'is_realized' set but not used [-Wunused-but-set-variable] Nlm_Boolean is_realized; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibmenus.c vibmenus.c: In function 'Nlm_IsMenuItemChecked': vibmenus.c:563:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CheckMenuItem': vibmenus.c:591:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableMenuItem': vibmenus.c:1986:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:1985:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoice': vibmenus.c:2052:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceGroup': vibmenus.c:2102:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceItem': vibmenus.c:2146:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2144:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableMenuItem': vibmenus.c:2309:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2308:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoice': vibmenus.c:2375:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoiceItem': vibmenus.c:2469:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2467:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_RemoveSubMenu': vibmenus.c:2607:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CountMenuItems': vibmenus.c:3036:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetMenuItem': vibmenus.c:3219:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetPopListTitle': vibmenus.c:3329:18: warning: variable 'm' set but not used [-Wunused-but-set-variable] Nlm_MenU m; ^ vibmenus.c: In function 'Nlm_AppendItems': vibmenus.c:3948:17: warning: unused variable 'accel' [-Wunused-variable] Nlm_Char accel; ^ vibmenus.c: In function 'Nlm_NewPopupList': vibmenus.c:4939:19: warning: unused variable 'lbl' [-Wunused-variable] Widget lbl; ^ vibmenus.c:4937:19: warning: unused variable 'color' [-Wunused-variable] Pixel color; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibprmpt.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibsbars.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibslate.c vibslate.c: In function 'Nlm_EnableSlate': vibslate.c:1199:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_DisableSlate': vibslate.c:1254:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SlateClick': vibslate.c:2026:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibtexts.c vibtexts.c: In function 'Nlm_TextCallback': vibtexts.c:2982:24: warning: unused variable 'cbs' [-Wunused-variable] XmAnyCallbackStruct *cbs = (XmAnyCallbackStruct *)call_data; ^ vibtexts.c: In function 'Nlm_LoseFocusCallback': vibtexts.c:2999:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ vibtexts.c: In function 'Nlm_TabCallback': vibtexts.c:3109:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenReturnCallback': vibtexts.c:3122:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenActivateCallback': vibtexts.c:3135:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibutils.c vibutils.c: In function 'Nlm_VibMessageHook': vibutils.c:776:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] percent = (Nlm_Int4)Nlm_GetAppProperty( "VibrantMessageWidthMax" ); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibwndws.c vibwndws.c: In function 'Nlm_SetColorMap': vibwndws.c:1060:13: warning: variable 'defaultdepth' set but not used [-Wunused-but-set-variable] int defaultdepth; ^ vibwndws.c: In function 'Nlm_SetWindowTitle': vibwndws.c:1567:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_GetWindowTitle': vibwndws.c:1610:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_NewWindow': vibwndws.c:2155:19: warning: variable 'screen_num' set but not used [-Wunused-but-set-variable] int screen_num; ^ vibwndws.c: In function 'Nlm_HideWindow': vibwndws.c:2526:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowNormal': vibwndws.c:2969:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowModal': vibwndws.c:3014:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowDocument': vibwndws.c:3060:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_VibMainPrelude': vibwndws.c:6771:13: warning: unused variable 'retval' [-Wunused-variable] Nlm_Int2 retval; ^ vibwndws.c: In function 'Nlm_RemoveDyingWindows': vibwndws.c:6893:20: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibmain.c vibmain.c:106:1: warning: return type defaults to 'int' [-Wreturn-type] main (int argc, char *argv[]) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbidraw.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF drawing.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mapping.c mapping.c: In function 'Nlm_MapRectToWorldBox': mapping.c:139:8: warning: variable 'curScale' set but not used [-Wunused-but-set-variable] Int4 curScale; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF picture.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF viewer.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF document.c document.c: In function 'Nlm_PrintDocument': document.c:4413:14: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ document.c:4417:14: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF table.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF palette.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF diagnost.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF image.c image.c: In function 'ShiftXMask': image.c:840:26: warning: suggest parentheses around '+' inside '>>' [-Wparentheses] if(!((mask >> hi + low) & (unsigned long)1)) break; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pictur3d.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF prim3d1.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF prim3d2.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF prim3d3.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF prim3d4.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF prim3d5.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF viewer3d.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vibmouse.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF netscape.c netscape.c: In function 'NS_Obtain_lock': netscape.c:236:10: warning: variable 'waited' set but not used [-Wunused-but-set-variable] Bool waited = False; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF imagelst.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF treeview.c treeview.c: In function 'getNodeLength': treeview.c:177:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] length= (Int4)tree_getNode(cursor, TREE_NODE_FMT_DISTANCE, &size); ^ treeview.c: In function 'getIconId': treeview.c:187:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] a= (Int4) tree_getNode(cursor, TREE_NODE_FMT_ICON, &size); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF shim3d.c shim3d.c: In function 'Nlm_AddHalfWorm3D': shim3d.c:3445:46: warning: unused variable 'tmp' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3445:40: warning: unused variable 'pCz' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3445:34: warning: unused variable 'pCy' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3445:28: warning: unused variable 'pCx' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3445:22: warning: unused variable 'pNz' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3445:16: warning: unused variable 'pNy' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3445:10: warning: unused variable 'pNx' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3444:47: warning: unused variable 'Cz' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3444:42: warning: unused variable 'Cy' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3444:37: warning: unused variable 'Cx' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3444:32: warning: unused variable 'Nz' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3444:27: warning: unused variable 'Ny' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3444:15: warning: unused variable 'Nx' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3443:21: warning: unused variable 'pi' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3443:15: warning: unused variable 'sinj' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3443:9: warning: unused variable 'cosj' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3442:33: warning: unused variable 'prevlen' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3442:29: warning: unused variable 'Vz' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3442:25: warning: unused variable 'Vy' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3442:21: warning: unused variable 'Vx' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3442:17: warning: unused variable 'Hz' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3442:13: warning: unused variable 'Hy' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3442:9: warning: unused variable 'Hx' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3441:21: warning: unused variable 'dQtz' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3441:15: warning: unused variable 'dQty' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3441:9: warning: unused variable 'dQtx' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3439:14: warning: unused variable 'len' [-Wunused-variable] GLdouble len, R1x, R1y, R1z, R2x, R2y, R2z, MG[4][3], ^ shim3d.c:3438:26: warning: unused variable 'offset' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3438:23: warning: unused variable 'm' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3438:20: warning: unused variable 'k' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3438:17: warning: unused variable 'j' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF odlbox.c odlbox.c: In function 'LB_onVScroll': odlbox.c:424:12: warning: variable 'IsGoUp' set but not used [-Wunused-but-set-variable] Boolean IsGoUp=FALSE; ^ rm -f libvibrant.a ar cru libvibrant.a vibbutns.o vibextra.o vibfiles.o vibforms.o vibgroup.o viblists.o vibmenus.o vibprmpt.o vibsbars.o vibslate.o vibtexts.o vibutils.o vibwndws.o vibmain.o ncbidraw.o drawing.o mapping.o picture.o viewer.o document.o table.o palette.o diagnost.o image.o pictur3d.o prim3d1.o prim3d2.o prim3d3.o prim3d4.o prim3d5.o viewer3d.o vibmouse.o netscape.o imagelst.o treeview.o shim3d.o odlbox.o cp -p libvibrant.a ../lib ranlib ../lib/libvibrant.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF accentr.c accentr.c: In function 'EntrezBiostrucGet': accentr.c:2113:17: warning: unused variable 'retval' [-Wunused-variable] BiostrucPtr retval = NULL; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF accutils.c rm -f libncbiacc.a ar cru libncbiacc.a accentr.o accutils.o cp -p libncbiacc.a ../lib ranlib ../lib/libncbiacc.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF drawseq.c drawseq.c: In function 'AddFlatNodeSymbol': drawseq.c:811:7: warning: unused variable 'symbol_height' [-Wunused-variable] Int4 symbol_height = 8; ^ drawseq.c: In function 'AddAlignBlocks': drawseq.c:970:7: warning: variable 'c_num' set but not used [-Wunused-but-set-variable] Int2 c_num; ^ drawseq.c: In function 'AddAlignFeature': drawseq.c:1369:8: warning: unused variable 'ptype' [-Wunused-variable] Uint1 ptype = 0; ^ drawseq.c: In function 'AddAlignmentMismatch': drawseq.c:1523:7: warning: variable 'i_right' set but not used [-Wunused-but-set-variable] Int4 i_right; ^ drawseq.c: In function 'DrawRestrictionMap': drawseq.c:1811:10: warning: unused variable 'retval' [-Wunused-variable] Boolean retval = FALSE; ^ drawseq.c:1802:15: warning: variable 'center' set but not used [-Wunused-but-set-variable] Int4 x1, x2, center; ^ drawseq.c: In function 'DrawFeatures': drawseq.c:2563:7: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Int2 entityID; ^ drawseq.c: In function 'DrawOneSeqLoc': drawseq.c:3020:10: warning: variable 'show_seq_label' set but not used [-Wunused-but-set-variable] Boolean show_seq_label = TRUE; /*show the label of a sequence*/ ^ drawseq.c:3009:10: warning: variable 'ends' set but not used [-Wunused-but-set-variable] Boolean ends; ^ drawseq.c: In function 'Label_GData': drawseq.c:3439:10: warning: variable 'success' set but not used [-Wunused-but-set-variable] Boolean success = FALSE; ^ drawseq.c: In function 'DrawEquivAlign': drawseq.c:3594:8: warning: unused variable 'my_gray_color' [-Wunused-variable] Uint1 my_gray_color[]={63, 63, 63}; ^ drawseq.c: In function 'load_align_label_rectangle': drawseq.c:4352:10: warning: variable 'found_it' set but not used [-Wunused-but-set-variable] Boolean found_it; ^ drawseq.c: In function 'PicForAlignNode': drawseq.c:4558:18: warning: variable 'min_scale' set but not used [-Wunused-but-set-variable] Int4 max_width, min_scale; ^ drawseq.c: At top level: drawseq.c:3511:18: warning: 'get_map_pos' defined but not used [-Wunused-function] static MapPosPtr get_map_pos(MapLayoutPtr mlp, SeqIdPtr sip) ^ drawseq.c:3525:22: warning: 'get_ith_arp' defined but not used [-Wunused-function] static AlignRangePtr get_ith_arp(AlignRangePtr arp, Int2 i) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF dotmatrx.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF fea2seg.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF fstyle.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF smdlg1.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF smdlg2.c smdlg2.c: In function 'Nlm_CreateDlgGroup': smdlg2.c:631:12: warning: variable 'toAlign' set but not used [-Wunused-but-set-variable] Handle toAlign[3]; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF smdlg3.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF smtools.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF styleman.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF stylemui.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF glbpic.c glbpic.c: In function 'label_linear_mark': glbpic.c:1295:7: warning: unused variable 'tick_len' [-Wunused-variable] Int4 tick_len = TICK_LEN; ^ glbpic.c: In function 'add_alignment_to_global': glbpic.c:1552:8: warning: variable 'p_val' set but not used [-Wunused-but-set-variable] Uint1 p_val; ^ glbpic.c: At top level: glbpic.c:584:19: warning: 'extract_align_range' defined but not used [-Wunused-function] static ValNodePtr extract_align_range(ValNodePtr PNTR arp_list, Uint1 displayOrder) ^ glbpic.c:1748:16: warning: 'get_print_score' defined but not used [-Wunused-function] static Boolean get_print_score(FloatHi min_score, FloatHi max_score, CharPtr label, Uint1 status) ^ glbpic.c: In function 'get_circle_label_align': glbpic.c:2349:2: warning: 'align' may be used uninitialized in this function [-Wmaybe-uninitialized] return align; ^ glbpic.c: In function 'label_circle_mark': glbpic.c:2479:6: warning: 'first_align' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(label_align) ^ glbpic.c:2450:5: warning: 'p_align' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(label_align) ^ glbpic.c:2483:26: warning: 'first_left' may be used uninitialized in this function [-Wmaybe-uninitialized] if(ABS(first_left - left) < (t_width +3)) ^ glbpic.c:2469:28: warning: 'first_width' may be used uninitialized in this function [-Wmaybe-uninitialized] t_width = (first_width + width)/2; ^ glbpic.c:2473:24: warning: 'first_top' may be used uninitialized in this function [-Wmaybe-uninitialized] if(ABS(first_top - top )< (font_height+3)) ^ glbpic.c: In function 'add_alignment_to_global': glbpic.c:1736:17: warning: 'g_top' may be used uninitialized in this function [-Wmaybe-uninitialized] AddRectangle (seg, c_left, g_top+font_height/2, c_right, g_top-font_height/2, FALSE, TRUE, 0); ^ glbpic.c: In function 'Draw_Global': glbpic.c:2177:12: warning: 'seglen' may be used uninitialized in this function [-Wmaybe-uninitialized] m_stop += seglen; ^ glbpic.c:1943:8: note: 'seglen' was declared here Int4 seglen; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF layout.c layout.c: In function 'LayoutNodeFlat': layout.c:326:24: warning: variable 'prev' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, next, prev; ^ layout.c: In function 'layout_uncompressed_group': layout.c:1244:20: warning: variable 'group_stop' set but not used [-Wunused-but-set-variable] Int2 group_start, group_stop; ^ layout.c: In function 'LayoutFeatNode': layout.c:1365:17: warning: variable 'y_next' set but not used [-Wunused-but-set-variable] Int4 cur_line, y_next; ^ layout.c:1364:17: warning: variable 'labelstyle' set but not used [-Wunused-but-set-variable] Int4 segstyle, labelstyle; ^ layout.c:1363:10: warning: variable 'show_trunc' set but not used [-Wunused-but-set-variable] Boolean show_trunc = FALSE; ^ layout.c:1350:10: warning: variable 'k' set but not used [-Wunused-but-set-variable] Int2 i, k; ^ layout.c: In function 'LayoutAlignNode': layout.c:2208:7: warning: unused variable 'num' [-Wunused-variable] Int4 num = 0; ^ layout.c: At top level: layout.c:1779:16: warning: 'modify_master_line' defined but not used [-Wunused-function] static Boolean modify_master_line(ValNodePtr vnp, Int4Ptr m_left, Int4Ptr m_right, Int4 maxScale, Uint1 label_align) ^ layout.c: In function 'layout_uncompressed_group': layout.c:1321:14: warning: 'c_fnp' may be used uninitialized in this function [-Wmaybe-uninitialized] p_feattype = c_fnp->feattype; ^ layout.c: In function 'GroupFeatNode': layout.c:636:14: warning: 'prev' may be used uninitialized in this function [-Wmaybe-uninitialized] prev->next = new; ^ layout.c:594:35: note: 'prev' was declared here ValNodePtr my_node = NULL, curr, prev, next; ^ layout.c: In function 'OrderCdsmRNA': layout.c:963:9: warning: 'm_missed' may be used uninitialized in this function [-Wmaybe-uninitialized] if(missed < m_missed) ^ layout.c:940:15: note: 'm_missed' was declared here Int2 missed, m_missed; /*number of exons missed at both end*/ ^ layout.c: In function 'LayoutFeatNode': layout.c:1503:12: warning: 'p_right' may be used uninitialized in this function [-Wmaybe-uninitialized] p_right = MAX(right, p_right); ^ layout.c:1502:11: warning: 'p_left' may be used uninitialized in this function [-Wmaybe-uninitialized] p_left = MIN(left, p_left); ^ layout.c:1461:15: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized] fnp->bottom = height; ^ layout.c: In function 'LayoutAlignNode': layout.c:2215:17: warning: 'next_line' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 cur_line, next_line; ^ layout.c:2248:7: warning: 'next' may be used uninitialized in this function [-Wmaybe-uninitialized] while(vnp) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF saldist.c saldist.c: In function 'copy_string': saldist.c:1289:12: warning: value computed is not used [-Wunused-value] *from++; ^ saldist.c:1302:11: warning: value computed is not used [-Wunused-value] *from++; ^ saldist.c: In function 'nss_ref_complength': saldist.c:1479:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1455:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1455:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'nss_pw_complength': saldist.c:1572:18: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1547:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1547:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'nss_gp_complength': saldist.c:1675:21: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1640:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1640:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'SortbySimProc': saldist.c:2139:31: warning: variable 'newsalpd' set but not used [-Wunused-but-set-variable] SeqAlignPtr newsalp, newsalpd; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from saldist.c:49: saldist.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ saldist.c:910:14: warning: 'matrixlst' defined but not used [-Wunused-variable] static Char *matrixlst [] = {"", "idmat", ^ saldist.c:928:16: warning: 'new_matrice' defined but not used [-Wunused-function] static Boolean new_matrice (Int2 simmatrix, CharPtr path) ^ saldist.c:999:13: warning: 'AAcode' defined but not used [-Wunused-function] static Int2 AAcode(Char car) ^ saldist.c:1080:24: warning: 'FloatLomatrix' defined but not used [-Wunused-function] static FloatLoPtr PNTR FloatLomatrix (Int2 nrows, Int2 ncol) ^ saldist.c:1853:22: warning: 'scangp_calcul' defined but not used [-Wunused-function] static Int4Ptr PNTR scangp_calcul (EditAlignDataPtr adp, Int2 seq1, Int2 seq2, Int4 from, Int4 to, Int2 group, Int2 choice, Int2 win_width) ^ saldist.c: In function 'writematrixhalf.constprop.9': saldist.c:1225:18: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp=vnp->next; ^ saldist.c: In function 'PwDistProc': saldist.c:1151:18: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp=vnp->next; ^ saldist.c:1104:19: note: 'vnp' was declared here ValNodePtr vnp, ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF saled.c saled.c: In function 'ReadAlignmentForSeqEntry': saled.c:3325:21: warning: unused variable 'dirty' [-Wunused-variable] dirty = FALSE; ^ saled.c:3321:21: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp=NULL, ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from saled.c:49: saled.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from saled.c:55: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salfiles.c salfiles.c: In function 'NewFastaRead': salfiles.c:315:30: warning: variable 'lastsegsip' set but not used [-Wunused-but-set-variable] SeqIdPtr segsip=NULL, lastsegsip=NULL; ^ salfiles.c: In function 'ReadAlignmentToStrings': salfiles.c:664:16: warning: unused variable 'nseq' [-Wunused-variable] Int2 nseq = 0; ^ salfiles.c: In function 'MacawRead': salfiles.c:1257:15: warning: unused variable 'vnp' [-Wunused-variable] vnp = NULL; ^ salfiles.c: In function 'ReadLocalAlign': salfiles.c:1370:14: warning: variable 'tmp1' set but not used [-Wunused-but-set-variable] tmp1; ^ salfiles.c: In function 'ImportFromFile': salfiles.c:2072:20: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep = NULL; ^ salfiles.c:2071:20: warning: unused variable 'sap' [-Wunused-variable] SeqAnnotPtr sap = NULL; ^ salfiles.c: In function 'sesp_to_pept': salfiles.c:2713:18: warning: unused variable 'bufferPtr' [-Wunused-variable] bufferPtr = NULL; ^ salfiles.c: In function 'SaveFeatProc': salfiles.c:3387:22: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salfiles.c: In function 'CCReadAnythingLoop': salfiles.c:3685:16: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salfiles.c:48: salfiles.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salfiles.c:501:19: warning: 'get_lens_fromseqalign' defined but not used [-Wunused-function] static ValNodePtr get_lens_fromseqalign (SeqAlignPtr salp) ^ In file included from ../include/sequtil.h:43:0, from ../include/gather.h:166, from ../include/saledit.h:52, from ../include/salfiles.h:48, from salfiles.c:44: salfiles.c: In function 'CCDownloadProc': ../include/objsset.h:230:26: warning: 'new_sep' may be used uninitialized in this function [-Wmaybe-uninitialized] #define IS_Bioseq(a) ((a)->choice == 1) ^ salfiles.c:2286:15: note: 'new_sep' was declared here SeqEntryPtr new_sep; ^ salfiles.c: In function 'NewFastaRead.constprop.15': salfiles.c:460:6: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (sip!=NULL) ^ salfiles.c: In function 'GapFastaRead': salfiles.c:747:25: warning: 'seqstr' may be used uninitialized in this function [-Wmaybe-uninitialized] seqstr [lgseq] = strp[j]; ^ salfiles.c:654:16: note: 'seqstr' was declared here seqstr; ^ salfiles.c:724:15: warning: 'startp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!startp) { ^ salfiles.c:660:16: note: 'startp' was declared here Boolean startp; ^ salfiles.c: In function 'ReadLocalAlignment': salfiles.c:1284:10: warning: 'seqvnp' may be used uninitialized in this function [-Wmaybe-uninitialized] sap = LocalAlignToSeqAnnotDimn (seqvnp, seqid, NULL, n_seq, 0, NULL, FALSE); ^ salfiles.c:1113:19: note: 'seqvnp' was declared here ValNodePtr vnp, seqvnp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salpanel.c salpanel.c: In function 'go_to_next_to_draw': salpanel.c:331:17: warning: statement with no effect [-Wunused-value] offsettmp; ^ salpanel.c: In function 'next_to_draw': salpanel.c:471:20: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if ( curstr != NULL ) ^ salpanel.c: In function 'AssociatePropagatedSubloc': salpanel.c:3131:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ salpanel.c: In function 'FeaturePropagateForm': salpanel.c:4670:15: warning: variable 'ppt' set but not used [-Wunused-but-set-variable] PrompT ppt; ^ salpanel.c:4665:15: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ salpanel.c: In function 'OkToContinueWithFeatureApply': salpanel.c:6099:14: warning: unused variable 'num_missing' [-Wunused-variable] Int4 num_missing = 0, seq_num, start_num; ^ salpanel.c: In function 'DoApplyFeatureToAlignment': salpanel.c:6215:31: warning: unused variable 'found_null' [-Wunused-variable] Boolean found_null = FALSE; ^ salpanel.c: In function 'ApplyFeatureToAlignment': salpanel.c:6417:31: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salpanel.c:45: salpanel.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salpanel.c:52: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salpanel.c:65:14: warning: 'diamondSym' defined but not used [-Wunused-variable] static Uint1 diamondSym [] = { ^ salpanel.c:68:14: warning: 'ovalSym' defined but not used [-Wunused-variable] static Uint1 ovalSym [] = { ^ salpanel.c:77:14: warning: 'upTriSym' defined but not used [-Wunused-variable] static Uint1 upTriSym [] = { ^ salpanel.c:80:14: warning: 'downTriSym' defined but not used [-Wunused-variable] static Uint1 downTriSym [] = { ^ salpanel.c:86:14: warning: 'diamondFillSym' defined but not used [-Wunused-variable] static Uint1 diamondFillSym [] = { ^ salpanel.c:89:14: warning: 'ovalFillSym' defined but not used [-Wunused-variable] static Uint1 ovalFillSym [] = { ^ salpanel.c:98:14: warning: 'upTriFillSym' defined but not used [-Wunused-variable] static Uint1 upTriFillSym [] = { ^ salpanel.c:101:14: warning: 'downTriFillSym' defined but not used [-Wunused-variable] static Uint1 downTriFillSym [] = { ^ salpanel.c:104:14: warning: 'rightOvalSym' defined but not used [-Wunused-variable] static Uint1 rightOvalSym [] = { ^ salpanel.c:107:14: warning: 'leftOvalSym' defined but not used [-Wunused-variable] static Uint1 leftOvalSym [] = { ^ salpanel.c:110:14: warning: 'rightOvalFillSym' defined but not used [-Wunused-variable] static Uint1 rightOvalFillSym [] = { ^ salpanel.c:113:14: warning: 'leftOvalFillSym' defined but not used [-Wunused-variable] static Uint1 leftOvalFillSym [] = { ^ salpanel.c:224:13: warning: 'get_client_rectxy' defined but not used [-Wunused-function] static void get_client_rectxy (PaneL p, RectPtr prc, Int2 x, Int2 y) ^ salpanel.c:5055:13: warning: 'BatchApplyFeatureDetailsMessage' defined but not used [-Wunused-function] static void BatchApplyFeatureDetailsMessage (DialoG d, Int2 mssg) ^ salpanel.c: In function 'draw_feat.isra.17': salpanel.c:1939:17: warning: 'col1' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 col1; ^ salpanel.c: In function 'on_draw': salpanel.c:2599:31: warning: 'draw_diff' may be used uninitialized in this function [-Wmaybe-uninitialized] draw_seq (adp, curssp, from_inseq, drw_width, ptlh, curstr, draw_diff, masterstr, FALSE, curssp->itemtype, FALSE); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salparam.c salparam.c: In function 'mergelst': salparam.c:1325:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Boolean val; ^ salparam.c: In function 'unmergelst': salparam.c:1340:20: warning: variable 'dbdp' set but not used [-Wunused-but-set-variable] DialogBoxDataPtr dbdp; ^ salparam.c: In function 'FormulaDialog': salparam.c:1398:36: warning: variable 'b5' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3, b4, b5; ^ salparam.c: In function 'JK_NTPattern2Ex': salparam.c:1596:19: warning: variable 'debug_str' set but not used [-Wunused-but-set-variable] CharPtr debug_str; ^ salparam.c: In function 'DotPlotBtn': salparam.c:1936:22: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ salparam.c: In function 'DotPlotDialog': salparam.c:1973:20: warning: variable 'bt1' set but not used [-Wunused-but-set-variable] ButtoN bt1, bt2; ^ salparam.c: In function 'DotPlotItem': salparam.c:2004:22: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ salparam.c: In function 'SelectSeqFunc': salparam.c:2308:20: warning: variable 'str' set but not used [-Wunused-but-set-variable] CharPtr str; ^ salparam.c: In function 'HighlightSelectionFunc': salparam.c:2344:22: warning: variable 'wdp' set but not used [-Wunused-but-set-variable] SeqEditViewFormPtr wdp; ^ salparam.c: In function 'PropagateFeatureProc': salparam.c:2623:25: warning: variable 'iID' set but not used [-Wunused-but-set-variable] Uint2 eID, iID, ^ salparam.c:2614:20: warning: variable 'salp' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salparam.c:49: salparam.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from salparam.c:58: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salparam.c: In function 'FileInProc': salparam.c:782:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %ld", &n, &lens); ^ In file included from ../include/sequtil.h:43:0, from ../include/gather.h:166, from ../include/salsa.h:52, from ../include/salparam.h:48, from salparam.c:44: salparam.c: In function 'DotPlotBtn': ../include/objsset.h:230:26: warning: 'sep' may be used uninitialized in this function [-Wmaybe-uninitialized] #define IS_Bioseq(a) ((a)->choice == 1) ^ salparam.c:1931:22: note: 'sep' was declared here SeqEntryPtr sep; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salsa.c salsa.c: In function 'SelectSubsProc': salsa.c:2140:23: warning: variable 'svpp' set but not used [-Wunused-but-set-variable] SeqEditViewProcsPtr svpp=NULL; ^ salsa.c: In function 'SetSeqInfo': salsa.c:3195:17: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp = NULL; ^ salsa.c: In function 'SetupAlignDataSap': salsa.c:3410:16: warning: variable 'entityID_sap' set but not used [-Wunused-but-set-variable] Uint2 entityID_sap; ^ salsa.c: In function 'get_bestpos_formerge': salsa.c:4304:17: warning: variable 'insert_after' set but not used [-Wunused-but-set-variable] insert_after=FALSE; ^ salsa.c:4303:17: warning: variable 'insert_before' set but not used [-Wunused-but-set-variable] Boolean insert_before=FALSE, ^ salsa.c: In function 'CreateSeqAlignViewForm': salsa.c:4689:22: warning: variable 'mergebtn' set but not used [-Wunused-but-set-variable] ButtoN mergebtn; ^ salsa.c: In function 'AlgEditFunc': salsa.c:4988:23: warning: unused variable 'wdp' [-Wunused-variable] SeqEditViewFormPtr wdp = NULL; ^ salsa.c:4986:23: warning: unused variable 'w' [-Wunused-variable] WindoW w = NULL; ^ salsa.c: In function 'OldAlignmentEditor': salsa.c:5118:16: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Int2 rval; ^ salsa.c: In function 'LaunchAnnotAlignEditor': salsa.c:5305:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignEditor': salsa.c:5322:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignViewer': salsa.c:5339:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop': salsa.c:5354:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop2': salsa.c:5371:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop3': salsa.c:5390:20: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop4': salsa.c:5417:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'InsertSeqProc': salsa.c:5587:17: warning: variable 'cnclbt' set but not used [-Wunused-but-set-variable] ButtoN insbt, cnclbt; ^ salsa.c:5585:10: warning: variable 'insprt' set but not used [-Wunused-but-set-variable] PrompT insprt; ^ salsa.c: In function 'SeqAlignBestHit': salsa.c:5654:22: warning: variable 'last' set but not used [-Wunused-but-set-variable] Int4 last; ^ salsa.c: In function 'SeqAlignStartUpdate': salsa.c:5839:22: warning: variable 'k' set but not used [-Wunused-but-set-variable] Int2 index, k, j; ^ salsa.c:5838:15: warning: variable 'start' set but not used [-Wunused-but-set-variable] start; ^ salsa.c:5837:15: warning: variable 'len_sum' set but not used [-Wunused-but-set-variable] Int4 len_sum, ^ salsa.c:5834:15: warning: variable 'lenp' set but not used [-Wunused-but-set-variable] Int4Ptr lenp, ^ salsa.c:5833:15: warning: variable 'pre' set but not used [-Wunused-but-set-variable] SeqIdPtr pre, sip, next; ^ salsa.c: In function 'CCNormalizeSeqAlignId': salsa.c:6788:23: warning: unused variable 'gi' [-Wunused-variable] Int4 gi = 0; ^ salsa.c:6787:17: warning: unused variable 'missing_fmt' [-Wunused-variable] CharPtr missing_fmt = "The alignment contains %s that can not be found in GenBank.\nPlease check the accession number.\n"; ^ salsa.c:6786:17: warning: unused variable 'missing_cont_fmt' [-Wunused-variable] CharPtr missing_cont_fmt = "The alignment contains %s that can not be found in GenBank.\nPlease check the accession number.\nContinue anyway?\n"; ^ salsa.c: In function 'ValidateSeqAlignandACCEx': salsa.c:7145:16: warning: variable 'ans' set but not used [-Wunused-but-set-variable] MsgAnswer ans; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salsa.c:48: salsa.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from salsa.c:52:0: ../include/salprop.h:50:16: warning: 'GBFeat' defined but not used [-Wunused-variable] static CharPtr GBFeat[number_GBFeat] = { ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salsa.c:68: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salsa.c:87:13: warning: 'InsertSequenceDlg' declared 'static' but never defined [-Wunused-function] static void InsertSequenceDlg (ButtoN b); ^ salsa.c:1760:13: warning: 'AcceptCloseWindowButton' defined but not used [-Wunused-function] static void AcceptCloseWindowButton (ButtoN b) ^ salsa.c:2356:13: warning: 'MakeCdRgnProc' defined but not used [-Wunused-function] static void MakeCdRgnProc (IteM i) { ^ salsa.c:2360:13: warning: 'MakeCdRgnrProc' defined but not used [-Wunused-function] static void MakeCdRgnrProc (IteM i) { ^ salsa.c:4884:16: warning: 'DeltaLitOnly' defined but not used [-Wunused-function] static Boolean DeltaLitOnly (BioseqPtr bsp) ^ salsa.c:6021:13: warning: 'SWPrintFarpointerAln' defined but not used [-Wunused-function] static void SWPrintFarpointerAln(SeqAlignPtr sap, FILE *fp) ^ salsa.c: In function 'ExportFASTAForUnselectedUpdates': salsa.c:6417:13: warning: 'fp' may be used uninitialized in this function [-Wmaybe-uninitialized] FileClose (fp); ^ salsa.c: In function 'ExportBadAlignments': salsa.c:6390:13: warning: 'fp' may be used uninitialized in this function [-Wmaybe-uninitialized] FileClose (fp); ^ salsa.c: In function 'SeqAlignBestHit.isra.12': salsa.c:5795:23: warning: 'nctr' may be used uninitialized in this function [-Wmaybe-uninitialized] *nonly = nctr+beg+end; ^ salsa.c:5797:24: warning: 'end' may be used uninitialized in this function [-Wmaybe-uninitialized] *nonly = -(beg+end); ^ salsa.c:5797:24: warning: 'beg' may be used uninitialized in this function [-Wmaybe-uninitialized] salsa.c: In function 'BioseqEditMsgFunc': salsa.c:912:51: warning: 'anp' may be used uninitialized in this function [-Wmaybe-uninitialized] ssp = SelStructNew (anp->seq_entityID, anp->bsp_itemID, OBJ_BIOSEQ, from, to, anp->sip, Seq_strand_plus, FALSE); ^ salsa.c:890:20: note: 'anp' was declared here AlignNodePtr anp; ^ salsa.c: In function 'DeleteProc': salsa.c:1945:14: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] newsalp = (SeqAlignPtr)sap->data; ^ salsa.c: In function 'SkipThisWindowProc': salsa.c:4591:23: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] LaunchAlignViewer(salp); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqfltr.c seqfltr.c: In function 'FilterSeq': seqfltr.c:259:21: warning: 'fptr' may be used uninitialized in this function [-Wmaybe-uninitialized] sgp->values = (Pointer) fptr; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqgraph.c seqgraph.c: In function 'EndPointDialogToEndPointValNode': seqgraph.c:140:3: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] return (Pointer) eplist; ^ seqgraph.c: In function 'SeqLocGraphViewProc': seqgraph.c:1138:41: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] StrCpy (buff, (CharPtr) eplist->data.ptrvalue); ^ seqgraph.c: In function 'MarkPrims': seqgraph.c:911:11: warning: 'fval' may be used uninitialized in this function [-Wmaybe-uninitialized] val = fval/2; ^ seqgraph.c: In function 'CutOffProc': seqgraph.c:1020:41: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] StrCpy (buff, (CharPtr) eplist->data.ptrvalue); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqgrphx.c seqgrphx.c:28:25: warning: 'MatrixMsgFunc' defined but not used [-Wunused-function] static Int2 LIBCALLBACK MatrixMsgFunc (OMMsgStructPtr ommsp) ^ seqgrphx.c: In function 'FilterMsgFunc': seqgrphx.c:224:12: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] if (s == NULL) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqmtrx.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqpcc.c seqpcc.c: In function 'PCCProc': seqpcc.c:229:6: warning: 'pbsp' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((spp = SeqPortNew (pbsp, start, end, 0, Seq_code_iupacaa)) != NULL) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqanal.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF aacomp.c aacomp.c:86:20: warning: 'AACGraph' defined but not used [-Wunused-function] static SeqGraphPtr AACGraph (SeqPortPtr spp, Int4 start, Int4 end, Int4 window, ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqscrl.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF valdlg.c valdlg.c: In function 'ClickRulesDoc': valdlg.c:373:22: warning: unused variable 'scroll_pos' [-Wunused-variable] Int2 scroll_pos = 0; ^ valdlg.c:372:22: warning: unused variable 'sb_vert' [-Wunused-variable] BaR sb_vert = NULL; ^ valdlg.c: In function 'UpdateRuleList': valdlg.c:479:26: warning: unused variable 'last_cr' [-Wunused-variable] CommentRulePtr new_cr, last_cr = NULL; ^ valdlg.c: In function 'SaveRuleChanges': valdlg.c:540:23: warning: variable 'dlg' set but not used [-Wunused-but-set-variable] CommentSetDlgPtr dlg; ^ valdlg.c: In function 'LaunchCommentRulesEditor': valdlg.c:553:23: warning: unused variable 'm' [-Wunused-variable] MenU m; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vsm.c vsm.c: In function 'VSMAboutProc': vsm.c:1492:8: warning: variable 'p' set but not used [-Wunused-but-set-variable] PaneL p; ^ vsm.c: In function 'VSeqMgrCreateMainWindow': vsm.c:1601:12: warning: variable 'omp' set but not used [-Wunused-but-set-variable] ObjMgrPtr omp; ^ vsm.c: In function 'VSeqMgrPopulateMain': vsm.c:1742:13: warning: variable 'atp' set but not used [-Wunused-but-set-variable] AsnTypePtr atp; ^ vsm.c: In function 'VSMGatherPictProc': vsm.c:2225:15: warning: variable 'bssp' set but not used [-Wunused-but-set-variable] BioseqSetPtr bssp; ^ vsm.c:2220:30: warning: variable 'bottom' set but not used [-Wunused-but-set-variable] Int4 top, lineheight, left, bottom, width, maxwidth; ^ vsm.c: In function 'VSMAddPictureToEntity': vsm.c:2853:10: warning: variable 'ptr' set but not used [-Wunused-but-set-variable] Pointer ptr; ^ vsm.c:2852:13: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vsmfile.c vsmfile.c: In function 'VSMGenericBinAsnOpen': vsmfile.c:259:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ vsmfile.c: In function 'VSMGenericFastaSave': vsmfile.c:395:11: warning: variable 'code' set but not used [-Wunused-but-set-variable] Uint1 code; ^ vsmfile.c: In function 'VSMFastaProtSaveWithProduct': vsmfile.c:527:11: warning: variable 'code' set but not used [-Wunused-but-set-variable] Uint1 code; ^ vsmfile.c: In function 'VSMSaveSetsAsFiles': vsmfile.c:1365:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vsmutil.c vsmutil.c: In function 'GetDocPosForError': vsmutil.c:1657:18: warning: variable 'val' set but not used [-Wunused-but-set-variable] Int2 val; ^ vsmutil.c: At top level: vsmutil.c:387:20: warning: 'GetSeqDescGivenIDs' defined but not used [-Wunused-function] static SeqDescrPtr GetSeqDescGivenIDs (Uint2 entityID, Uint4 itemID, Uint2 itemtype) ^ vsmutil.c:1542:16: warning: 'MakeFieldReports' defined but not used [-Wunused-function] static Boolean MakeFieldReports (ValNodePtr report_list, ValNodePtr field_list, FILE *fp) ^ vsmutil.c: In function 'MakeValidatorReport': vsmutil.c:879:17: warning: 'ch_2' may be used uninitialized in this function [-Wmaybe-uninitialized] *feat_end = ch_2; ^ vsmutil.c:838:17: note: 'ch_2' was declared here Char ch, ch_2; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF udvgraph.c udvgraph.c: In function 'UDV_click_item': udvgraph.c:877:9: warning: unused variable 'IsTransNeeded' [-Wunused-variable] Boolean IsTransNeeded=FALSE; ^ udvgraph.c: In function 'UDV_SendBSPSelectMsg': udvgraph.c:1230:13: warning: variable 'bDeselectAll' set but not used [-Wunused-but-set-variable] Boolean bDeselectAll=TRUE; ^ udvgraph.c:1226:30: warning: variable 'bsp_coord_old' set but not used [-Wunused-but-set-variable] Int4 first_bsp_coord, bsp_coord_old,old_pos; ^ udvgraph.c: In function 'UDV_draw_helixDNA': udvgraph.c:1827:15: warning: variable 'cyChar_2' set but not used [-Wunused-but-set-variable] Int2 cxChar_2,cyChar_2; ^ udvgraph.c: In function 'draw_logo': udvgraph.c:1940:38: warning: variable 'cyGlobal' set but not used [-Wunused-but-set-variable] Int2 pos,cxChar=7,cyChar=13,cxGlobal,cyGlobal; ^ udvgraph.c: In function 'UDV_draw_CDS_minus': udvgraph.c:2337:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ udvgraph.c:2332:5: warning: variable 'numivals2' set but not used [-Wunused-but-set-variable] numivals2=0, ^ udvgraph.c: In function 'UDV_draw_CDS_plus': udvgraph.c:2461:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ udvgraph.c: In function 'UDV_draw_panel': udvgraph.c:4041:21: warning: unused variable 'vnp_seqinfo' [-Wunused-variable] ValNodePtr vnp_seqinfo=NULL; ^ udvgraph.c:4035:45: warning: variable 'nLinesDraw' set but not used [-Wunused-but-set-variable] Int4 decal_haut,from_row,to_row,nTotRow,nLinesDraw; ^ udvgraph.c:4035:37: warning: variable 'nTotRow' set but not used [-Wunused-but-set-variable] Int4 decal_haut,from_row,to_row,nTotRow,nLinesDraw; ^ In file included from ../include/asn2ff6.h:142:0, from udvgraph.c:180: udvgraph.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ udvgraph.c:948:13: warning: 'UDV_draw_vert_cursor' defined but not used [-Wunused-function] static void UDV_draw_vert_cursor(RecT rcClip,PoinT pos) ^ udvgraph.c:971:14: warning: 'UDV_draw_horz_cursor' defined but not used [-Wunused-function] static void UDV_draw_horz_cursor(UnDViewerGraphDataPtr GrData, ^ udvgraph.c:1298:13: warning: 'UDV_AutoSelectAllSeq' defined but not used [-Wunused-function] static void UDV_AutoSelectAllSeq(ViewerDialogDataPtr vdp,Boolean bSelect) ^ udvgraph.c:3433:14: warning: 'UDV_Draw_features_label' defined but not used [-Wunused-function] static void UDV_Draw_features_label(UnDViewerGraphDataPtr GrData, ^ udvgraph.c:3921:14: warning: 'UDV_calc_decalRC' defined but not used [-Wunused-function] static Int4 UDV_calc_decalRC(ValNodePtr ParaG,Int4 ScrollPos, ^ udvgraph.c: In function 'UDV_GetCurrentDispRange': udvgraph.c:638:15: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] *from_bsp=pgp->StartLetter; ^ udvgraph.c: In function 'UDV_Draw_features': udvgraph.c:3203:45: warning: 'idx6' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx5),(Int2)(stop_x+idx6),y, ^ udvgraph.c:3203:24: warning: 'idx5' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx5),(Int2)(stop_x+idx6),y, ^ udvgraph.c:3196:47: warning: 'idx4' may be used uninitialized in this function [-Wmaybe-uninitialized] stop2=_min_(pgp->StopLetter,context->ivals[idx4]); ^ udvgraph.c:3189:45: warning: 'idx3' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx2),(Int2)(stop_x+idx3),y, ^ udvgraph.c:3189:24: warning: 'idx2' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx2),(Int2)(stop_x+idx3),y, ^ udvgraph.c:3182:49: warning: 'idx1' may be used uninitialized in this function [-Wmaybe-uninitialized] start2=_max_(pgp->StartLetter,context->ivals[idx1]); ^ In file included from ../include/udviewer.h:225:0, from udvgraph.c:177: ../include/udvdef.h:187:40: warning: 'stop_x2' may be used uninitialized in this function [-Wmaybe-uninitialized] #define _max_(a,b) ((a)>=(b)?(a):(b)) ^ udvgraph.c:2803:21: note: 'stop_x2' was declared here Int2 start_x,stop_x,stop_x2, /*id. but in pixels*/ ^ In file included from ../include/udviewer.h:225:0, from udvgraph.c:177: ../include/udvdef.h:187:40: warning: 'stop_x' may be used uninitialized in this function [-Wmaybe-uninitialized] #define _max_(a,b) ((a)>=(b)?(a):(b)) ^ udvgraph.c:2803:14: note: 'stop_x' was declared here Int2 start_x,stop_x,stop_x2, /*id. but in pixels*/ ^ udvgraph.c:3226:10: warning: 'y' may be used uninitialized in this function [-Wmaybe-uninitialized] MoveTo(_max_(stop_x2,stop_x)+GrData->udv_font.cxChar,y); ^ udvgraph.c: In function 'UDV_ClickProc': udvgraph.c:1461:31: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_SelectFeatInFeatDlg(vmp,entityID,itemID); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF udvopen.c udvopen.c: In function 'UDV_FileOpen': udvopen.c:875:16: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b,b1,b2; ^ udvopen.c:875:11: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b,b1,b2; ^ udvopen.c: In function 'UDV_CreateListBioseqDlg': udvopen.c:1180:9: warning: the address of 'szName' will always evaluate as 'true' [-Waddress] if (szName){ ^ udvopen.c: In function 'UDV_FOpenCancelProc': udvopen.c:792:23: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_set_PullMenus(&vmp->MainMenu,TRUE); ^ udvopen.c: In function 'UDV_analyze_SEP_for_open': udvopen.c:325:15: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] vmp->entityID=entityID; ^ udvopen.c:327:14: warning: 'dataptr' may be used uninitialized in this function [-Wmaybe-uninitialized] vmp->dataptr=dataptr; ^ udvopen.c: In function 'UDV_FOpenAcceptProc': udvopen.c:855:23: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_set_PullMenus(&vmp->MainMenu,TRUE); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF udvpanel.c udvpanel.c: In function 'UDV_GotoBtnProc': udvpanel.c:2080:22: warning: variable 'old_ivalue' set but not used [-Wunused-but-set-variable] Int4 iValue,old_ivalue,line_num,from_bsp,to_bsp, ^ udvpanel.c:2079:15: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ udvpanel.c: In function 'CreateMainControls': udvpanel.c:2165:8: warning: variable 'cxChar' set but not used [-Wunused-but-set-variable] Int2 cxChar,cyChar,Margins; ^ udvpanel.c: In function 'UDV_SearchFeatForKey': udvpanel.c:3478:14: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1,b2; ^ udvpanel.c: At top level: udvpanel.c:2773:28: warning: 'FeaturesListBoxScan' defined but not used [-Wunused-function] static Boolean LIBCALLBACK FeaturesListBoxScan (SeqFeatPtr sfp, ^ udvpanel.c: In function 'InitFeaturesListDlg': udvpanel.c:3301:16: warning: 'pop' may be used uninitialized in this function [-Wmaybe-uninitialized] PopupItem(pop,szSeqFeatClassName[k]); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF dotvibrant.c dotvibrant.c: In function 'DOT_DisplayHits': dotvibrant.c:564:18: warning: variable 'ycomp' set but not used [-Wunused-but-set-variable] Int4 ycomp, xcomp; ^ dotvibrant.c: In function 'DOT_VscrlProc': dotvibrant.c:918:16: warning: variable 'visLines' set but not used [-Wunused-but-set-variable] Int2 visLines, vmargin, hmargin; ^ dotvibrant.c: In function 'DOT_HscrlProc': dotvibrant.c:972:20: warning: variable 'visLines' set but not used [-Wunused-but-set-variable] Int2 dx, visLines, offset, hmargin, vmargin; ^ dotvibrant.c: In function 'DOT_VCrossHairs': dotvibrant.c:1402:10: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size =15; ^ dotvibrant.c: In function 'DOT_HCrossHairs': dotvibrant.c:1427:9: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size = 15; ^ dotvibrant.c: In function 'DOT_MoveCrossHairs': dotvibrant.c:1453:18: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c:1452:10: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size = 15; ^ dotvibrant.c: In function 'DOT_DrawXAxis': dotvibrant.c:1532:38: warning: unused variable 'title' [-Wunused-variable] Char scale_buf[15] = {""}, title[50]={""}; /*scale value*/ ^ dotvibrant.c: In function 'DOT_DrawYAxis': dotvibrant.c:1642:38: warning: unused variable 'title' [-Wunused-variable] Char scale_buf[15] = {""}, title[50]={""}; /*scale value*/ ^ dotvibrant.c:1641:55: warning: variable 'Fh_4' set but not used [-Wunused-but-set-variable] Int4 pos, ylen, x, y, scale_pos, i, j, Fh_2,Fh_4; ^ dotvibrant.c: In function 'DOT_SVDisplayDiags': dotvibrant.c:1770:28: warning: variable 'aln_diag' set but not used [-Wunused-but-set-variable] Int4 diag, aln_diag; ^ dotvibrant.c:1770:22: warning: variable 'diag' set but not used [-Wunused-but-set-variable] Int4 diag, aln_diag; ^ dotvibrant.c:1766:22: warning: variable 'width' set but not used [-Wunused-but-set-variable] Int4 width, height; ^ dotvibrant.c:1765:31: warning: variable 'p_HFrom' set but not used [-Wunused-but-set-variable] Int4 p_VFrom, p_HFrom; ^ dotvibrant.c:1765:22: warning: variable 'p_VFrom' set but not used [-Wunused-but-set-variable] Int4 p_VFrom, p_HFrom; ^ dotvibrant.c:1762:28: warning: unused variable 'cutoff' [-Wunused-variable] Int4 stop, cutoff=0, q_start, s_start, length; ^ dotvibrant.c:1760:34: warning: variable 'seg3' set but not used [-Wunused-but-set-variable] SegmenT seg1, seg2, seg3, seg4; ^ dotvibrant.c: In function 'DOT_FillNewSeqBufs': dotvibrant.c:2197:19: warning: unused variable 'alp' [-Wunused-variable] DOTAlignInfoPtr alp=NULL; ^ dotvibrant.c: In function 'DOT_InitCInfo': dotvibrant.c:2258:14: warning: unused variable 'colBuf' [-Wunused-variable] Char colBuf[12]={""}; ^ dotvibrant.c: In function 'DOT_SVDisplaySequence': dotvibrant.c:2379:16: warning: variable 'matrix' set but not used [-Wunused-but-set-variable] Int4Ptr PNTR matrix; ^ dotvibrant.c:2367:14: warning: variable 'vis_2' set but not used [-Wunused-but-set-variable] Int4 vis_2, buf_len; ^ dotvibrant.c:2364:14: warning: unused variable 'prot_threshold' [-Wunused-variable] Int4 prot_threshold=0, bloc_cntr; ^ dotvibrant.c:2350:24: warning: variable 'mip2' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip1, mip2; ^ dotvibrant.c: In function 'DOT_SVClickProc': dotvibrant.c:2807:17: warning: unused variable 'handled' [-Wunused-variable] Int2 handled=0; ^ dotvibrant.c: In function 'DOT_ResizeFeatWindow': dotvibrant.c:3016:63: warning: variable 'SubjectHeight' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c:3016:51: warning: variable 'QueryHeight' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c:3016:37: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c: In function 'DOT_ResizeSequenceWindow': dotvibrant.c:3098:25: warning: variable 'is_visible2' set but not used [-Wunused-but-set-variable] Boolean is_visible1, is_visible2; ^ dotvibrant.c:3098:12: warning: variable 'is_visible1' set but not used [-Wunused-but-set-variable] Boolean is_visible1, is_visible2; ^ dotvibrant.c:3095:51: warning: variable 'V1Height' set but not used [-Wunused-but-set-variable] Int2 height,width,gap,vsbWidth,in,hsbHeight,V1Height,V2Height, goHeight; ^ dotvibrant.c: In function 'DOT_HideFeatDlg': dotvibrant.c:3745:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ dotvibrant.c: In function 'DOT_SVBuildDiagViewer': dotvibrant.c:4031:18: warning: variable 'mip' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip; ^ dotvibrant.c:4029:28: warning: unused variable 'str2' [-Wunused-variable] Char str1[41]={""}, str2[41]={""}; ^ dotvibrant.c:4029:13: warning: unused variable 'str1' [-Wunused-variable] Char str1[41]={""}, str2[41]={""}; ^ dotvibrant.c:4022:18: warning: variable 'pr2' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:4022:13: warning: variable 'pr1' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c: In function 'DOT_UpdateDataRects': dotvibrant.c:4166:19: warning: variable 'dy' set but not used [-Wunused-but-set-variable] Int4 comp, dx, dy, xstart, ystart; ^ dotvibrant.c:4166:15: warning: variable 'dx' set but not used [-Wunused-but-set-variable] Int4 comp, dx, dy, xstart, ystart; ^ dotvibrant.c: In function 'DOT_MsgFunc': dotvibrant.c:4215:17: warning: variable 'vdp2' set but not used [-Wunused-but-set-variable] DOTVibDataPtr vdp2 = NULL; ^ dotvibrant.c: In function 'DOT_ReleaseProc': dotvibrant.c:4373:32: warning: unused variable 'yaxis_incr' [-Wunused-variable] Boolean xaxis_incr=TRUE, yaxis_incr=TRUE; ^ dotvibrant.c:4373:15: warning: unused variable 'xaxis_incr' [-Wunused-variable] Boolean xaxis_incr=TRUE, yaxis_incr=TRUE; ^ dotvibrant.c:4371:19: warning: variable 'alp' set but not used [-Wunused-but-set-variable] DOTAlignInfoPtr alp=NULL; ^ dotvibrant.c:4370:18: warning: variable 'mip1' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip1=NULL; ^ dotvibrant.c: In function 'DOT_StartDOTPLOT': dotvibrant.c:4891:23: warning: variable 'vdp' set but not used [-Wunused-but-set-variable] DOTVibDataPtr vdp; ^ dotvibrant.c: In function 'DOT_DoZoom': dotvibrant.c:5106:18: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c: In function 'DOT_ZoomProc': dotvibrant.c:5204:23: warning: variable 'temport' set but not used [-Wunused-but-set-variable] WindoW temport, w; ^ dotvibrant.c: In function 'AlnMgr2GetNextLine': dotvibrant.c:5315:3: warning: value computed is not used [-Wunused-value] *n++; ^ dotvibrant.c: In function 'DOT_GetAlign': dotvibrant.c:5332:44: warning: variable 'n' set but not used [-Wunused-but-set-variable] Int4 x1, y1, x2, y2, numlines=0, n=0, i=0; ^ dotvibrant.c: In function 'DOT_FillAlignInfoPointer': dotvibrant.c:5565:16: warning: unused variable 'i' [-Wunused-variable] Int4 i=0, n=0; ^ dotvibrant.c: In function 'DOT_Prob_FillAlignInfoPointer': dotvibrant.c:5681:16: warning: unused variable 'i' [-Wunused-variable] Int4 i=0, n=0; ^ dotvibrant.c:5680:16: warning: unused variable 'numsaps' [-Wunused-variable] Int4 numsaps = 0, numlines = 0; ^ dotvibrant.c:5678:37: warning: unused variable 'sap_tmp' [-Wunused-variable] SeqAlignPtr sap=NULL, salp=NULL, sap_tmp=NULL; ^ dotvibrant.c: In function 'DOT_DoBlast': dotvibrant.c:5918:23: warning: unused variable 'eval' [-Wunused-variable] Char eval[11]={""}; ^ dotvibrant.c:5917:23: warning: variable 'is_local' set but not used [-Wunused-but-set-variable] Boolean is_local; ^ dotvibrant.c:5915:23: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID=0; ^ dotvibrant.c: In function 'DOT_CreateWindowDetails': dotvibrant.c:6214:27: warning: variable 'pr2' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:6214:22: warning: variable 'pr1' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:6207:21: warning: variable 'g1' set but not used [-Wunused-but-set-variable] GrouP g, g1, g2; ^ dotvibrant.c: In function 'DOT_ResizeMainWindow': dotvibrant.c:6273:35: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int2 height, width, in , gap; ^ dotvibrant.c: In function 'DOT_FindAlignment': dotvibrant.c:6662:29: warning: unused variable 'rb_fixed' [-Wunused-variable] Boolean lt_fixed=FALSE, rb_fixed=FALSE; ^ dotvibrant.c:6662:13: warning: unused variable 'lt_fixed' [-Wunused-variable] Boolean lt_fixed=FALSE, rb_fixed=FALSE; ^ dotvibrant.c:6661:17: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c: In function 'SCP_CompareOrderOrganizeBioseqs': dotvibrant.c:6792:25: warning: variable 'itemID' set but not used [-Wunused-but-set-variable] Uint4 itemID=0; ^ dotvibrant.c: In function 'SCP_OrganizeAlnsInSet': dotvibrant.c:6873:21: warning: variable 'indextype' set but not used [-Wunused-but-set-variable] Int4 indextype; ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from ../include/dotviewer.h:32, from dotvibrant.c:84: dotvibrant.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/dotviewer.h:32, from dotvibrant.c:84: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dotvibrant.c:2760:16: warning: 'DOT_SVGetDiag' defined but not used [-Wunused-function] static Boolean DOT_SVGetDiag (Uint2 segID, Uint2 primID, VoidPtr userdata) ^ dotvibrant.c:2954:13: warning: 'DOT_SVChangeLabels' defined but not used [-Wunused-function] static void DOT_SVChangeLabels (GrouP g) ^ dotvibrant.c:3318:13: warning: 'DOT_AddFeatureToSegment' defined but not used [-Wunused-function] static void DOT_AddFeatureToSegment(SeqMgrFeatContextPtr context, ^ dotvibrant.c:3688:13: warning: 'DOT_HideAcceptProc' defined but not used [-Wunused-function] static void DOT_HideAcceptProc(ButtoN b) ^ dotvibrant.c:4213:25: warning: 'DOT_MsgFunc' defined but not used [-Wunused-function] static Int2 LIBCALLBACK DOT_MsgFunc (OMMsgStructPtr ommsp) ^ dotvibrant.c:4749:13: warning: 'DOT_GetInfoProc' defined but not used [-Wunused-function] static void DOT_GetInfoProc (IteM i) ^ dotvibrant.c:4767:13: warning: 'DOT_FeatAnalysisProc' defined but not used [-Wunused-function] static void DOT_FeatAnalysisProc(ButtoN b) ^ dotvibrant.c:5281:16: warning: 'AlnMgr2GetNextLine' defined but not used [-Wunused-function] static Boolean AlnMgr2GetNextLine(SeqAlignPtr sap, AlnMsg2Ptr amp1, AlnMsg2Ptr amp2, Int4Ptr x1, Int4Ptr y1, Int4Ptr x2, Int4Ptr y2, Int4Ptr n) ^ dotvibrant.c:5325:16: warning: 'DOT_GetAlign' defined but not used [-Wunused-function] static Boolean DOT_GetAlign (DOTAlignInfoPtr alp) ^ dotvibrant.c:5894:16: warning: 'DOT_get_eval' defined but not used [-Wunused-function] static FloatHi DOT_get_eval(Int4 exp) ^ dotvibrant.c:6346:13: warning: 'DOT_NewAnalysis' defined but not used [-Wunused-function] static void DOT_NewAnalysis (ButtoN b) ^ dotvibrant.c:6642:16: warning: 'DOT_DeselectPrim' defined but not used [-Wunused-function] static Boolean DOT_DeselectPrim (SegmenT seg, PrimitivE prim, Uint2 segID,Uint2 primID, Uint2 primCt, VoidPtr userdata) ^ dotvibrant.c: In function 'DOT_GetNthSeqFromAlign': dotvibrant.c:5072:11: warning: 'spp' may be used uninitialized in this function [-Wmaybe-uninitialized] ctr = SeqPortRead(spp, buffer, 100); ^ dotvibrant.c: In function 'DOT_SVPopulateSequenceViewer': dotvibrant.c:2611:32: warning: 'strand2' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2380:23: note: 'strand2' was declared here Uint1 strand1, strand2; ^ dotvibrant.c:2611:32: warning: 'strand1' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2380:14: note: 'strand1' was declared here Uint1 strand1, strand2; ^ dotvibrant.c:2583:37: warning: 'residue_names' may be used uninitialized in this function [-Wmaybe-uninitialized] sBuf[c]=*residue_names[(int)*s]; ^ dotvibrant.c:2378:16: note: 'residue_names' was declared here CharPtr PNTR residue_names; ^ dotvibrant.c:2611:32: warning: 's_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2370:42: note: 's_pos' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2611:32: warning: 'q_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2370:35: note: 'q_pos' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2504:11: warning: 'hit_stop' may be used uninitialized in this function [-Wmaybe-uninitialized] hit_stop+=hit_stop/10; ^ dotvibrant.c:2370:25: note: 'hit_stop' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2614:32: warning: 'hit_start' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_HlSeq(sbSeg, rc, margin, i, BLOCK_SIZE, hit_start, hit_stop, Fh, chw_2); ^ dotvibrant.c:2370:14: note: 'hit_start' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2503:16: warning: 'buf_len' may be used uninitialized in this function [-Wmaybe-uninitialized] end=s+buf_len-1; ^ dotvibrant.c:2367:21: note: 'buf_len' was declared here Int4 vis_2, buf_len; ^ dotvibrant.c:2545:18: warning: 'is_na' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_na) ^ dotvibrant.c:2361:27: note: 'is_na' was declared here Boolean ambig=FALSE, is_na; ^ dotvibrant.c:2503:6: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] end=s+buf_len-1; ^ dotvibrant.c:2357:14: note: 's' was declared here Uint1Ptr s; ^ dotvibrant.c:2626:16: warning: 'q' may be used uninitialized in this function [-Wmaybe-uninitialized] q++; ^ dotvibrant.c:2356:14: note: 'q' was declared here Uint1Ptr q; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF dlgutil1.c dlgutil1.c: In function 'IsAuthList': dlgutil1.c:3008:8: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ dlgutil1.c: In function 'TestAuthorDialog': dlgutil1.c:3357:20: warning: unused variable 'cp' [-Wunused-variable] CharPtr cp; ^ dlgutil1.c: In function 'TestIntervalEditor': dlgutil1.c:5318:20: warning: variable 'fuzz_to' set but not used [-Wunused-but-set-variable] Int2 fuzz_to; ^ dlgutil1.c:5317:20: warning: variable 'fuzz_from' set but not used [-Wunused-but-set-variable] Int2 fuzz_from; ^ dlgutil1.c:5316:41: warning: variable 'fuzz_before' set but not used [-Wunused-but-set-variable] Boolean isInterval, isPoint, fuzz_before, fuzz_after; ^ dlgutil1.c: In function 'CreateStandardEditMenu': dlgutil1.c:9189:8: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from dlgutil1.c:55: dlgutil1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dlgutil1.c:8061:16: warning: 'ParseSpecimenVoucherOk' defined but not used [-Wunused-function] static Boolean ParseSpecimenVoucherOk (CharPtr str) ^ dlgutil1.c:8378:25: warning: 'GetNthNameValuePair' defined but not used [-Wunused-function] static NameValuePairPtr GetNthNameValuePair (Int4 n, ValNodePtr list) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF dlgutil2.c dlgutil2.c: In function 'CreateImportFields': dlgutil2.c:1401:19: warning: variable 'is_gap' set but not used [-Wunused-but-set-variable] Boolean is_gap = FALSE; ^ dlgutil2.c: In function 'UpdateTableDisplayDialogScrollBars': dlgutil2.c:3532:11: warning: variable 'y' set but not used [-Wunused-but-set-variable] Int4 x, y; ^ dlgutil2.c:3532:8: warning: variable 'x' set but not used [-Wunused-but-set-variable] Int4 x, y; ^ dlgutil2.c: In function 'GetTableDisplayCell': dlgutil2.c:3931:8: warning: variable 'start_row' set but not used [-Wunused-but-set-variable] Int4 start_row, start_col; ^ dlgutil2.c: In function 'NewCreateInferenceDialog': dlgutil2.c:7600:19: warning: variable 'fnt' set but not used [-Wunused-but-set-variable] FonT fnt; ^ dlgutil2.c: In function 'ClickableListOnKey': dlgutil2.c:10202:20: warning: variable 'clp' set but not used [-Wunused-but-set-variable] ClickableListPtr clp; ^ dlgutil2.c: In function 'GetSelectedClickableListText': dlgutil2.c:10874:36: warning: variable 'char_offset' set but not used [-Wunused-but-set-variable] Int2 item, row, col, char_offset; ^ dlgutil2.c: In function 'AutomatchFeatures': dlgutil2.c:13840:36: warning: variable 's3' set but not used [-Wunused-but-set-variable] SeqIntPtr s1, s2, s3; ^ dlgutil2.c: At top level: dlgutil2.c:1672:16: warning: 'GetNameForFeature' defined but not used [-Wunused-function] static CharPtr GetNameForFeature (SeqFeatPtr sfp) ^ dlgutil2.c:8577:13: warning: 'GetCategoryNumFromName' defined but not used [-Wunused-function] static Int4 GetCategoryNumFromName (CharPtr category) ^ dlgutil2.c:10039:13: warning: 'DrawClickableListItem' defined but not used [-Wunused-function] static void DrawClickableListItem (DoC d, RectPtr r, Int2 item, Int2 firstLine) ^ dlgutil2.c:10059:13: warning: 'ClickClickableListItem' defined but not used [-Wunused-function] static void ClickClickableListItem (DoC d, PoinT pt) ^ dlgutil2.c:11993:16: warning: 'ParseMultiListQualOk' defined but not used [-Wunused-function] static Boolean ParseMultiListQualOk (CharPtr val) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF e2trmlst.c e2trmlst.c: In function 'ReadAFew': e2trmlst.c:2230:61: warning: left-hand operand of comma expression has no effect [-Wunused-value] for (row = 1, termPtr = e2TermListPtr->list; row <= *count, termPtr != NULL; row++, termPtr = termPtr->next) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF e2docsum.c e2docsum.c: In function 'FormatCdsSeq': e2docsum.c:1523:22: warning: variable 'gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr gene = NULL; ^ e2docsum.c: In function 'FetchSequence': e2docsum.c:1591:16: warning: variable 'currDbName' set but not used [-Wunused-but-set-variable] CharPtr currDbName; ^ e2docsum.c:1580:16: warning: variable 'group_segs' set but not used [-Wunused-but-set-variable] Uint1 group_segs = 0; ^ e2docsum.c: In function 'SaveDocsumProject': e2docsum.c:3606:16: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SummFormPtr sfp; ^ e2docsum.c: In function 'RetrieveGeneration': e2docsum.c:4135:19: warning: variable 'e2ip' set but not used [-Wunused-but-set-variable] Entrez2InfoPtr e2ip; ^ e2docsum.c: In function 'SetupMenus': e2docsum.c:4849:16: warning: variable 'c' set but not used [-Wunused-but-set-variable] ChoicE c; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/bspview.h:48, from e2docsum.c:53: e2docsum.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strucapi.h:52:0, from e2docsum.c:62: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ e2docsum.c:2154:20: warning: 'cddDocProcs' defined but not used [-Wunused-variable] static DocPrntProc cddDocProcs [] = { Query_FetchDocSum, Query_FetchFields, FetchUid, NULL }; ^ e2docsum.c:2850:13: warning: 'GetBiostrucComplexity' defined but not used [-Wunused-function] static Int4 GetBiostrucComplexity (void) ^ e2docsum.c:2883:13: warning: 'GetBiostrucMaxModels' defined but not used [-Wunused-function] static Int4 GetBiostrucMaxModels (void) ^ e2docsum.c: In function 'LaunchStructureViewer': e2docsum.c:2981:10: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ e2docsum.c: In function 'LaunchSequin': e2docsum.c:2838:10: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2graphic.c asn2graphic.c: In function 'ParseFilterItem': asn2graphic.c:1191:21: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int2 i, j; ^ asn2graphic.c: In function 'GeneProductsLayoutInternal': asn2graphic.c:3730:36: warning: variable 'featureStart' set but not used [-Wunused-but-set-variable] Int4 newLeft, featureStart, rowMaxRight; ^ asn2graphic.c: In function 'ScaleSntDrawProc': asn2graphic.c:4401:28: warning: variable 'r' set but not used [-Wunused-but-set-variable] RecT r; ^ asn2graphic.c: In function 'GphSentProc': asn2graphic.c:4996:16: warning: variable 'scaleY' set but not used [-Wunused-but-set-variable] Int4 scaleY; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2graphic.c:46: asn2graphic.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ asn2graphic.c: In function 'ProcessRows': asn2graphic.c:4361:37: warning: 'SegmentTreeBot' may be used uninitialized in this function [-Wmaybe-uninitialized] if (! EnsureFeatureHasSegment (FPSP, featdeftype, SegmentTreeBot)) return 0; ^ asn2graphic.c:4353:24: warning: 'SegmentTreeMid' may be used uninitialized in this function [-Wmaybe-uninitialized] SegmentTreeBot = CreateSegment (SegmentTreeMid, 0, 0); ^ asn2graphic.c:4349:24: warning: 'SegmentTreeTop' may be used uninitialized in this function [-Wmaybe-uninitialized] SegmentTreeMid = CreateSegment (SegmentTreeTop , 0, 0); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF medview.c medview.c: In function 'PrintMedlineViewForm': medview.c:588:14: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bspview.c In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gbfview.c gbfview.c: In function 'RelModeFailText': gbfview.c:1004:22: warning: variable 'hasPubs' set but not used [-Wunused-but-set-variable] Boolean hasPubs; ^ gbfview.c: In function 'PopulateFlatFile': gbfview.c:1289:22: warning: variable 'doColors' set but not used [-Wunused-but-set-variable] Boolean doColors; ^ gbfview.c: In function 'PopulateFasta': gbfview.c:1714:33: warning: left-hand operand of comma expression has no effect [-Wunused-value] if (ISA_na (bsp->mol)) {TRUE, ^ gbfview.c:1646:20: warning: variable 'group_segs' set but not used [-Wunused-but-set-variable] Uint1 group_segs; ^ gbfview.c: In function 'PopulateAsnOrXML': gbfview.c:1969:16: warning: variable 'lookupFar' set but not used [-Wunused-but-set-variable] Boolean lookupFar = FALSE; ^ gbfview.c:1968:16: warning: variable 'lockFar' set but not used [-Wunused-but-set-variable] Boolean lockFar = FALSE; ^ gbfview.c: At top level: gbfview.c:289:16: warning: 'ColorIcon' defined but not used [-Wunused-function] static Boolean ColorIcon ( ^ gbfview.c:944:13: warning: 'LookForPubs' defined but not used [-Wunused-function] static void LookForPubs (BioseqPtr bsp, Pointer userdata) ^ gbfview.c:1212:13: warning: 'LookForFarBsp' defined but not used [-Wunused-function] static void LookForFarBsp ( ^ gbfview.c:1231:13: warning: 'LookForFarProds' defined but not used [-Wunused-function] static void LookForFarProds ( ^ gbfview.c: In function 'PrintFlatFileFastaOrAsn': gbfview.c:2491:12: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gbfview.c: In function 'ReleaseIcon': gbfview.c:667:28: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gphview.c gphview.c: In function 'ReleaseAlignment': gphview.c:1306:18: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp; ^ gphview.c: In function 'DrawAlignOnAllSequences': gphview.c:1391:10: warning: variable 'vn' set but not used [-Wunused-but-set-variable] ValNode vn; ^ gphview.c: In function 'ReleaseDesktop': gphview.c:1836:18: warning: variable 'seg' set but not used [-Wunused-but-set-variable] SegmenT seg; ^ gphview.c: In function 'AutoScrollGeneName': gphview.c:2100:21: warning: variable 'num' set but not used [-Wunused-but-set-variable] Int2 num; ^ gphview.c: In function 'DisplayGeneChoiceWindow': gphview.c:2426:22: warning: variable 'p' set but not used [-Wunused-but-set-variable] PrompT p; ^ gphview.c: In function 'PrintGraphical': gphview.c:3268:14: warning: unused variable 'ans' [-Wunused-variable] MsgAnswer ans; ^ gphview.c: In function 'PopulateAsn2GphGraphic': gphview.c:3868:16: warning: variable 'min' set but not used [-Wunused-but-set-variable] Int4 min; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gphdraw.c gphdraw.c: In function 'GraphSentProc': gphdraw.c:195:18: warning: variable 'scaleY' set but not used [-Wunused-but-set-variable] Int4 scaleY; ^ gphdraw.c: In function 'DrawGraphToPanel': gphdraw.c:453:27: warning: variable 'xp' set but not used [-Wunused-but-set-variable] Int4Ptr xpoints, xp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gxydraw.c gxydraw.c: In function 'DotXYPlot': gxydraw.c:259:19: warning: 'xaxiscount' may be used uninitialized in this function [-Wmaybe-uninitialized] gsp->xaxiscount = xaxiscount; ^ gxydraw.c:182:19: note: 'xaxiscount' was declared here Int4 xaxiscount, yaxiscount; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gtrdraw.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqpanel.c seqpanel.c: In function 'FillFeatureInfo': seqpanel.c:427:18: warning: variable 'stop' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c:427:11: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c: In function 'DrawFeatureCodonLines': seqpanel.c:1897:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] Char tmp[2]; ^ seqpanel.c: In function 'DrawFeature': seqpanel.c:2127:21: warning: variable 'prot_len' set but not used [-Wunused-but-set-variable] Int4 prot_len; ^ seqpanel.c: In function 'GetSeqChapterFeatureInfo': seqpanel.c:3136:18: warning: variable 'stop' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c:3136:11: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c: In function 'onSeqEdVScrollBarSeqPanel': seqpanel.c:3406:17: warning: variable 'totallines' set but not used [-Wunused-but-set-variable] Int4 totallines; ^ seqpanel.c: In function 'PrintFeature': seqpanel.c:3812:28: warning: variable 'fRight' set but not used [-Wunused-but-set-variable] Int4 fLeft, fRight, swap; ^ seqpanel.c:3812:21: warning: variable 'fLeft' set but not used [-Wunused-but-set-variable] Int4 fLeft, fRight, swap; ^ seqpanel.c: In function 'PrintTranslatedFrame': seqpanel.c:3966:17: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] Char tmp[2]; ^ seqpanel.c: In function 'ExportSequenceText': seqpanel.c:4372:15: warning: pointer targets in passing argument 1 of 'complement_string' differ in signedness [-Wpointer-sign] complement_string (file_line + SEQ_ED_PRINT_SEQ_OFFSET); ^ In file included from ../include/alignmgr2.h:112:0, from seqpanel.c:39: ../include/salutil.h:78:20: note: expected 'Nlm_CharPtr' but argument is of type 'Nlm_Uint1Ptr' NLM_EXTERN CharPtr complement_string (CharPtr str); ^ seqpanel.c:4236:17: warning: variable 'curr_para_strings' set but not used [-Wunused-but-set-variable] ValNodePtr curr_para_strings = NULL; ^ seqpanel.c:4229:17: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1Ptr buf; ^ seqpanel.c: In function 'SeqEdOnClick': seqpanel.c:4946:21: warning: variable 'direction' set but not used [-Wunused-but-set-variable] Int4 direction; ^ seqpanel.c: In function 'SeqAlnOnDrag': seqpanel.c:5685:34: warning: variable 'is_ctrl' set but not used [-Wunused-but-set-variable] Boolean is_double_click, is_ctrl; ^ seqpanel.c:5685:17: warning: variable 'is_double_click' set but not used [-Wunused-but-set-variable] Boolean is_double_click, is_ctrl; ^ seqpanel.c: In function 'ResizeSeqEdView': seqpanel.c:5760:8: warning: variable 'sequence_pos' set but not used [-Wunused-but-set-variable] Int4 sequence_pos = 0; ^ seqpanel.c:5755:8: warning: variable 'height' set but not used [-Wunused-but-set-variable] Int4 height, width; ^ seqpanel.c: In function 'ReverseSequenceStrandsInAlignment': seqpanel.c:9007:17: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqpanel.c:39: seqpanel.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ seqpanel.c:1171:16: warning: 'GetAlignmentColumnPercentIDsForAlignmentSection' defined but not used [-Wunused-function] static double *GetAlignmentColumnPercentIDsForAlignmentSection (BioseqViewPtr bvp, Int4 line, Int4 aln_idx) ^ seqpanel.c: In function 'SeqEdFindPatternDialog': seqpanel.c:7707:16: warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized] AlignObjects (ALIGN_CENTER, (HANDLE) p1, (HANDLE) fdp->pattern_txt, (HANDLE)fdp->prompt, ^ seqpanel.c: In function 'PrintFeature': seqpanel.c:3726:24: warning: 'str_prot' may be used uninitialized in this function [-Wmaybe-uninitialized] prot_len = StringLen (str_prot); ^ seqpanel.c:3810:21: note: 'str_prot' was declared here CharPtr str_prot; ^ seqpanel.c: In function 'SeqEdOnClick': seqpanel.c:5026:10: warning: 'is_left_end' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_left_end) ^ seqpanel.c:5030:15: warning: 'is_right_end' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (is_right_end) ^ seqpanel.c: In function 'SeqEdExportProc': seqpanel.c:4353:38: warning: 'seq_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqEdPrintTextLineToFile ((CharPtr)file_line, from, to, seq_pos, fp); ^ seqpanel.c:4233:17: note: 'seq_pos' was declared here Int4 seq_pos; ^ seqpanel.c: In function 'onDrawSeqPanel': seqpanel.c:1301:24: warning: 'alnbuf' may be used uninitialized in this function [-Wmaybe-uninitialized] MemCpy(buf, alnbuf + from, len); ^ seqpanel.c:2466:33: note: 'alnbuf' was declared here Uint1Ptr buf, seqbuf, alnbuf; ^ seqpanel.c:1252:29: warning: 'seqbuf' may be used uninitialized in this function [-Wmaybe-uninitialized] AlignmentIntervalToString (tmp_salp, row, start, stop, bvp->TargetRow, ^ seqpanel.c:2466:25: note: 'seqbuf' was declared here Uint1Ptr buf, seqbuf, alnbuf; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ingengraph.c ingengraph.c: In function 'Ing_BigEncodeIdxFeat': ingengraph.c:262:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ ingengraph.c: In function 'Ing_AddOneAlignToOverviewPage': ingengraph.c:347:13: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp=NULL; ^ ingengraph.c: In function 'Ing_AddAlignsToOverviewPage': ingengraph.c:372:18: warning: unused variable 'buf' [-Wunused-variable] Char buf[41]={""}; ^ ingengraph.c:367:18: warning: variable 'NewLine' set but not used [-Wunused-but-set-variable] Boolean NewLine=FALSE; ^ ingengraph.c: In function 'Ing_DrawOverviewPage': ingengraph.c:492:14: warning: variable 'offset' set but not used [-Wunused-but-set-variable] Int4 offset; ^ In file included from ../include/vibrant.h:130:0, from ../include/ingengraph.h:54, from ingengraph.c:45: ../include/vibdefns.h:438:17: warning: unused variable 'Nlm_Visible' [-Wunused-variable] #define Visible Nlm_Visible ^ ingengraph.c:488:14: note: in expansion of macro 'Visible' Boolean Visible=FALSE; ^ ingengraph.c: In function 'Ing_PopOverviewPage': ingengraph.c:715:16: warning: variable 'margin' set but not used [-Wunused-but-set-variable] Int4 margin, len; ^ ingengraph.c:714:16: warning: unused variable 'buf' [-Wunused-variable] Char buf[50]={""}; ^ ingengraph.c:708:16: warning: unused variable 'sanp' [-Wunused-variable] SeqAnnotPtr sanp=NULL; ^ ingengraph.c: In function 'Ing_PopDetailedPage': ingengraph.c:1437:16: warning: variable 'CurrentSeg' set but not used [-Wunused-but-set-variable] SegmenT CurrentSeg=NULL; ^ ingengraph.c: In function 'Ing_ExploreSegments': ingengraph.c:1829:22: warning: unused variable 'isDraft' [-Wunused-variable] Boolean isDraft = FALSE; ^ ingengraph.c:1827:22: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp = NULL; ^ ingengraph.c:1826:22: warning: unused variable 'gbp' [-Wunused-variable] GBBlockPtr gbp = NULL; ^ ingengraph.c:1824:33: warning: variable 'black' set but not used [-Wunused-but-set-variable] Uint1 orange[3], black[3]; ^ ingengraph.c:1823:33: warning: variable 'lime' set but not used [-Wunused-but-set-variable] Uint1 indigo[3], lime[3]; ^ ingengraph.c:1823:22: warning: variable 'indigo' set but not used [-Wunused-but-set-variable] Uint1 indigo[3], lime[3]; ^ ingengraph.c: In function 'Ing_AddGCRect': ingengraph.c:1933:17: warning: variable 'comp2' set but not used [-Wunused-but-set-variable] FloatHi comp2, comp_prev; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/ingengraph.h:63, from ingengraph.c:45: ingengraph.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ ingengraph.c:71:13: warning: 'Ing_GetNamesZoomedVal' declared 'static' but never defined [-Wunused-function] static void Ing_GetNamesZoomedVal(VieweR vNames,Int4Ptr from, Int4Ptr to, ^ ingengraph.c:583:24: warning: 'Ing_SortByChoice' defined but not used [-Wunused-function] static int LIBCALLBACK Ing_SortByChoice (VoidPtr ptr1, VoidPtr ptr2) ^ ingengraph.c:602:28: warning: 'Ing_CollectFeatures1' defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_CollectFeatures1(SeqFeatPtr sfp, SeqMgrFeatContextPtr sfc) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ingenext.c ingenext.c: In function 'Ing_KeepTheBestAlignments': ingenext.c:167:20: warning: variable 'amaip' set but not used [-Wunused-but-set-variable] AMAlignIndex2Ptr amaip = NULL; ^ ingenext.c: In function 'Ing_HandleQBlastResults': ingenext.c:272:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, TRUE, TRUE, TRUE)){ ^ ingenext.c: In function 'Ing_HandleResults': ingenext.c:535:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, TRUE, TRUE, TRUE)){ ^ ingenext.c: In function 'Ing_AccepttRNAargsProc': ingenext.c:739:18: warning: unused variable 'paramlist' [-Wunused-variable] ValNodePtr paramlist = NULL; ^ ingenext.c: In function 'Ing_tRNAscanProc': ingenext.c:915:22: warning: unused variable 'moveMe' [-Wunused-variable] ValNodePtr moveMe = NULL; ^ ingenext.c:906:22: warning: unused variable 'first' [-Wunused-variable] TexT first = NULL; ^ ingenext.c:902:22: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ ingenext.c:896:17: warning: unused variable 'args' [-Wunused-variable] CharPtr args = NULL; ^ ingenext.c: In function 'Ing_ReadtRNAConfigFile': ingenext.c:1125:15: warning: variable 'demomode' set but not used [-Wunused-but-set-variable] Boolean demomode = FALSE; ^ ingenext.c: In function 'Ing_DoBlast2Seqs': ingenext.c:1312:23: warning: variable 'is_local' set but not used [-Wunused-but-set-variable] Boolean is_local, first_bsp=TRUE; ^ ingenext.c: In function 'Ing_CreateDotMatrixForm': ingenext.c:1834:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, FALSE, TRUE, FALSE)) ^ ingenext.c: In function 'Ing_RunSpidey': ingenext.c:1994:20: warning: unused variable 'sanp' [-Wunused-variable] SeqAnnotPtr sanp = NULL; ^ ingenext.c:1993:20: warning: unused variable 'spidp_next' [-Wunused-variable] SPI_mRNAPtr spidp_next = NULL; ^ ingenext.c:1992:20: warning: unused variable 'spidp_head' [-Wunused-variable] SPI_mRNAPtr spidp_head = NULL; ^ ingenext.c: In function 'Ing_ReadmRNAs_ext': ingenext.c:2025:4: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, FALSE, TRUE, FALSE)) ^ ingenext.c: In function 'Ing_DeleteInsertInGenomic': ingenext.c:2522:16: warning: unused variable 'newsegs' [-Wunused-variable] Int2 newsegs = 0, offset = 0; ^ ingenext.c: In function 'Ing_ReplaceAllMismatchedInLocation': ingenext.c:2615:21: warning: unused variable 'str' [-Wunused-variable] Char str[200] = {""}; ^ ingenext.c:2612:22: warning: unused variable 'amaip' [-Wunused-variable] AMAlignIndex2Ptr amaip = NULL; ^ ingenext.c: In function 'Ing_MismatchProc': ingenext.c:3025:15: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip = NULL; ^ ingenext.c: In function 'Ing_PrintSpideyReport': ingenext.c:3471:27: warning: variable 'gmis' set but not used [-Wunused-but-set-variable] Int4 mmis, gmis, miscount = 0; ^ ingenext.c: In function 'Ing_PrintBlastReport': ingenext.c:3853:18: warning: unused variable 'more' [-Wunused-variable] Boolean more = FALSE; ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ../include/ingenext.h:53, from ingenext.c:46: ../include/vibdefns.h:622:16: warning: variable 'Nlm_DkGray' set but not used [-Wunused-but-set-variable] #define DkGray Nlm_DkGray ^ ingenext.c:3850:18: note: in expansion of macro 'DkGray' Uint1 DkGray[3]; ^ ingenext.c: In function 'Ing_PopulateReport': ingenext.c:4328:20: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip=NULL; ^ ingenext.c:4324:20: warning: unused variable 'temp' [-Wunused-variable] CharPtr temp = NULL; ^ ingenext.c: In function 'Ing_ResizeReportWindow': ingenext.c:4484:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/ingenwin.h:60, from ../include/ingenext.h:53, from ingenext.c:46: ingenext.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from ../include/ingenext.h:53, from ingenext.c:46: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from ../include/ingenwin.h:62, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ ingenext.c:59:28: warning: 'Ing_BlastCallback' defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_BlastCallback (BlastResponse *brp, ^ ingenext.c:129:13: warning: 'querytimerlimit' defined but not used [-Wunused-variable] static Int4 querytimerlimit = 100; ^ ingenext.c:130:13: warning: 'querytimercount' defined but not used [-Wunused-variable] static Int4 querytimercount = 0; ^ ingenext.c: In function 'Ing_DoBlast2Seqs': ingenext.c:1457:17: warning: 'e_head' may be used uninitialized in this function [-Wmaybe-uninitialized] e_tmp->next=e_head; ^ ingenext.c: In function 'Ing_MismatchProc': ingenext.c:3170:32: warning: 'gstart' may be used uninitialized in this function [-Wmaybe-uninitialized] gstart = start + (stop - gstart); ^ ingenext.c:3206:45: warning: 'mstart' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (mstart == R1 || mstart == R2 || mstart == R3){ ^ ingenext.c: In function 'Ing_ReplaceAllMismatchedInLocation': ingenext.c:2617:33: warning: 'nmismatches' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 gmis, mmis, nmismatches, nkeep = 0; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ingenwin.c ingenwin.c: In function 'Ing_PopulateDetailedPage': ingenwin.c:134:22: warning: unused variable 'bSelected' [-Wunused-variable] Boolean bSelected = FALSE; ^ ingenwin.c: In function 'Ing_DoRange': ingenwin.c:394:22: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp; ^ ingenwin.c: In function 'Ing_PopulateCpG': ingenwin.c:576:19: warning: variable 'nchars' set but not used [-Wunused-but-set-variable] Int2 cxChar, nchars; ^ ingenwin.c: In function 'Ing_ResizeCpGWindow': ingenwin.c:642:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ ingenwin.c: In function 'Ing_PopulateMotif': ingenwin.c:718:26: warning: variable 'nchars' set but not used [-Wunused-but-set-variable] Int2 cxChar, nchars; ^ ingenwin.c:717:24: warning: variable 'swidth' set but not used [-Wunused-but-set-variable] Int4 slen, swidth; ^ ingenwin.c:717:18: warning: variable 'slen' set but not used [-Wunused-but-set-variable] Int4 slen, swidth; ^ ingenwin.c: In function 'Ing_ResizeMotifWindow': ingenwin.c:785:12: warning: unused variable 'name' [-Wunused-variable] CharPtr name = NULL; ^ ingenwin.c:783:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ ingenwin.c: In function 'Ing_ShowComplexity': ingenwin.c:1270:10: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] while ((Boolean)(slp_feat=SeqLocFindNext(slp_dust,slp_feat))){ ^ ingenwin.c: In function 'Ing_CreateNewFeature': ingenwin.c:1301:22: warning: unused variable 'rnatype' [-Wunused-variable] Uint1 rnatype=0; ^ ingenwin.c: In function 'Ing_GetAlignmentIntervals': ingenwin.c:1418:20: warning: unused variable 'master' [-Wunused-variable] SeqIdPtr master = NULL; ^ ingenwin.c: In function 'Ing_OldGetAlignmentIntervals': ingenwin.c:1494:20: warning: unused variable 'master' [-Wunused-variable] SeqIdPtr master = NULL; ^ ingenwin.c: In function 'Ing_OldMakeLocListFromSAP': ingenwin.c:1613:26: warning: unused variable 'slp2' [-Wunused-variable] SeqLocPtr slp1 = NULL, slp2 = NULL; ^ ingenwin.c:1613:13: warning: unused variable 'slp1' [-Wunused-variable] SeqLocPtr slp1 = NULL, slp2 = NULL; ^ ingenwin.c: In function 'Ing_OM_MsgFunc': ingenwin.c:2380:15: warning: the address of 'sfc' will always evaluate as 'true' [-Waddress] if (&sfc) ^ ingenwin.c:2284:22: warning: unused variable 'segID' [-Wunused-variable] Uint2 segID=0; ^ ingenwin.c:2280:22: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep=NULL; ^ ingenwin.c:2271:31: warning: unused variable 'number' [-Wunused-variable] Int4 score=0, number=0; ^ ingenwin.c:2271:22: warning: unused variable 'score' [-Wunused-variable] Int4 score=0, number=0; ^ ingenwin.c:2270:34: warning: unused variable 'n' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c:2270:28: warning: unused variable 's2' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c:2270:22: warning: unused variable 's1' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c: In function 'Ing_MoveCursor': ingenwin.c:2631:9: warning: variable 'grayClr2' set but not used [-Wunused-but-set-variable] Uint1 grayClr2[3]; ^ ingenwin.c: In function 'Ing_FeatViewerClickProc': ingenwin.c:2814:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (subSeg=FindSegPrim(v, pt, NULL, NULL, &prim)){ ^ ingenwin.c:2804:14: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp=NULL; ^ ingenwin.c: In function 'Ing_SequenceClickProc': ingenwin.c:2908:22: warning: variable 'ssp' set but not used [-Wunused-but-set-variable] SelStructPtr ssp=NULL; ^ ingenwin.c: In function 'Ing_ReadInBlastAsn': ingenwin.c:3077:19: warning: unused variable 'Report' [-Wunused-variable] IngReportPtr Report=NULL; ^ ingenwin.c:3075:19: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip=NULL; ^ ingenwin.c:3074:19: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp=NULL; ^ ingenwin.c:3073:19: warning: unused variable 'n_sap' [-Wunused-variable] SeqAlignPtr n_sap=NULL; ^ ingenwin.c: In function 'Ing_ParseSeqIdFile': ingenwin.c:3142:20: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp=NULL; ^ ingenwin.c: In function 'Ing_ReadInFeatureTable': ingenwin.c:3194:20: warning: variable 'sanp' set but not used [-Wunused-but-set-variable] SeqAnnotPtr sanp; ^ ingenwin.c: In function 'Ing_AssembleGenscanInfo': ingenwin.c:3258:17: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp=NULL; ^ ingenwin.c: In function 'Ing_ReadInGenscan': ingenwin.c:3300:33: warning: unused variable 'str' [-Wunused-variable] CharPtr letter=NULL, str=NULL; ^ ingenwin.c:3300:20: warning: unused variable 'letter' [-Wunused-variable] CharPtr letter=NULL, str=NULL; ^ ingenwin.c:3298:33: warning: unused variable 'first_pass' [-Wunused-variable] Boolean found=FALSE, first_pass=FALSE; ^ ingenwin.c: In function 'Ing_AssembleTabDelimited': ingenwin.c:3519:17: warning: variable 'score' set but not used [-Wunused-but-set-variable] Int4 score; ^ ingenwin.c:3516:17: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp=NULL; ^ ingenwin.c: In function 'Ing_ReadInTabDelimited': ingenwin.c:3659:40: warning: variable 'label_str' set but not used [-Wunused-but-set-variable] CharPtr tmp=NULL, str=NULL, label_str=NULL; ^ ingenwin.c:3659:20: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp=NULL, str=NULL, label_str=NULL; ^ ingenwin.c:3653:20: warning: unused variable 'lip_tmp' [-Wunused-variable] IngInfoPtr lip_tmp=NULL; ^ ingenwin.c:3650:20: warning: unused variable 'letter' [-Wunused-variable] CharPtr letter=NULL; ^ ingenwin.c: In function 'Ing_FileOpenSpecial': ingenwin.c:3984:16: warning: unused variable 'Report' [-Wunused-variable] IngReportPtr Report=NULL; ^ ingenwin.c: In function 'Ing_FileOpenMain': ingenwin.c:4078:21: warning: unused variable 'sep_orig' [-Wunused-variable] SeqEntryPtr sep_orig=NULL, sep=NULL; ^ ingenwin.c: In function 'Ing_ResizeMainWindow': ingenwin.c:4187:25: warning: variable 'InfoHeight' set but not used [-Wunused-but-set-variable] Int2 RulerHeight, InfoHeight; ^ ingenwin.c: In function 'Ing_OpenFromFileORNetwork': ingenwin.c:4491:25: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b,b2; ^ ingenwin.c: In function 'Ing_EditFeature': ingenwin.c:4640:22: warning: variable 'igvp' set but not used [-Wunused-but-set-variable] IngGenomeViewerPtr igvp=NULL; ^ ingenwin.c: In function 'Ing_MarkSeqAnnot': ingenwin.c:4713:16: warning: unused variable 'bNoParent' [-Wunused-variable] Boolean bNoParent = FALSE; ^ ingenwin.c: In function 'Ing_CreateMismatchedDialog': ingenwin.c:4924:31: warning: 'main' is usually a function [-Wmain] GrouP g, g1, g2, main; ^ ingenwin.c: In function 'Ing_PropagateClickProc': ingenwin.c:5064:22: warning: unused variable 'primID' [-Wunused-variable] Uint2 primID=0; ^ ingenwin.c:5063:22: warning: unused variable 'itemtype' [-Wunused-variable] Uint2 itemtype=0; ^ ingenwin.c:5062:22: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID=0; ^ ingenwin.c:5061:22: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID=0; ^ ingenwin.c:5060:22: warning: unused variable 'ssp' [-Wunused-variable] SelStructPtr ssp=NULL; ^ ingenwin.c:5059:22: warning: unused variable 'igvp' [-Wunused-variable] IngGenomeViewerPtr igvp=NULL; ^ ingenwin.c: In function 'Ing_PrintCompProteins': ingenwin.c:5146:32: warning: unused variable 'str2' [-Wunused-variable] Char str1[200] = {""}, str2[10] = {""}; ^ ingenwin.c: In function 'Ing_PropagateReport': ingenwin.c:5282:14: warning: variable 'ARROW' set but not used [-Wunused-but-set-variable] Uint1 ARROW=NO_ARROW; ^ ingenwin.c:5279:14: warning: unused variable 'stringwidth' [-Wunused-variable] Int4 stringwidth = 0; ^ ingenwin.c:5277:14: warning: unused variable 'left' [-Wunused-variable] Int4 left = 10; ^ ingenwin.c:5276:14: warning: variable 'prim' set but not used [-Wunused-but-set-variable] PrimitivE prim; ^ ingenwin.c: In function 'Ing_DoPropagate': ingenwin.c:5596:14: warning: unused variable 'strErr' [-Wunused-variable] Char strErr[50]={""}; ^ ingenwin.c: In function 'Ing_GetFromNetwork': ingenwin.c:7518:11: warning: unused variable 'szAppName' [-Wunused-variable] Char szAppName [10]={"Ingenue"}; ^ ingenwin.c: In function 'Ing_SetupMainWindow': ingenwin.c:7761:16: warning: unused variable 'szAppName' [-Wunused-variable] Char szAppName [10]={"Ingenue"}; ^ ingenwin.c:7760:48: warning: unused variable 'str2' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ ingenwin.c:7760:33: warning: unused variable 'str1' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ ingenwin.c:7760:16: warning: unused variable 'title' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/ingenwin.h:60, from ingenwin.c:45: ingenwin.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from ingenwin.c:45: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from ../include/ingenwin.h:62, from ingenwin.c:45: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ ingenwin.c:1869:16: warning: 'Ing_DeSelectPrim' defined but not used [-Wunused-function] static Boolean Ing_DeSelectPrim (SegmenT seg, PrimitivE prim, Uint2 segID, Uint2 primID, Uint2 primCt, VoidPtr userdata) ^ ingenwin.c:1487:23: warning: 'Ing_OldGetAlignmentIntervals' defined but not used [-Wunused-function] static IngIvalInfoPtr Ing_OldGetAlignmentIntervals (SeqAlignPtr sap, Int4 from_row, Int4 to_row, Int4 from, Int4 to, Uint1 strand) ^ ingenwin.c:1610:18: warning: 'Ing_OldMakeLocListFromSAP' defined but not used [-Wunused-function] static SeqLocPtr Ing_OldMakeLocListFromSAP(SeqAlignPtr sap) ^ ingenwin.c:5535:16: warning: 'Ing_KeywordAlreadyInList' defined but not used [-Wunused-function] static Boolean Ing_KeywordAlreadyInList (ValNodePtr head, CharPtr kwd) ^ ingenwin.c:6717:13: warning: 'Ing_BspListProc' defined but not used [-Wunused-function] static void Ing_BspListProc(IteM i) ^ ingenwin.c:7552:13: warning: 'Ing_ItemtoNetwork' defined but not used [-Wunused-function] static void Ing_ItemtoNetwork(IteM i){ ^ ingenwin.c: In function 'Ing_ReplaceMismatchedProc': ingenwin.c:4902:37: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] Ing_ReplaceAllMismatchedInLocation(igvp, rmp->sap, start, stop, GetStatus(rmp->all), GetStatus(rmp->gaps), GetStatus(rmp->inserts)); ^ ingenwin.c:4902:37: warning: 'start' may be used uninitialized in this function [-Wmaybe-uninitialized] ingenwin.c: In function 'Ing_PropagateReport': ingenwin.c:5224:12: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] last_pos = j; ^ ingenwin.c:5137:17: note: 'j' was declared here Int4 i, j, k, row; ^ ingenwin.c: In function 'Ing_FileOpenSpecial': ingenwin.c:3290:28: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized] slp_list=Ing_MakeSlpList(NULL, n/2, ivals, strand, igvp->bsp->id); ^ ingenwin.c:3255:17: note: 'strand' was declared here Uint1 strand; ^ ingenwin.c: In function 'Ing_KozakProc': ingenwin.c:1048:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ ingenwin.c:1049:11: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] Select(ReportW); ^ ingenwin.c: In function 'Ing_SignalPeptideProc': ingenwin.c:1099:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ ingenwin.c:1100:11: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] Select(ReportW); ^ ingenwin.c: In function 'Ing_RepeatsProc': ingenwin.c:997:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ ingenwin.c:998:11: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] Select(ReportW); ^ ingenwin.c: In function 'Ing_PolyAProc': ingenwin.c:946:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ ingenwin.c:947:11: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] Select(ReportW); ^ ingenwin.c: In function 'Ing_CpGProc': ingenwin.c:895:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ ingenwin.c:896:11: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] Select(ReportW); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF macrodlg.c macrodlg.c: In function 'CloseMacroEditorWindowProc': macrodlg.c:99:11: warning: unused variable 'do_remove' [-Wunused-variable] Boolean do_remove = FALSE; ^ macrodlg.c: In function 'ExistingTextDialog': macrodlg.c:1908:22: warning: variable 'ppt' set but not used [-Wunused-but-set-variable] PrompT ppt; ^ macrodlg.c: In function 'SourceQualChoiceDialog': macrodlg.c:3725:48: warning: variable 'b4' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c: In function 'SourceConstraintDialog': macrodlg.c:3963:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:3963:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:3963:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c: In function 'CDSGeneProtQualConstraintDialog': macrodlg.c:4277:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:4277:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:4277:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c: In function 'FeatureFieldTypeFromComplexConstraintType': macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_seqid' not handled in switch [-Wswitch] switch (constraint_type) { ^ macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_string' not handled in switch [-Wswitch] macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_loc' not handled in switch [-Wswitch] macrodlg.c: In function 'TestApplyActionDialog': macrodlg.c:12680:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'TestEditActionDialog': macrodlg.c:12854:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'TestRemoveOutsideActionDialog': macrodlg.c:13012:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'AddMacroActions': macrodlg.c:19633:25: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Boolean rval = FALSE; ^ macrodlg.c: In function 'PointerToSampleDialog': macrodlg.c:19769:19: warning: variable 'max_char_per_line' set but not used [-Wunused-but-set-variable] Int4 max_char_per_line; ^ macrodlg.c: In function 'SampleDialogCopy': macrodlg.c:19889:53: warning: variable 'last_col' set but not used [-Wunused-but-set-variable] Int2 start_col = 0, end_col = 0, first_col, last_col; ^ macrodlg.c:19889:42: warning: variable 'first_col' set but not used [-Wunused-but-set-variable] Int2 start_col = 0, end_col = 0, first_col, last_col; ^ macrodlg.c: In function 'SingleMacroAcceptButton': macrodlg.c:21177:33: warning: variable 'num_features' set but not used [-Wunused-but-set-variable] Int4 num_fields, num_features; ^ macrodlg.c:21177:21: warning: variable 'num_fields' set but not used [-Wunused-but-set-variable] Int4 num_fields, num_features; ^ macrodlg.c: In function 'LaunchMacroTemplateEditor': macrodlg.c:22877:23: warning: variable 'bfp' set but not used [-Wunused-but-set-variable] BaseFormPtr bfp; ^ macrodlg.c: At top level: macrodlg.c:9778:15: warning: 'LocOrStringConstraintDialog' defined but not used [-Wunused-function] static DialoG LocOrStringConstraintDialog (GrouP h, Nlm_ChangeNotifyProc change_notify, Pointer change_userdata) ^ macrodlg.c: In function 'ApplyProductUpdateTableBtn': macrodlg.c:26278:15: warning: 'lip' may be used uninitialized in this function [-Wmaybe-uninitialized] FreeLog (lip); ^ macrodlg.c: In function 'RemoveSequencesActionDialog': macrodlg.c:6490:15: warning: 'p' may be used uninitialized in this function [-Wmaybe-uninitialized] dlg->dialog = (DialoG) p; ^ macrodlg.c: In function 'ActionToSingleMacroActionForm': macrodlg.c:21322:25: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 val, i; ^ macrodlg.c: In function 'BuildEditMacroActionWindow': macrodlg.c:15004:16: warning: 'indexer_only_group' may be used uninitialized in this function [-Wmaybe-uninitialized] AlignObjects (ALIGN_CENTER, (HANDLE) dlg->feature_type_dlg, ^ macrodlg.c:14910:47: note: 'indexer_only_group' was declared here GrouP p, g, parts_group, x, indexer_only_group; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF biosrc.c biosrc.c: In function 'CreateBioSourceDialog': biosrc.c:3506:18: warning: variable 'y' set but not used [-Wunused-but-set-variable] PrompT y; ^ biosrc.c: At top level: biosrc.c:2459:13: warning: 'OrgModPtrToOrgmodDialog' defined but not used [-Wunused-function] static void OrgModPtrToOrgmodDialog (DialoG d, Pointer data) ^ biosrc.c:2508:16: warning: 'OrgmodDialogToOrgModPtr' defined but not used [-Wunused-function] static Pointer OrgmodDialogToOrgModPtr (DialoG d) ^ biosrc.c:2568:13: warning: 'SubSourcePtrToSubsourceDialog' defined but not used [-Wunused-function] static void SubSourcePtrToSubsourceDialog (DialoG d, Pointer data) ^ biosrc.c:2991:16: warning: 'SubsourceDialogToSubSourcePtr' defined but not used [-Wunused-function] static Pointer SubsourceDialogToSubSourcePtr (DialoG d) ^ biosrc.c:3182:26: warning: 'EnumListFromQualNameAssoc' defined but not used [-Wunused-function] static EnumFieldAssocPtr EnumListFromQualNameAssoc (Nlm_QualNameAssocPtr qp) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cdrgn.c cdrgn.c: In function 'ProductToSeqLocPtr': cdrgn.c:1318:19: warning: variable 'rfp' set but not used [-Wunused-but-set-variable] RnaFormPtr rfp = NULL; ^ cdrgn.c: In function 'CreateCodeBreakAlist': cdrgn.c:1951:20: warning: variable 'first' set but not used [-Wunused-but-set-variable] Uint1 first; ^ cdrgn.c: In function 'CodeBreakPtrToCodeBreakDialog': cdrgn.c:2002:19: warning: variable 'aa' set but not used [-Wunused-but-set-variable] Uint1 aa; ^ cdrgn.c: In function 'PopulateAAPopup': cdrgn.c:7044:20: warning: variable 'first' set but not used [-Wunused-but-set-variable] Uint1 first; ^ cdrgn.c: At top level: cdrgn.c:2174:13: warning: 'AccessionToGi' defined but not used [-Wunused-function] static Int4 AccessionToGi (CharPtr string) ^ cdrgn.c:6253:14: warning: 'check_rna_type' defined but not used [-Wunused-function] static Uint1 check_rna_type (Uint1 type) ^ cdrgn.c:6330:15: warning: 'CreateMrnaUserObjectDialog' defined but not used [-Wunused-function] static DialoG CreateMrnaUserObjectDialog (GrouP h, CharPtr label, SeqEntryPtr sep, BaseFormPtr bfp) ^ cdrgn.c:6773:18: warning: 'FindOrAddQual' defined but not used [-Wunused-function] static GBQualPtr FindOrAddQual (SeqFeatPtr sfp, CharPtr qual_name) ^ cdrgn.c:6792:13: warning: 'RemoveQualByName' defined but not used [-Wunused-function] static void RemoveQualByName (SeqFeatPtr sfp, CharPtr qual_name) ^ cdrgn.c:6854:13: warning: 'ConvertRnaRefNameToProductQual' defined but not used [-Wunused-function] static void ConvertRnaRefNameToProductQual (SeqFeatPtr sfp) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF import.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pubdesc.c pubdesc.c: In function 'SetPubdescImportExportItems': pubdesc.c:2859:37: warning: comparison between pointer and integer [enabled by default] &&& pfp->currentPage == 1) { ^ pubdesc.c: In function 'MakeReplaceAuthorsForm': pubdesc.c:4289:24: warning: variable 'pepp' set but not used [-Wunused-but-set-variable] PubdescEditProcsPtr pepp; ^ pubdesc.c: In function 'DisplayDocSum': pubdesc.c:4851:9: warning: variable 'lineheight' set but not used [-Wunused-but-set-variable] Int2 lineheight; ^ pubdesc.c: At top level: pubdesc.c:5363:13: warning: 'Quit' defined but not used [-Wunused-function] static void Quit (ButtoN b) ^ pubdesc.c:5099:14: warning: 'AddAll' defined but not used [-Wunused-function] static void AddAll(Entrez2RequestPtr e2rp, CharPtr term, Boolean is_1st) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqsub.c seqsub.c: In function 'SeqSubmitFromTemplateEditor': seqsub.c:3250:20: warning: variable 'omdp' set but not used [-Wunused-but-set-variable] ObjMgrDataPtr omdp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mapgene.c mapgene.c: In function 'load_new_align': mapgene.c:79:17: warning: variable 'match_slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp, match_slp, t_slp; ^ mapgene.c: In function 'figure_loc_by_position': mapgene.c:1039:20: warning: variable 'center' set but not used [-Wunused-but-set-variable] Int4 start, stop, center; ^ mapgene.c: In function 'cvt_loc_for_single_gene': mapgene.c:1958:29: warning: variable 'p_align_offset' set but not used [-Wunused-but-set-variable] Int4 offset, align_offset, p_align_offset; ^ mapgene.c:1957:7: warning: unused variable 'shift' [-Wunused-variable] Int4 shift = 0; ^ mapgene.c: In function 'print_header_for_center': mapgene.c:2693:10: warning: variable 'link' set but not used [-Wunused-but-set-variable] CharPtr link; ^ mapgene.c: In function 'PrintGeneticMarkerForOneMap': mapgene.c:3635:10: warning: variable 'link' set but not used [-Wunused-but-set-variable] CharPtr link; ^ mapgene.c: At top level: mapgene.c:27:13: warning: 'print_this_id' defined but not used [-Wunused-function] static void print_this_id (SeqIdPtr sip) ^ mapgene.c:200:13: warning: 'get_center_pointer' defined but not used [-Wunused-function] static Int4 get_center_pointer(SeqLocPtr slp) ^ mapgene.c:1280:13: warning: 'change_anchor_to_front' defined but not used [-Wunused-function] static void change_anchor_to_front(ValNodePtr msp_list, SeqIdPtr anchor_id) ^ mapgene.c:1748:16: warning: 'merge_slp_list' defined but not used [-Wunused-function] static Boolean merge_slp_list(ValNodePtr PNTR gene_slp_list, ValNodePtr slp_list) ^ mapgene.c:1788:13: warning: 'adjust_slp_list' defined but not used [-Wunused-function] static void adjust_slp_list(ValNodePtr slp_list) ^ mapgene.c:3207:16: warning: 'convert_center_name_to_gifname' defined but not used [-Wunused-function] static Boolean convert_center_name_to_gifname (CharPtr center_name, CharPtr gif_name) ^ mapgene.c: In function 'PrintContigForOneMap': mapgene.c:3126:2: warning: 'yac_num' may be used uninitialized in this function [-Wmaybe-uninitialized] for(i = 0; isip); ^ ddvclick.c:1085:18: note: 'bsp_coord_start' was declared here Int4 bsp_coord_start, bsp_coord_stop, ParaGLine_Num, col; ^ ddvclick.c:1127:22: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] slp = SeqLocIntNew (bsp_coord_start, bsp_coord_stop, direction, pgp->sip); ^ ddvclick.c:1091:18: note: 'pgp' was declared here ParaGPtr pgp; ^ ddvclick.c:1127:7: warning: 'bsp_coord_stop' may be used uninitialized in this function [-Wmaybe-uninitialized] slp = SeqLocIntNew (bsp_coord_start, bsp_coord_stop, direction, pgp->sip); ^ ddvclick.c:1085:35: note: 'bsp_coord_stop' was declared here Int4 bsp_coord_start, bsp_coord_stop, ParaGLine_Num, col; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ddvgraph.c ddvgraph.c: In function 'DDV_DrawSequence': ddvgraph.c:701:31: warning: unused variable 'pos' [-Wunused-variable] Int2 decal=1,i,x,y,pos=0; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ddvgraph.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ddvopen.c ddvopen.c: In function 'DDV_GetAndCheckSeqAlign': ddvopen.c:1739:8: warning: variable 'nRet' set but not used [-Wunused-but-set-variable] Uint2 nRet=DVV_MSG_M_OK; ^ ddvopen.c: In function 'DDV_FOpenAcceptProc': ddvopen.c:1932:11: warning: variable 'nRet' set but not used [-Wunused-but-set-variable] Uint2 nRet=DVV_MSG_M_OK,The_entityID; ^ ddvopen.c: In function 'DDV_NetOpen_okProc': ddvopen.c:2141:8: warning: variable 'AccessType' set but not used [-Wunused-but-set-variable] Int2 AccessType,procval; ^ ddvopen.c: In function 'DDV_ImportBioseqDlg': ddvopen.c:2819:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ ddvopen.c: In function 'DDV_HideDlg': ddvopen.c:3135:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/sqnutils.h:51:0, from ../include/udviewer.h:219, from ddvopen.c:376: ddvopen.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/udviewer.h:228, from ddvopen.c:376: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ ddvopen.c:1272:13: warning: 'DDV_Convert' defined but not used [-Wunused-function] static void DDV_Convert(ButtoN g) { ^ ddvopen.c:1285:13: warning: 'DDV_NoConvert' defined but not used [-Wunused-function] static void DDV_NoConvert(ButtoN g) { ^ ddvopen.c:2111:16: warning: 'DDV_IsInt' defined but not used [-Wunused-function] static Boolean DDV_IsInt(CharPtr szAccess) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ddvpanel.c ddvpanel.c: In function 'DDV_CreateViewerPanel': ddvpanel.c:1177:8: warning: variable 'cxChar' set but not used [-Wunused-but-set-variable] Int2 cxChar,cyChar; ^ ddvpanel.c: In function 'DDV_DispStyles_OkProc': ddvpanel.c:1543:21: warning: unused variable 'szBuf' [-Wunused-variable] Char szBuf[15]={""}; ^ ddvpanel.c: In function 'DDV_ExportTexte': ddvpanel.c:2799:40: warning: variable 'browse' set but not used [-Wunused-but-set-variable] ButtoN chk2,chk3,chk4,chk5,chk6,browse,ok; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ddvpanel.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ ddvpanel.c:3024:13: warning: 'DDV_DeleteRow' defined but not used [-Wunused-function] static void DDV_DeleteRow(IteM i) ^ ddvpanel.c:3266:13: warning: 'DDV_MoveRowLeft' defined but not used [-Wunused-function] static void DDV_MoveRowLeft(IteM i) ^ ddvpanel.c:3272:13: warning: 'DDV_MoveRowRight' defined but not used [-Wunused-function] static void DDV_MoveRowRight(IteM i) ^ ddvpanel.c:3278:13: warning: 'DDV_MoveLeftBoundaryLeft' defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryLeft(IteM i) ^ ddvpanel.c:3284:13: warning: 'DDV_MoveLeftBoundaryRight' defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryRight(IteM i) ^ ddvpanel.c:3290:13: warning: 'DDV_MoveRightBoundaryLeft' defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryLeft(IteM i) ^ ddvpanel.c:3296:13: warning: 'DDV_MoveRightBoundaryRight' defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryRight(IteM i) ^ ddvpanel.c:3377:13: warning: 'write_annot' defined but not used [-Wunused-function] static void write_annot(SeqAlignPtr align) ^ ddvpanel.c: In function 'DDVExportTexteOkProc': ddvpanel.c:2647:27: warning: 'bPrintGap' may be used uninitialized in this function [-Wmaybe-uninitialized] DDV_DumpSAPInFastaFile(&(dmp->MSA_d.pgp_l),&dob, hFile,bPrintGap); ^ ddvpanel.c: In function 'DDV_SortPGPLineNum': ddvpanel.c:2441:9: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] n+=pgp->nLines; ^ rm -f libddvlib.a ar cru libddvlib.a ddvclick.o ddvgraph.o ddvopen.o ddvpanel.o cp -p libddvlib.a ../lib ranlib ../lib/libddvlib.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF corematx.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF dvncode.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmmdb1.c objmmdb1.c: In function 'BiostrucAsnRead': objmmdb1.c:90:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucIdFree': objmmdb1.c:323:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucIdAsnRead': objmmdb1.c:358:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucSetAsnRead': objmmdb1.c:547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucAnnotSetAsnRead': objmmdb1.c:716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucResidueGraphSetAsnRead': objmmdb1.c:885:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucDescrFree': objmmdb1.c:1015:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucDescrAsnRead': objmmdb1.c:1059:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucHistoryAsnRead': objmmdb1.c:1270:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:1269:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucReplaceAsnRead': objmmdb1.c:1450:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:1449:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'VersionOfDatabase_version_of_databaseFree': objmmdb1.c:1618:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucSourceAsnRead': objmmdb1.c:1652:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'VersionOfDatabase_version_of_databaseAsnRead': objmmdb1.c:1753:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucGraphAsnRead': objmmdb1.c:2000:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiomolDescrFree': objmmdb1.c:2138:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiomolDescrAsnRead': objmmdb1.c:2188:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueGraphAsnRead': objmmdb1.c:2445:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'MoleculeGraphAsnRead': objmmdb1.c:2652:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'InterResidueBondAsnRead': objmmdb1.c:2853:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:2852:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueAsnRead': objmmdb1.c:3033:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3032:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueGraphPntrFree': objmmdb1.c:3172:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'ResidueGraphPntrAsnRead': objmmdb1.c:3207:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucGraphPntrAsnRead': objmmdb1.c:3394:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3393:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucResidueGraphSetPntrAsnRead': objmmdb1.c:3559:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3558:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomAsnRead': objmmdb1.c:3725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'IntraResidueBondAsnRead': objmmdb1.c:3916:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3915:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ChiralCenterAsnRead': objmmdb1.c:4088:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:4087:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomPntrAsnRead': objmmdb1.c:4276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:4275:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomPntrSetAsnRead': objmmdb1.c:4430:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:73:0, from objmmdb1.c:5: objmmdb1.c: At top level: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objmmdb1.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb1.c: In function 'BiostrucDescrAsnRead': objmmdb1.c:1126:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb1.c: In function 'BiomolDescrAsnRead': objmmdb1.c:2283:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmmdb2.c objmmdb2.c: In function 'BiostrucModelAsnRead': objmmdb2.c:88:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ModelDescrFree': objmmdb2.c:241:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'ModelDescrAsnRead': objmmdb2.c:288:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'ModelSpaceAsnRead': objmmdb2.c:511:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:510:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'Coordinates_coordinatesFree': objmmdb2.c:707:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'ModelCoordinateSetAsnRead': objmmdb2.c:741:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'Coordinates_coordinatesAsnRead': objmmdb2.c:829:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'ReferenceFrameAsnRead': objmmdb2.c:1060:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:1059:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'CoordinatesFree': objmmdb2.c:1190:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'CoordinatesAsnRead': objmmdb2.c:1228:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'AtomicCoordinatesAsnRead': objmmdb2.c:1417:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'Surface_surfaceFree': objmmdb2.c:1636:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'SurfaceCoordinatesAsnRead': objmmdb2.c:1682:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:1681:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'Surface_surfaceAsnRead': objmmdb2.c:1762:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'DensityCoordinatesAsnRead': objmmdb2.c:2026:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ModelSpacePointsAsnRead': objmmdb2.c:2258:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsFree': objmmdb2.c:2398:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsAsnRead': objmmdb2.c:2433:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'AtomicOccupanciesAsnRead': objmmdb2.c:2609:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AlternateConformationIdsAsnRead': objmmdb2.c:2753:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ConformationEnsembleAsnRead': objmmdb2.c:2883:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'IsotropicTemperatureFactorsAsnRead': objmmdb2.c:3046:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AnisotropicTemperatureFactorsAsnRead': objmmdb2.c:3212:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'TMeshAsnRead': objmmdb2.c:3416:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'TrianglesAsnRead': objmmdb2.c:3615:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objmmdb2.c:5: objmmdb2.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objmmdb2.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objmmdb2.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb2.c: In function 'ModelDescrAsnRead': objmmdb2.c:365:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'CoordinatesAsnRead': objmmdb2.c:1278:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsAsnRead': objmmdb2.c:2479:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'ModelCoordinateSetAsnRead': objmmdb2.c:875:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c:828:10: note: 'choice' was declared here Uint1 choice; ^ objmmdb2.c: In function 'SurfaceCoordinatesAsnRead': objmmdb2.c:1824:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c:1761:10: note: 'choice' was declared here Uint1 choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmmdb3.c objmmdb3.c: In function 'BiostrucFeatureSetAsnRead': objmmdb3.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphPntrsFree': objmmdb3.c:219:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'AtomPntrsAsnRead': objmmdb3.c:442:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphAlignmentAsnRead': objmmdb3.c:624:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphInteractionAsnRead': objmmdb3.c:821:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'SphereAsnRead': objmmdb3.c:1020:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ConeAsnRead': objmmdb3.c:1188:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'CylinderAsnRead': objmmdb3.c:1368:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BrickAsnRead': objmmdb3.c:1553:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'TransformAsnRead': objmmdb3.c:1792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucFeatureSetDescrFree': objmmdb3.c:1916:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'Location_locationFree': objmmdb3.c:2156:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'BiostrucFeatureAsnRead': objmmdb3.c:2201:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'Property_propertyFree': objmmdb3.c:2716:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'ColorPropAsnRead': objmmdb3.c:2792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'CameraAsnRead': objmmdb3.c:2979:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucScriptAsnRead': objmmdb3.c:3163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionPntrsAsnRead': objmmdb3.c:3322:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionSimilarityAsnRead': objmmdb3.c:3639:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'OtherFeatureAsnRead': objmmdb3.c:3815:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucMoleculePntrAsnRead': objmmdb3.c:3988:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'MoleculePntrsAsnRead': objmmdb3.c:4330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ResidueExplicitPntrsAsnRead': objmmdb3.c:4492:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ResidueIntervalPntrAsnRead': objmmdb3.c:4659:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionCoordinatesAsnRead': objmmdb3.c:4830:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionBoundaryFree': objmmdb3.c:4965:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'AlignStatsAsnRead': objmmdb3.c:5196:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RealValueAsnRead': objmmdb3.c:5437:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ModelSpacePointAsnRead': objmmdb3.c:5597:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'MoveFree': objmmdb3.c:5740:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'RotMatrixAsnRead': objmmdb3.c:5948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'TransMatrixAsnRead': objmmdb3.c:6180:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'GLMatrixAsnRead': objmmdb3.c:6358:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucScriptStepAsnRead': objmmdb3.c:6658:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objmmdb3.c:5: objmmdb3.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objmmdb3.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from objmmdb3.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb3.c: In function 'ChemGraphPntrsAsnRead': objmmdb3.c:306:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'BiostrucFeatureSetDescrAsnRead': objmmdb3.c:2019:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'RegionBoundaryAsnRead': objmmdb3.c:5059:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'MoveAsnRead': objmmdb3.c:5820:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'RegionPntrsAsnRead': objmmdb3.c:3456:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c:3401:10: note: 'choice' was declared here Uint1 choice; ^ objmmdb3.c: In function 'BiostrucFeatureAsnRead': objmmdb3.c:2365:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c:2303:10: note: 'choice' was declared here Uint1 choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objcn3d.c objcn3d.c: In function 'Cn3dStyleDictionaryAsnRead': objcn3d.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dUserAnnotationsAsnRead': objcn3d.c:251:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dColorAsnRead': objcn3d.c:415:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:414:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dBackboneStyleAsnRead': objcn3d.c:604:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:603:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dGeneralStyleAsnRead': objcn3d.c:787:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:786:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dBackboneLabelStyleAsnRead': objcn3d.c:969:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:968:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dStyleSettingsAsnRead': objcn3d.c:1171:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1170:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dStyleSettingsSetAsnRead': objcn3d.c:1573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dStyleTableItemAsnRead': objcn3d.c:1702:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1701:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dResidueRangeAsnRead': objcn3d.c:1866:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1865:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dMoleculeLocationAsnRead': objcn3d.c:2028:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dObjectLocationAsnRead': objcn3d.c:2190:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dUserAnnotationAsnRead': objcn3d.c:2355:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dGLMatrixAsnRead': objcn3d.c:2546:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:2545:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dVectorAsnRead': objcn3d.c:2833:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:2832:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dViewSettingsAsnRead': objcn3d.c:3005:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:3004:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from ../include/mapcn3d.h:8:0, from objcn3d.c:5: objcn3d.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/mapcn3d.h:8:0, from objcn3d.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mmdbapi.c mmdbapi.c: In function 'MakeAModelstruc': mmdbapi.c:192:11: warning: unused variable 'iCount' [-Wunused-variable] Int4 iCount = 0; ^ mmdbapi.c:189:11: warning: unused variable 'pdnmsCount' [-Wunused-variable] PDNMS pdnmsCount = NULL; ^ mmdbapi.c: In function 'AddPFBSelect': mmdbapi.c:532:11: warning: unused variable 'pmsdStruc' [-Wunused-variable] PMSD pmsdStruc = NULL; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mmdbapi1.c mmdbapi1.c: In function 'FreeAtomicModelAsnLists': mmdbapi1.c:1037:21: warning: unused variable 'pcoThis' [-Wunused-variable] CoordinatesPtr pcoThis = NULL; ^ mmdbapi1.c: In function 'FetchBS': mmdbapi1.c:1242:13: warning: unused variable 'bIsNetwork' [-Wunused-variable] Boolean bIsNetwork = FALSE; ^ mmdbapi1.c: In function 'FreeSurfaceModelAsnList': mmdbapi1.c:1627:16: warning: variable 'pvnX' set but not used [-Wunused-but-set-variable] ValNodePtr pvnX = NULL; ^ mmdbapi1.c: In function 'MakeChemGraphNodeList': mmdbapi1.c:2343:16: warning: variable 'pvnThis' set but not used [-Wunused-but-set-variable] ValNodePtr pvnThis = NULL; ^ mmdbapi1.c: In function 'DoApplyTransform': mmdbapi1.c:2573:8: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'DoReverseTransform': mmdbapi1.c:2713:8: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'InstBSAnnotSet': mmdbapi1.c:2860:8: warning: unused variable 'psfsThis' [-Wunused-variable] PSFS psfsThis = NULL; ^ mmdbapi1.c:2859:22: warning: unused variable 'pbsfThis' [-Wunused-variable] BiostrucFeaturePtr pbsfThis = NULL; ^ mmdbapi1.c:2855:9: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'BiosToSeq': mmdbapi1.c:2978:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c:2967:22: warning: unused variable 'pbsf' [-Wunused-variable] BiostrucFeaturePtr pbsf=NULL; ^ mmdbapi1.c: In function 'fnPBSFtoPSA': mmdbapi1.c:3174:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c: In function 'BiostrToSeqAnnotSet': mmdbapi1.c:3408:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c:3397:22: warning: unused variable 'pbsf' [-Wunused-variable] BiostrucFeaturePtr pbsf=NULL; ^ mmdbapi1.c: In function 'InstallAlignedSlave': mmdbapi1.c:3877:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi1.c:3874:9: warning: unused variable 'psfsThis' [-Wunused-variable] PSFS psfsThis = NULL; ^ mmdbapi1.c: In function 'BiostrucAddFeature': mmdbapi1.c:4184:11: warning: variable 'ncbiVast' set but not used [-Wunused-but-set-variable] Boolean ncbiVast = FALSE; ^ mmdbapi1.c:4182:11: warning: variable 'pdbFootnote' set but not used [-Wunused-but-set-variable] Boolean pdbFootnote = FALSE; ^ mmdbapi1.c:4181:11: warning: variable 'pdbSite' set but not used [-Wunused-but-set-variable] Boolean pdbSite = FALSE; ^ mmdbapi1.c:4172:15: warning: unused variable 'pdvnThis' [-Wunused-variable] DValNodePtr pdvnThis = NULL; ^ mmdbapi1.c: In function 'BiostrucAsnGet': mmdbapi1.c:5289:18: warning: variable 'aop' set but not used [-Wunused-but-set-variable] AsnOptionPtr aop; ^ mmdbapi1.c: In function 'BiosToSeq': mmdbapi1.c:3127:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ mmdbapi1.c: In function 'BiostrToSeqAnnotSet': mmdbapi1.c:3559:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ mmdbapi1.c: In function 'InstBSAnnotSet': mmdbapi1.c:2885:13: warning: 'iMMDBId' may be used uninitialized in this function [-Wmaybe-uninitialized] pdnmsThis = FindLoadedBiostruc(NULL, iMMDBId); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mmdbapi2.c mmdbapi2.c: In function 'GetAtomLocs': mmdbapi2.c:1471:9: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (pmadThis) ^ mmdbapi2.c: In function 'AssignAtomLocId': mmdbapi2.c:1537:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignBackBone': mmdbapi2.c:1686:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignVirtual': mmdbapi2.c:1790:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignIons': mmdbapi2.c:1846:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'MolFromPDBChain': mmdbapi2.c:1931:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi2.c: In function 'SeqStringFromMol': mmdbapi2.c:1948:9: warning: unused variable 'iTest' [-Wunused-variable] Int4 iTest =0; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mmdbapi3.c mmdbapi3.c: In function 'WritePDBHeader': mmdbapi3.c:840:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(org) ^ mmdbapi3.c: In function 'WritePDBRemarks': mmdbapi3.c:1389:8: warning: unused variable 'len' [-Wunused-variable] int len; ^ mmdbapi3.c:1388:9: warning: unused variable 'pcThis' [-Wunused-variable] Char pcThis[81]; ^ mmdbapi3.c:1387:21: warning: unused variable 'pbsdrLast' [-Wunused-variable] BiostrucDescrPtr pbsdrLast = NULL; ^ mmdbapi3.c:1386:21: warning: unused variable 'pbsdrThis' [-Wunused-variable] BiostrucDescrPtr pbsdrThis = NULL; ^ mmdbapi3.c: In function 'WritePDBConnect': mmdbapi3.c:1610:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi3.c: In function 'WritePDBModelList': mmdbapi3.c:1625:10: warning: variable 'iCount' set but not used [-Wunused-but-set-variable] Int4 iCount; ^ mmdbapi3.c: In function 'WriteKinAtom': mmdbapi3.c:2287:11: warning: unused variable 'pcElName' [-Wunused-variable] CharPtr pcElName = NULL; ^ mmdbapi3.c: In function 'WriteFASTAMolecule': mmdbapi3.c:3537:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int4 iTest =0; ^ mmdbapi3.c: In function 'WriteKinAtom': mmdbapi3.c:2314:12: warning: 'iTemp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (iTemp < TempsKine[(iIndex-1)]) return; /* too low */ ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mmdbapi4.c mmdbapi4.c: In function 'RefreshSurface': mmdbapi4.c:147:10: warning: unused variable 'iVal' [-Wunused-variable] Int4 iVal = 0; ^ mmdbapi4.c: In function 'FreeCoordinatesAsnLists': mmdbapi4.c:335:28: warning: variable 'pdcThis' set but not used [-Wunused-but-set-variable] DensityCoordinatesPtr pdcThis = NULL; ^ mmdbapi4.c: In function 'FreeRedundantAsn': mmdbapi4.c:371:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ mmdbapi4.c:370:11: warning: unused variable 'pdnmmThis' [-Wunused-variable] PDNMM pdnmmThis = NULL; ^ mmdbapi4.c:367:22: warning: unused variable 'pbsmThis' [-Wunused-variable] BiostrucModelPtr pbsmThis = NULL; ^ mmdbapi4.c: In function 'RefreshModelAsnMem': mmdbapi4.c:474:13: warning: unused variable 'iCoordSets' [-Wunused-variable] Int4 iCoordSets = 0; ^ mmdbapi4.c:465:20: warning: unused variable 'pappThis' [-Wunused-variable] AtomPntrsPtr pappThis = NULL; ^ mmdbapi4.c:464:27: warning: unused variable 'pmspThis' [-Wunused-variable] ModelSpacePointsPtr pmspThis = NULL; ^ mmdbapi4.c:463:28: warning: unused variable 'pocThis' [-Wunused-variable] AtomicOccupanciesPtr pocThis = NULL; ^ mmdbapi4.c:458:34: warning: unused variable 'paciThis' [-Wunused-variable] AlternateConformationIdsPtr paciThis = NULL; ^ mmdbapi4.c: In function 'RebuildChemGraphAsn': mmdbapi4.c:931:15: warning: unused variable 'bOK' [-Wunused-variable] Boolean bOK = TRUE; ^ mmdbapi4.c: In function 'WriteASNChemGraphOnly': mmdbapi4.c:1192:10: warning: unused variable 'iHash' [-Wunused-variable] Int4 iHash = 0; ^ mmdbapi4.c: In function 'FreeSingleModel': mmdbapi4.c:1336:11: warning: unused variable 'pdnml' [-Wunused-variable] PDNML pdnml = NULL; ^ mmdbapi4.c:1332:22: warning: unused variable 'pbsmTemp' [-Wunused-variable] BiostrucModelPtr pbsmTemp = NULL; ^ mmdbapi4.c: In function 'WriteAsnModelList': mmdbapi4.c:1505:14: warning: unused variable 'paioAIP' [-Wunused-variable] AsnIoPtr paioAIP = NULL; ^ mmdbapi4.c:1502:11: warning: unused variable 'pmldThis' [-Wunused-variable] PMLD pmldThis = NULL; ^ mmdbapi4.c:1498:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ mmdbapi4.c:1496:22: warning: unused variable 'pbsmThis' [-Wunused-variable] BiostrucModelPtr pbsmThis = NULL; ^ mmdbapi4.c:1495:17: warning: unused variable 'pBSThis' [-Wunused-variable] BiostrucPtr pBSThis = NULL; ^ mmdbapi4.c:1494:13: warning: unused variable 'bFirst' [-Wunused-variable] Boolean bFirst = TRUE; ^ mmdbapi4.c:1493:10: warning: unused variable 'iTest' [-Wunused-variable] Int2 iTest = 0; ^ mmdbapi4.c: In function 'BiostrucAnnotSetToSeqAnnot': mmdbapi4.c:1741:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi4.c: In function 'WriteAsnModelList': mmdbapi4.c:1503:13: warning: 'bRet' may be used uninitialized in this function [-Wmaybe-uninitialized] Boolean bRet; ^ mmdbapi4.c: In function 'BiostrucAnnotSetToSeqAnnot': mmdbapi4.c:1872:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mmdbentr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vastsubs.c vastsubs.c: In function 'LoadSubsetTable': vastsubs.c:212:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &ndoms); ^ vastsubs.c:239:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &nsubs); ^ vastsubs.c:258:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &j); ^ vastsubs.c:287:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%8c", domid); ^ vastsubs.c:296:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &n); ^ vastsubs.c:302:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d %d %d", &subset[j], &grps[j], &ranks[j]); ^ vastsubs.c:304:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "\n"); ^ vastsubs.c:202:16: warning: 'len' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, j, n, len, strindex, ndoms, nsubs; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF prunebsc.c prunebsc.c: In function 'PruneFeatureSet': prunebsc.c:220:22: warning: variable 'bsfpDie' set but not used [-Wunused-but-set-variable] BiostrucFeaturePtr bsfpDie, bsfp, bsfpnew = NULL; ^ prunebsc.c: In function 'PruneModel': prunebsc.c:272:30: warning: variable 'mcsDie' set but not used [-Wunused-but-set-variable] ModelCoordinateSetPtr mcs, mcsDie, mcsnew = NULL; ^ prunebsc.c: In function 'PruneBiostruc': prunebsc.c:559:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(currentbp->descr, NULL, BiomolDescr_name)) ^ prunebsc.c:574:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(het->descr, NULL, BiomolDescr_name)) ^ prunebsc.c:663:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(bsfsp->descr, NULL, BiostrucFeatureSetDescr_name)) ^ prunebsc.c:666:21: warning: 'feature_name' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((!StringICmp("NCBI assigned secondary structure", feature_name)) || ^ prunebsc.c:649:23: warning: 'pirbnew' may be used uninitialized in this function [-Wmaybe-uninitialized] pirbnew->next = pirb; ^ prunebsc.c:591:26: warning: 'currenthet' may be used uninitialized in this function [-Wmaybe-uninitialized] currenthet->next = het; ^ prunebsc.c:701:34: warning: 'mol_id' may be used uninitialized in this function [-Wmaybe-uninitialized] bsmpTail->next = PruneModel(bsmp, pvnIds, mol_id); ^ prunebsc.c:562:16: warning: 'chnid' may be used uninitialized in this function [-Wmaybe-uninitialized] if (*chnid == *chain) ^ prunebsc.c:182:7: warning: 'mtype' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(mtype) ^ prunebsc.c:173:8: note: 'mtype' was declared here Int4 mtype, molecule_id; ^ prunebsc.c:204:25: warning: 'currenthet' may be used uninitialized in this function [-Wmaybe-uninitialized] currenthet->next = newhet; ^ prunebsc.c:171:47: note: 'currenthet' was declared here MoleculeGraphPtr newhet = NULL, het = NULL, currenthet; ^ prunebsc.c:110:7: warning: 'mtype' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(mtype) ^ prunebsc.c:102:8: note: 'mtype' was declared here Int4 mtype; ^ prunebsc.c:127:25: warning: 'currentbp' may be used uninitialized in this function [-Wmaybe-uninitialized] currentbp->next = newbp; ^ prunebsc.c:100:38: note: 'currentbp' was declared here MoleculeGraphPtr newbp, bp = NULL, currentbp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objcdd.c objcdd.c: In function 'CddIdFree': objcdd.c:53:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'CddIdAsnRead': objcdd.c:85:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddIdSetAsnRead': objcdd.c:248:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:245:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddIdSetAsnWrite': objcdd.c:301:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddAsnRead': objcdd.c:401:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddSetAsnRead': objcdd.c:796:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:793:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddSetAsnWrite': objcdd.c:849:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddTreeAsnRead': objcdd.c:932:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:931:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddTreeSetAsnRead': objcdd.c:1143:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1140:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddTreeSetAsnWrite': objcdd.c:1196:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodesAsnRead': objcdd.c:1276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1275:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddPrefNodesAsnWrite': objcdd.c:1365:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddProjectAsnRead': objcdd.c:1472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddOrgRefAsnRead': objcdd.c:1661:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1660:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddOrgRefSetAsnRead': objcdd.c:1830:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1827:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddOrgRefSetAsnWrite': objcdd.c:1883:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodeDescrFree': objcdd.c:1923:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'CddPrefNodeDescrAsnRead': objcdd.c:1958:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddPrefNodeDescrSetAsnRead': objcdd.c:2121:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2118:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodeDescrSetAsnWrite': objcdd.c:2174:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'GlobalIdAsnRead': objcdd.c:2253:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2252:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddRepeatAsnRead': objcdd.c:2439:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2438:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddBookRefAsnRead': objcdd.c:2615:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2614:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddDescrSetAsnRead': objcdd.c:3170:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:3167:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddDescrSetAsnWrite': objcdd.c:3223:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'MatrixAsnRead': objcdd.c:3301:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'TriangleAsnRead': objcdd.c:3489:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'UpdateCommentFree': objcdd.c:3625:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'UpdateCommentAsnRead': objcdd.c:3669:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'UpdateAlignAsnRead': objcdd.c:3873:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'RejectIdAsnRead': objcdd.c:4047:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'RejectIdAsnWrite': objcdd.c:4122:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'FeatureEvidenceFree': objcdd.c:4170:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'FeatureEvidenceAsnRead': objcdd.c:4214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'AlignAnnotAsnRead': objcdd.c:4419:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'AlignAnnotSetAsnRead': objcdd.c:4587:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4584:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'AlignAnnotSetAsnWrite': objcdd.c:4640:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'DomainParentAsnRead': objcdd.c:4718:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4717:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'SequenceTreeAsnRead': objcdd.c:4898:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4897:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'AlgorithmTypeAsnRead': objcdd.c:5085:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5084:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'SeqTreeNodeAsnRead': objcdd.c:5387:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5386:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'Children_footprintAsnRead': objcdd.c:5572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'NodeAnnotationAsnRead': objcdd.c:5862:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5861:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddViewerRectAsnRead': objcdd.c:6027:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:6026:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddViewerAsnRead': objcdd.c:6208:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddScriptAsnRead': objcdd.c:6382:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:6381:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from objcdd.c:6:0: objcdd.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from objcdd.c:6:0: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from objcdd.c:7:0: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objcdd.c: In function 'CddDescrAsnRead': objcdd.c:2994:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cddutil.c cddutil.c: In function 'CddGetPmIds': cddutil.c:649:17: warning: unused variable 'bRefOpen' [-Wunused-variable] Boolean bRefOpen = FALSE; ^ cddutil.c: In function 'CddGetAnnotNames': cddutil.c:807:19: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, vnpHead = NULL; ^ cddutil.c: In function 'CddCheckForRepeats': cddutil.c:1034:7: warning: the address of 'CddHasConsensus' will always evaluate as 'true' [-Waddress] if (!CddHasConsensus) return FALSE; ^ cddutil.c:1013:23: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddMSLDenDiagToMSLDenSeg': cddutil.c:1663:30: warning: variable 'lasts' set but not used [-Wunused-but-set-variable] Int4 lastm, lasts; ^ cddutil.c:1663:23: warning: variable 'lastm' set but not used [-Wunused-but-set-variable] Int4 lastm, lasts; ^ cddutil.c: In function 'SeqAlignInform': cddutil.c:1938:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddAlignInform': cddutil.c:2125:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddPssmInform': cddutil.c:2248:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddPosFreqInform': cddutil.c:2306:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddDenDiagCposComputation': cddutil.c:2368:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c:2365:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddCposComputation': cddutil.c:2571:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c:2568:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddRetrieveBioseqById': cddutil.c:3379:15: warning: unused variable 'retcode' [-Wunused-variable] Int2 retcode = 1; ^ cddutil.c:3377:15: warning: unused variable 'uid' [-Wunused-variable] Int4 uid = 0; ^ cddutil.c: In function 'CddConsensus': cddutil.c:3853:49: warning: variable 'm_end' set but not used [-Wunused-but-set-variable] Int4 m_last, m_frst, s_insert, m_end; ^ cddutil.c: In function 'CddCposCompPart1': cddutil.c:4247:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddGetNewIndexForThreading': cddutil.c:4392:14: warning: unused variable 'Index' [-Wunused-variable] Int4 i, Index=0; ^ cddutil.c: In function 'CddCposComp': cddutil.c:4474:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c: In function 'CddDenDiagCposComp2KBP': cddutil.c:4745:59: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr ColumnHead, LetterHead, newRow, RowHead, newLetter; ^ cddutil.c: In function 'CddDumpTaxLinks': cddutil.c:5727:16: warning: unused variable 'txid' [-Wunused-variable] Int4 txid = 0, gi = 0; ^ cddutil.c: At top level: cddutil.c:6267:1: warning: "/*" within comment [-Wcomment] /*---------------------------------------------------------------------------*/ ^ In file included from cddutil.c:349:0: ../include/cdd.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "cdd.h24"; ^ ../include/cdd.h:341:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/cdd.h:342:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/cdd.h:343:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/cddutil.h:205:0, from cddutil.c:353: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ cddutil.c:4661:16: warning: 'CddtakeMatrixCheckpoint' defined but not used [-Wunused-function] static Boolean CddtakeMatrixCheckpoint(compactSearchItems *compactSearch, ^ In file included from cddutil.c:353:0: ../include/cddutil.h:589:25: warning: 'CddFindSeqIdInSeqLoc' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInSeqLoc(SeqLocPtr location); ^ cddutil.c: In function 'CddBioseqCopy': cddutil.c:1362:21: warning: 'head' may be used uninitialized in this function [-Wmaybe-uninitialized] newbsp->seq_ext = (Pointer)head; ^ cddutil.c: In function 'CddCopyMSLDenDiag': cddutil.c:3015:25: warning: 'ddpTail' may be used uninitialized in this function [-Wmaybe-uninitialized] ddpTail->next = ddpNew; ^ cddutil.c: In function 'CddCalculateTriangle': cddutil.c:3535:24: warning: 'buffer1' may be used uninitialized in this function [-Wmaybe-uninitialized] if (buffer1) MemFree(buffer1); ^ cddutil.c:3524:22: warning: 'pscTail' may be used uninitialized in this function [-Wmaybe-uninitialized] pscTail->next = psc; pscTail = psc; psc = NULL; ^ cddutil.c: In function 'CddDenDiagCposComp2KBP': cddutil.c:4764:27: warning: 'pssm' may be used uninitialized in this function [-Wmaybe-uninitialized] Seq_Mtf* pssm; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cddposutil.c cddposutil.c: In function 'CddfindThreshSequences': cddposutil.c:359:15: warning: variable 'thisId' set but not used [-Wunused-but-set-variable] SeqIdPtr thisId; /* Ids of target sequences in current SeqAlign */ ^ cddposutil.c: In function 'CddfindDenseDiagThreshSequences': cddposutil.c:386:16: warning: variable 'thisId' set but not used [-Wunused-but-set-variable] SeqIdPtr thisId; /* Ids of target sequences in current SeqAlign */ ^ cddposutil.c: In function 'CddposFreqsToMatrix': cddposutil.c:1038:45: warning: operation on '*(*(posSearch->posPrivateMatrix + (sizetype)((long unsigned int)length * 8ul)) + (sizetype)((long unsigned int)a * 4ul))' may be undefined [-Wsequence-point] posSearch->posPrivateMatrix[length][a] = posSearch->posPrivateMatrix[length][a] = BLAST_SCORE_MIN; ^ cddposutil.c: In function 'CddposDenseDiagDemographics': cddposutil.c:1094:17: warning: unused variable 'is_new_id' [-Wunused-variable] Boolean is_new_id = FALSE; ^ cddposutil.c:1093:17: warning: unused variable 'segIndex' [-Wunused-variable] Int4 segIndex; /*Index for which piece we are at*/ ^ cddposutil.c:1092:25: warning: variable 'startS' set but not used [-Wunused-but-set-variable] Int4 startQ, startS; /*Indices into array of starting positions*/ ^ cddposutil.c:1092:17: warning: variable 'startQ' set but not used [-Wunused-but-set-variable] Int4 startQ, startS; /*Indices into array of starting positions*/ ^ cddposutil.c:1091:17: warning: unused variable 'curId' [-Wunused-variable] SeqIdPtr curId; /*Used to compare seq. coming from different SeqAligns*/ ^ cddposutil.c: In function 'CddSetUpSearchInternalByLoc': cddposutil.c:1246:39: warning: unused variable 'last_length_adjustment' [-Wunused-variable] index, length, length_adjustment=0, last_length_adjustment, min_query_length; ^ cddposutil.c: In function 'CddSetUpSearchWithReadDb': cddposutil.c:2040:43: warning: variable 'final_db_seq' set but not used [-Wunused-but-set-variable] Int4 final_virtual_db_seq=0, final_db_seq=0; ^ cddposutil.c:2006:28: warning: unused variable 'virtual_oid_bit' [-Wunused-variable] Uint4 oid_bit, virtual_oid_bit; ^ cddposutil.c:2006:19: warning: unused variable 'oid_bit' [-Wunused-variable] Uint4 oid_bit, virtual_oid_bit; ^ cddposutil.c:2005:30: warning: unused variable 'virtual_mask_index' [-Wunused-variable] Int4 mask_index, virtual_mask_index; ^ cddposutil.c:2005:18: warning: unused variable 'mask_index' [-Wunused-variable] Int4 mask_index, virtual_mask_index; ^ cddposutil.c:2004:19: warning: unused variable 'alias_oidlist' [-Wunused-variable] OIDListPtr alias_oidlist; ^ cddposutil.c:2003:19: warning: unused variable 'use_private_gilist' [-Wunused-variable] Boolean use_private_gilist = FALSE; ^ cddposutil.c:2000:20: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp; ^ cddposutil.c: In function 'CddposReadAlignment': cddposutil.c:2226:16: warning: variable 'alignPos' set but not used [-Wunused-but-set-variable] Int4 alignPos, queryOffset, subjectOffset, matchLength; ^ In file included from ../include/cddutil.h:205:0, from cddposutil.c:131: cddposutil.c: At top level: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from cddposutil.c:131:0: ../include/cddutil.h:507:27: warning: 'CddReadBlastOptions' declared 'static' but never defined [-Wunused-function] static PGPBlastOptionsPtr CddReadBlastOptions(BioseqPtr bsp, Int4 iPseudo, CharPtr matrix_name); ^ ../include/cddutil.h:512:13: warning: 'BlastKarlinBlkCopy' declared 'static' but never defined [-Wunused-function] static void BlastKarlinBlkCopy(BLAST_KarlinBlkPtr kbp_in,BLAST_KarlinBlkPtr kbp_out); ^ ../include/cddutil.h:516:13: warning: 'CddputMatrixKbp' declared 'static' but never defined [-Wunused-function] static void CddputMatrixKbp(FILE *checkFile, BLAST_KarlinBlkPtr kbp, ^ ../include/cddutil.h:518:13: warning: 'CddputMatrixMatrix' declared 'static' but never defined [-Wunused-function] static void CddputMatrixMatrix(FILE *checkFile, ^ ../include/cddutil.h:522:16: warning: 'CddtakeMatrixCheckpoint' declared 'static' but never defined [-Wunused-function] static Boolean CddtakeMatrixCheckpoint(compactSearchItems *compactSearch, ^ ../include/cddutil.h:589:25: warning: 'CddFindSeqIdInSeqLoc' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInSeqLoc(SeqLocPtr location); ^ ../include/cddutil.h:591:25: warning: 'CddRelocateSeqLoc' declared 'static' but never defined [-Wunused-function] static void CddRelocateSeqLoc(SeqLocPtr location, SeqIdPtr sip, Int4 *ali); ^ ../include/cddutil.h:592:25: warning: 'CddSeqLocInExpAlign' declared 'static' but never defined [-Wunused-function] static Int4 CddSeqLocInExpAlign(SeqLocPtr location, CddExpAlignPtr eap); ^ ../include/cddutil.h:593:25: warning: 'CddFindSeqIdInAlignAnnot' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInAlignAnnot(AlignAnnotPtr oldannot); ^ ../include/cddutil.h:623:24: warning: 'HitYet' declared 'static' but never defined [-Wunused-function] static Boolean HitYet(Int4Ptr retlist, Int4 index, Int4 i); ^ ../include/cddutil.h:649:16: warning: 'CddFixForXML' declared 'static' but never defined [-Wunused-function] static CharPtr CddFixForXML(CharPtr pc); ^ cddposutil.c:971:13: warning: 'CddfreePosFreqs' defined but not used [-Wunused-function] static void CddfreePosFreqs(Nlm_FloatHi ** posFreqs, Int4 length) ^ cddposutil.c: In function 'CddposComputeSequenceWeights': cddposutil.c:840:35: warning: 'intervalSigma' may be used uninitialized in this function [-Wmaybe-uninitialized] posSearch->posSigma[qplace] = intervalSigma; ^ cddposutil.c:829:10: warning: 'Sigma' may be used uninitialized in this function [-Wmaybe-uninitialized] if (Sigma > 0) { ^ cddposutil.c: In function 'CddposDemographics': cddposutil.c:1199:24: warning: 'retrievalOffset' may be used uninitialized in this function [-Wmaybe-uninitialized] subjectOffset = curSegs->starts[startS] - retrievalOffset; ^ cddposutil.c: In function 'CddSetUpSearchWithReadDb': cddposutil.c:1740:48: warning: 'min_query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] if( 0 != BlastComputeLengthAdjustment(1/min_query_length, ^ cddposutil.c:1246:63: note: 'min_query_length' was declared here index, length, length_adjustment=0, last_length_adjustment, min_query_length; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF objmime.c objmime.c: In function 'NcbiMimeAsn1Free': objmime.c:123:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'NcbiMimeAsn1AsnRead': objmime.c:170:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'Data_dataFree': objmime.c:377:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'EntrezGeneralAsnRead': objmime.c:423:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c:422:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'Data_dataAsnRead': objmime.c:517:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'BiostrucAlignAsnRead': objmime.c:791:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucAlignSeqAsnRead': objmime.c:1016:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucSeqAsnRead': objmime.c:1208:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucSeqsAsnRead': objmime.c:1402:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'SeqAlignData_seq_align_dataFree': objmime.c:1599:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'BiostrucSeqsAlignsCddAsnRead': objmime.c:1633:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'SeqAlignData_seq_align_dataAsnRead': objmime.c:1720:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'BundleSeqsAlignsAsnRead': objmime.c:1954:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/mapmime.h:4:0, from objmime.c:78: objmime.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/mapmime.h:4:0, from objmime.c:78: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/mapmime.h:6:0, from objmime.c:78: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ objmime.c: In function 'NcbiMimeAsn1AsnRead': objmime.c:232:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c: In function 'EntrezGeneralAsnRead': objmime.c:579:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c:516:10: note: 'choice' was declared here Uint1 choice; ^ objmime.c: In function 'BiostrucSeqsAlignsCddAsnRead': objmime.c:1766:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c:1719:10: note: 'choice' was declared here Uint1 choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF strucapi.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdalgs.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdatd.c thrdatd.c: In function 'atd': thrdatd.c:201:8: warning: variable 'hh' set but not used [-Wunused-but-set-variable] float hh; ^ thrdatd.c:198:6: warning: variable 'rf' set but not used [-Wunused-but-set-variable] int rf; /* Reference position for a core element */ ^ thrdatd.c:188:14: warning: unused variable 'm' [-Wunused-variable] int i,j,k,l,m,n; /* Counters */ ^ thrdatd.c:188:12: warning: unused variable 'l' [-Wunused-variable] int i,j,k,l,m,n; /* Counters */ ^ thrdatd.c:171:6: warning: variable 'nrp' set but not used [-Wunused-but-set-variable] int nrp; /* Number of residue-peptide contacts in motif */ ^ thrdatd.c:170:6: warning: variable 'nrr' set but not used [-Wunused-but-set-variable] int nrr; /* Number of residue-residue contacts in motif */ ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdbwfi.c thrdbwfi.c: In function 'bwfi': thrdbwfi.c:102:13: warning: 'nt' may be used uninitialized in this function [-Wmaybe-uninitialized] ct=ttb->mx; for(i=0; i<=nt; i++) { ^ thrdbwfi.c:89:20: warning: 'nz' may be used uninitialized in this function [-Wmaybe-uninitialized] cw=0.; ct=ttb->mx; for(i=0; i<=nz; i++) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdcpal.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdcpll.c thrdcpll.c: In function 'cpll': thrdcpll.c:74:5: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types */ ^ thrdcpll.c:220:15: warning: 'r2' may be used uninitialized in this function [-Wmaybe-uninitialized] cl->rf.t2[k]=r2; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdcprl.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdcxei.c thrdcxei.c: In function 'cxei': thrdcxei.c:94:15: warning: variable 'ms' set but not used [-Wunused-but-set-variable] int ntot, ms; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrddgri.c thrddgri.c: In function 'g': thrddgri.c:72:5: warning: variable 's0' set but not used [-Wunused-but-set-variable] int s0; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdrsmp.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdsal0.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdsalr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdsalu.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdsgoi.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdslo0.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdslor.c thrdslor.c: In function 'slor': thrdslor.c:90:6: warning: 'mp' may be used uninitialized in this function [-Wmaybe-uninitialized] int *mp; /* Motif-derived loop length limits */ ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdslou.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdspci.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdspea.c thrdspea.c: In function 'spea': thrdspea.c:91:9: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types in potential */ ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdspel.c thrdspel.c: In function 'spel': thrdspel.c:88:9: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types in potential */ ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdspni.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdttb0.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdttbi.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF thrdzsc.c thrdzsc.c: In function 'zsc': thrdzsc.c:107:7: warning: unused variable 'gs' [-Wunused-variable] int g,gs; ^ thrdzsc.c:102:18: warning: unused variable 'zsc' [-Wunused-variable] float tg,tgp,tgm,zsc; /* Energy of shuffled sequence */ ^ thrdzsc.c:95:5: warning: unused variable 'ps' [-Wunused-variable] int ps,ms,cs, ^ thrdzsc.c:80:5: warning: unused variable 'temp' [-Wunused-variable] int temp; /* Random index of the query sequence */ ^ thrdzsc.c:79:2: warning: unused variable 'kk' [-Wunused-variable] kk,itr,ii,jj; /* Counters */ ^ thrdzsc.c:357:39: warning: 'tg_max' may be used uninitialized in this function [-Wmaybe-uninitialized] ttb->zsc[i_max]=ScalingFactor*(tg_max-avg)/disp; ^ thrdzsc.c:89:6: warning: 'tls' may be used uninitialized in this function [-Wmaybe-uninitialized] tlf,tls,dln; ^ thrdzsc.c:89:2: warning: 'tlf' may be used uninitialized in this function [-Wmaybe-uninitialized] tlf,tls,dln; ^ rm -f libncbimmdb.a ar cru libncbimmdb.a corematx.o dvncode.o objmmdb1.o objmmdb2.o objmmdb3.o objcn3d.o mmdbapi.o mmdbapi1.o mmdbapi2.o mmdbapi3.o mmdbapi4.o mmdbentr.o vastsubs.o prunebsc.o objcdd.o cddutil.o cddposutil.o objmime.o strucapi.o thrdalgs.o thrdatd.o thrdbwfi.o thrdcpal.o thrdcpll.o thrdcprl.o thrdcxei.o thrddgri.o thrdrsmp.o thrdsal0.o thrdsalr.o thrdsalu.o thrdsgoi.o thrdslo0.o thrdslor.o thrdslou.o thrdspci.o thrdspea.o thrdspel.o thrdspni.o thrdttb0.o thrdttbi.o thrdzsc.o cp -p libncbimmdb.a ../lib ranlib ../lib/libncbimmdb.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF csim.c csim.c: In function 'set_pam_200': csim.c:165:2: warning: missing braces around initializer [-Wmissing-braces] 2,-2, 0, 0,-2,-1, 0, 1,-1,-1,-2,-1,-1,-3, 1, 1, 1,-5,-3, 0, 1, 1, 0, ^ csim.c:165:2: warning: (near initialization for 'wgts[0]') [-Wmissing-braces] csim.c:196:8: warning: array subscript has type 'char' [-Wchar-subscripts] V[achars[i]][achars[j]]=10*(wgts[i][j]); ^ csim.c:196:8: warning: array subscript has type 'char' [-Wchar-subscripts] csim.c: In function 'set_pam_file': csim.c:228:12: warning: array subscript has type 'char' [-Wchar-subscripts] V[alph[i]][alph[j]]=(Int2)(10*weight); ^ csim.c:228:12: warning: array subscript has type 'char' [-Wchar-subscripts] csim.c: In function 'big_pass': csim.c:668:7: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:692:5: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c: In function 'diff1': csim.c:799:7: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[1]]; ^ csim.c:805:13: warning: array subscript has type 'char' [-Wchar-subscripts] { c = va[B[j]] - ( GAP(j-1) + GAP(N-j) ); ^ csim.c:849:7: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:853:4: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+(s_ptr->I), (s_ptr->J)+j, c, s+v[A[i]][B[j]]) ^ csim.c:853:4: warning: array subscript has type 'char' [-Wchar-subscripts] csim.c:874:7: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i+1]]; ^ csim.c:878:4: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+1+s_ptr->I, j+1+s_ptr->J, c, s+v[A[i+1]][B[j+1]]) ^ csim.c:878:4: warning: array subscript has type 'char' [-Wchar-subscripts] csim.c:893:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (c > midc || CC[j] != DD[j] && RR[j] == SS[j]) ^ csim.c: In function 'locate': csim.c:974:7: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:991:5: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:1030:8: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[(plist->m1)]]; ^ csim.c:1043:5: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG((plist->m1), j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:1061:31: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! rflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1062:44: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1071:34: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1072:20: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1084:8: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[B[(plist->n1)]]; ^ csim.c:1110:12: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, (plist->n1), c, p+va[A[i]]) ^ csim.c:1128:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1129:29: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1138:34: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! rflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1139:47: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1144:29: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( (plist->m1) == 1 && (plist->n1) == 1 || no_cross(flag, plist, &rl, &cl) ) ^ csim.c: In function 'small_pass': csim.c:1186:7: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:1212:5: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c: In function 'display': csim.c:1360:5: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (i < M || j < N) ^ csim.c: In function 'set_pam_file': csim.c:227:18: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%f", &weight); /**get the matrix**/ ^ csim.c: In function 'SIM': csim.c:1071:62: warning: 'dj' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:928:23: note: 'dj' was declared here register Int4 di, dj; /* end-point associated with d */ ^ csim.c:1071:51: warning: 'di' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:928:19: note: 'di' was declared here register Int4 di, dj; /* end-point associated with d */ ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF db_slist.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF dust.c dust.c: In function 'slpDust.isra.0': dust.c:655:23: warning: 'sintp' may be used uninitialized in this function [-Wmaybe-uninitialized] slp->data.ptrvalue = (Pointer) sintp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_dust.c blast_dust.c: In function 's_SlpDust': blast_dust.c:348:23: warning: 'sintp' may be used uninitialized in this function [-Wmaybe-uninitialized] slp->data.ptrvalue = (Pointer) sintp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF falign.c falign.c: In function 'fbld_table': falign.c:490:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:494:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'bbld_table': falign.c:517:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:521:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rcbld_table': falign.c:544:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:548:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'ex_table': falign.c:567:2: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'free_all': falign.c:668:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = cdiag_prev[l]) { ^ falign.c: In function 'scan': falign.c:688:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:694:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c:710:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+len2-1-pos]) { ^ falign.c:719:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df=diag_prev[l]) { ^ falign.c: In function 'fscan': falign.c:763:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:769:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'bscan': falign.c:794:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:800:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rfscan': falign.c:870:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:876:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c:881:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+se2-pos]) { ^ falign.c:889:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+se2-pos]) { ^ falign.c: In function 'trcscan': falign.c:1476:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:1482:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rclocal': falign.c:1547:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = diag_prev[ocur_diag]) { ^ falign.c: In function 'enterS': falign.c:1897:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (s = findS(f->bgf)) { ^ falign.c: In function 'local': falign.c:1958:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = diag_prev[cur_diag]) { ^ falign.c: In function 'align': falign.c:1999:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ falign.c: In function 'calign': falign.c:2054:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ falign.c: In function 'malign': falign.c:2109:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF g_any.c g_any.c: In function 'k_align': g_any.c:212:3: warning: array subscript has type 'char' [-Wchar-subscripts] va = vv[A[i+1]]; ^ g_any.c:229:4: warning: array subscript has type 'char' [-Wchar-subscripts] if (j < J2) c = s + va[B[j+1]]; ^ g_any.c:319:3: warning: array subscript has type 'char' [-Wchar-subscripts] b2 = PP[t1][b1]; ^ g_any.c:322:3: warning: array subscript has type 'char' [-Wchar-subscripts] t2 = PT[t1][b1]; ^ g_any.c: In function 'z_ALIGN': g_any.c:367:7: warning: variable 'check_score' set but not used [-Wunused-but-set-variable] Int4 check_score; ^ g_any.c: In function 'CHECK_SCORE': g_any.c:492:3: warning: array subscript has type 'char' [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ g_any.c:492:3: warning: array subscript has type 'char' [-Wchar-subscripts] g_any.c: At top level: g_any.c:428:13: warning: 'ALINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ g_any.c:428:24: warning: 'BLINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ g_any.c:428:35: warning: 'CLINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sim2.c sim2.c: In function 'SIM2': sim2.c:19:16: warning: unused variable 'compB' [-Wunused-variable] CharPtr A, B, compB = NULL; ^ sim2.c:17:26: warning: unused variable 'sapC' [-Wunused-variable] SeqAlignPtr sap = NULL, sapC=NULL, out_sap, out_sapC; ^ sim2.c:135:20: warning: 's_strand' may be used uninitialized in this function [-Wmaybe-uninitialized] Change_Loc_Strand(cslp2, s_strand); ^ sim2.c:136:20: warning: 'm_strand' may be used uninitialized in this function [-Wmaybe-uninitialized] Change_Loc_Strand(cslp1, m_strand); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sim3.c sim3.c: In function 'locate': sim3.c:103:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:105:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:113:17: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:115:17: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:129:17: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:133:17: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:152:3: warning: array subscript has type 'char' [-Wchar-subscripts] ecode1 = ((ecode1 & mask) << 2) + encoding[*q++]; ^ sim3.c:155:17: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c: At top level: sim3.c:806:13: warning: 'Print_Script' defined but not used [-Wunused-function] static void Print_Script(EditScriptPtr head, Int4 M, Int4 N, CharPtr A, CharPtr B) ^ sim3.c:1048:13: warning: 'get_start_pos' defined but not used [-Wunused-function] static Int4 get_start_pos(SeqLocPtr slp) ^ sim3.c:1056:13: warning: 'get_current_pos' defined but not used [-Wunused-function] static Int4 get_current_pos(Int4Ptr pos, Int4 length) ^ sim3.c:1067:16: warning: 'is_end_seg' defined but not used [-Wunused-function] static Boolean is_end_seg(EditScriptPtr curr, EditScriptPtr head) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sim4.c sim4.c: In function 'sim4x': sim4.c:630:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while(i1 = sgp->Blist[i].next) { ^ sim4.c: In function 'greedy': sim4.c:1770:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == 0 && col == 0) ^ sim4.c:1794:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == 0) ^ sim4.c:1838:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (col == 0) ^ sim4.c:1962:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == m && col == n) ^ sim4.c:1991:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == m) ^ sim4.c:2037:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (col == n) ^ sim4.c: In function 'DISPLAY': sim4.c:2625:35: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (a >= ALINE+50 || i >= M && j >= N) ^ sim4.c: At top level: sim4.c:2563:13: warning: 'S2A' defined but not used [-Wunused-function] static void S2A(EditScriptPtr head, Int4Ptr S) ^ sim4.c:2592:13: warning: 'DISPLAY' defined but not used [-Wunused-function] static void DISPLAY(Int1 A[], Int1 B[], Int4 M, Int4 N, Int4 S[], Int4 AP, Int4 BP) ^ sim4.c:2499:13: warning: 'Print_Script' defined but not used [-Wunused-function] static void Print_Script(EditScriptPtr head, Int4 M, Int4 N, data_t *data) ^ sim4.c: In function 'greedy.isra.12': sim4.c:2112:37: warning: 'forth' may be used uninitialized in this function [-Wmaybe-uninitialized] if (m-min_row[back]>=max_row[forth]) { ^ sim4.c:2112:22: warning: 'back' may be used uninitialized in this function [-Wmaybe-uninitialized] if (m-min_row[back]>=max_row[forth]) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF simutil.c simutil.c: In function 'make_align': simutil.c:495:9: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ simutil.c: At top level: simutil.c:344:17: warning: 'convert' defined but not used [-Wunused-function] static ScorePtr convert(Int4Ptr x, Int4Ptr y, Int4Ptr start, Int4Ptr length, Int4 n, SeqLocPtr locx, SeqLocPtr locy, Int2Ptr numseg, FloatHiPtr SegScores) ^ simutil.c:814:16: warning: 're_cal_score' defined but not used [-Wunused-function] static FloatHi re_cal_score(RecordEndsPtr o_rep, RecordEndsPtr n_rep) ^ simutil.c:848:16: warning: 'is_alu_seq' defined but not used [-Wunused-function] static Boolean is_alu_seq(CharPtr name) ^ simutil.c: In function 'sort_align_list': simutil.c:602:20: warning: 'score2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (score2 > score1) { /* swap */ ^ simutil.c:602:20: warning: 'score1' may be used uninitialized in this function [-Wmaybe-uninitialized] simutil.c: In function 'get_top_K_alignment': simutil.c:659:16: warning: 'score' may be used uninitialized in this function [-Wmaybe-uninitialized] if (score < cut_off) break; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF slist.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF sec.c sec.c: In function 'Region': sec.c:268:5: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:268:5: warning: array subscript has type 'char' [-Wchar-subscripts] sec.c:292:5: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:5: warning: array subscript has type 'char' [-Wchar-subscripts] sec.c:321:5: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:5: warning: array subscript has type 'char' [-Wchar-subscripts] sec.c:345:5: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:5: warning: array subscript has type 'char' [-Wchar-subscripts] sec.c:428:8: warning: array subscript has type 'char' [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ sec.c:428:8: warning: array subscript has type 'char' [-Wchar-subscripts] sec.c:72:37: warning: 'ppj' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Min(x,y) ((x) <= (y) ? (x) : (y)) ^ sec.c:172:20: note: 'ppj' was declared here Int4 pi, pj, ppi, ppj; ^ sec.c:172:15: warning: 'ppi' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 pi, pj, ppi, ppj; ^ sec.c:405:26: warning: 'ej' may be used uninitialized in this function [-Wmaybe-uninitialized] c = ((FloatHi)z_ALIGN(seq1-1,seq2-1,bi,bj,ei,ej,LB,RB,V,G,H,S+fk))/DIGIT + (FloatHi)fk + (FloatHi)lk; ^ sec.c:405:26: warning: 'ei' may be used uninitialized in this function [-Wmaybe-uninitialized] sec.c:405:26: warning: 'bj' may be used uninitialized in this function [-Wmaybe-uninitialized] sec.c:468:13: warning: 'bi' may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(LB+bi); ^ sec.c:159:10: warning: 'RB' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4Ptr RB; ^ sec.c:158:10: warning: 'LB' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4Ptr LB; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF tfuns.c tfuns.c: In function 'find_orf': tfuns.c:846:26: warning: unused variable 'into' [-Wunused-variable] IntFuzzPtr infrom=NULL, into=NULL; ^ tfuns.c:846:13: warning: unused variable 'infrom' [-Wunused-variable] IntFuzzPtr infrom=NULL, into=NULL; ^ tfuns.c: At top level: tfuns.c:956:13: warning: 'find_orf_from_circle' defined but not used [-Wunused-function] static void find_orf_from_circle (SeqPortPtr spp, Boolean flagIsCircle, ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF toasn3.c toasn3.c: In function 'FindOrg': toasn3.c:1311:17: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ toasn3.c: In function 'CheckQualsWithComm': toasn3.c:1592:18: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toasn3.c: In function 'CheckQuals': toasn3.c:1629:18: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toasn3.c: In function 'CountSourceFeat': toasn3.c:2415:13: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ toasn3.c:2406:19: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ toasn3.c: In function 'TASNTrimInternalSemicolons': toasn3.c:3986:12: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] CharPtr tmp; ^ toasn3.c: In function 'ImpFeatToProtRef': toasn3.c:4672:13: warning: variable 'lfree' set but not used [-Wunused-but-set-variable] Boolean lfree = FALSE, partial5, partial3; ^ toasn3.c: In function 'RemovePeptideImpFeats': toasn3.c:4967:24: warning: variable 'ifp' set but not used [-Wunused-but-set-variable] ImpFeatPtr ifp; ^ In file included from ../include/asn2ff6.h:142:0, from toasn3.c:19: toasn3.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ toasn3.c:1572:16: warning: 'GetQualValue' defined but not used [-Wunused-function] static CharPtr GetQualValue(GBQualPtr gbqual, CharPtr qual) ^ toasn3.c: In function 'GetOriginalBeforeAdjustment': toasn3.c:4185:29: warning: 'last' may be used uninitialized in this function [-Wmaybe-uninitialized] if (last != NULL && last->choice != SEQLOC_INT) /* this is too weird */ ^ toasn3.c: In function 'FixNucProtSet': toasn3.c:2058:21: warning: 'bseg' may be used uninitialized in this function [-Wmaybe-uninitialized] bseg->annot = sap; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF toporg.c toporg.c: In function 'ChkSegset': toporg.c:62:51: warning: variable 'is_title' set but not used [-Wunused-but-set-variable] Boolean is_org = FALSE, is_modif = FALSE, is_title = FALSE; ^ toporg.c:61:17: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toporg.c:58:17: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ toporg.c:53:17: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp = NULL, set_vnp = NULL, upd_date_vnp = NULL; ^ toporg.c: In function 'ChkNucProt': toporg.c:594:51: warning: variable 'is_title' set but not used [-Wunused-but-set-variable] Boolean is_org = FALSE, is_modif = FALSE, is_title = FALSE; ^ toporg.c: In function 'StripBSfromParts': toporg.c:1280:17: warning: variable 'empty' set but not used [-Wunused-but-set-variable] Boolean empty; ^ toporg.c:1279:17: warning: variable 'bsmp' set but not used [-Wunused-but-set-variable] BSMapPtr bsmp; ^ toporg.c:1278:29: warning: variable 'set_vnp' set but not used [-Wunused-but-set-variable] ValNodePtr descr, vnp, set_vnp; ^ toporg.c: In function 'MapsToGenref': toporg.c:1944:17: warning: variable 'loc' set but not used [-Wunused-but-set-variable] SeqLocPtr loc; ^ toporg.c:1939:17: warning: variable 'descr' set but not used [-Wunused-but-set-variable] ValNodePtr descr = NULL, head, last, vnp; ^ toporg.c: In function 'FindOldLineage': toporg.c:2521:17: warning: variable 'lineage' set but not used [-Wunused-but-set-variable] CharPtr lineage; ^ toporg.c: In function 'StripBadTitleFromProteinProducts': toporg.c:4968:22: warning: variable 'tech' set but not used [-Wunused-but-set-variable] Uint1 tech; ^ toporg.c: At top level: toporg.c:3010:13: warning: 'BarCodeTechToKeyword' defined but not used [-Wunused-function] static void BarCodeTechToKeyword (BioseqPtr bsp, Pointer userdata) ^ toporg.c: In function 'MergeEquivCitSubs': toporg.c:3831:16: warning: 'csp1' may be used uninitialized in this function [-Wmaybe-uninitialized] alp1 = csp1->authors; ^ toporg.c: In function 'CheckMaps': toporg.c:1715:11: warning: 'to' may be used uninitialized in this function [-Wmaybe-uninitialized] sip->to = to; ^ toporg.c:1696:24: note: 'to' was declared here Int4 from, to; ^ toporg.c:1714:13: warning: 'from' may be used uninitialized in this function [-Wmaybe-uninitialized] sip->from = from; ^ toporg.c:1696:18: note: 'from' was declared here Int4 from, to; ^ toporg.c: In function 'ConvertSegSetToDeltaSeq': toporg.c:6566:29: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqMgrClearFeatureIndexes (entityID, NULL); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pobutil.c pobutil.c: In function 'build_repeat_feat': pobutil.c:187:7: warning: unused variable 'c' [-Wunused-variable] Char c='%'; ^ pobutil.c: In function 'merge_StdSeg': pobutil.c:1033:7: warning: variable 'start_1' set but not used [-Wunused-but-set-variable] Int4 start_1, stop_1, start_2, stop_2; ^ pobutil.c:1031:7: warning: unused variable 'overlap' [-Wunused-variable] Int4 overlap = -1; ^ pobutil.c: In function 'AluFeat': pobutil.c:2431:10: warning: variable 'my_userdata' set but not used [-Wunused-but-set-variable] Pointer my_userdata; ^ In file included from /usr/include/string.h:638:0, from ../include/ncbilcl.h:156, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/pobutil.h:7, from pobutil.c:3: In function 'memset', inlined from 'FindHumanRepeats' at pobutil.c:2380:8: /usr/include/bits/string3.h:81:30: warning: call to '__warn_memset_zero_len' declared with attribute warning: memset used with constant zero length parameter; this could be due to transposed parameters [enabled by default] __warn_memset_zero_len (); ^ In function 'memset', inlined from 'FindHumanRepeats' at pobutil.c:2381:8: /usr/include/bits/string3.h:81:30: warning: call to '__warn_memset_zero_len' declared with attribute warning: memset used with constant zero length parameter; this could be due to transposed parameters [enabled by default] __warn_memset_zero_len (); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF stsutil.c stsutil.c: In function 'InitSTSSearch_r': stsutil.c:270:10: warning: unused variable 'StsCount' [-Wunused-variable] Int4 StsCount=0; ^ stsutil.c: In function 'GetSTSEntry': stsutil.c:635:13: warning: variable 'p' set but not used [-Wunused-but-set-variable] CharPtr p; ^ stsutil.c: In function 'STSCalculateHash': stsutil.c:753:9: warning: array subscript has type 'char' [-Wchar-subscripts] if ((j = HashCode[*p++]) < 0) ^ stsutil.c: In function 'STSReverse': stsutil.c:771:9: warning: array subscript has type 'char' [-Wchar-subscripts] if ((*t = ComplCode[*s]) == 0) ^ stsutil.c: In function 'InitHashTable': stsutil.c:910:21: warning: variable 'sts_uid' set but not used [-Wunused-but-set-variable] CharPtr gb_uid, sts_uid; ^ stsutil.c:910:13: warning: variable 'gb_uid' set but not used [-Wunused-but-set-variable] CharPtr gb_uid, sts_uid; ^ stsutil.c:908:23: warning: variable 'gi' set but not used [-Wunused-but-set-variable] Int4 id_sts, len, gi, StsCount = 0, StsInvalid =0; ^ stsutil.c:908:10: warning: variable 'id_sts' set but not used [-Wunused-but-set-variable] Int4 id_sts, len, gi, StsCount = 0, StsInvalid =0; ^ stsutil.c:907:23: warning: unused variable 'error' [-Wunused-variable] Int4 LineLength, error= FALSE; ^ stsutil.c: At top level: stsutil.c:892:13: warning: 'STSHashInitFree' defined but not used [-Wunused-function] static void STSHashInitFree(STSHashInitPtr sts) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF suggadj.c suggadj.c: In function 'score_possible_splice_sites': suggadj.c:874:1: warning: array subscript has type 'char' [-Wchar-subscripts] score = ( vx[seq_or_rev[putative_donor]]==3) ?10:0; ^ suggadj.c:875:1: warning: array subscript has type 'char' [-Wchar-subscripts] score += (vx[seq_or_rev[putative_acceptor]]==3 )?10:0; ^ suggadj.c:878:1: warning: array subscript has type 'char' [-Wchar-subscripts] score += ( vx[seq_or_rev[putative_donor+1]]==0 )?3:0; ^ suggadj.c:879:1: warning: array subscript has type 'char' [-Wchar-subscripts] score += ( vx[seq_or_rev[putative_acceptor-1]]==2 )?3:0; ^ suggadj.c: In function 'check_split_codon': suggadj.c:985:1: warning: array subscript has type 'char' [-Wchar-subscripts] val_assuming_1_from_left= vx[seq_or_rev[left_ends+1]] * 16 + ^ suggadj.c:986:2: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-2]]*4+ ^ suggadj.c:987:2: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-1]]; ^ suggadj.c:998:1: warning: array subscript has type 'char' [-Wchar-subscripts] val_assuming_2_from_left= vx[seq_or_rev[left_ends+1]] * 16 + ^ suggadj.c:999:2: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[left_ends+2]] * 4 + ^ suggadj.c:1000:2: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-1]]; ^ suggadj.c: In function 'overlapping_fixer': suggadj.c:1370:5: warning: array subscript has type 'char' [-Wchar-subscripts] test_val = vx[seq_or_rev[left_exon_ends]]*16 + ^ suggadj.c:1371:6: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_exon_starts-1]]; ^ suggadj.c:1373:6: warning: array subscript has type 'char' [-Wchar-subscripts] test_val += vx[seq_or_rev[right_exon_starts-2]]*4; ^ suggadj.c:1375:6: warning: array subscript has type 'char' [-Wchar-subscripts] test_val += vx[seq_or_rev[left_exon_ends+1]]*4; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF suggest.c suggest.c: In function 'get_frames': suggest.c:458:4: warning: array subscript has type 'char' [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ suggest.c:458:4: warning: array subscript has type 'char' [-Wchar-subscripts] suggest.c: At top level: suggest.c:1222:1: warning: 'fprintf_m_stk_entry' defined but not used [-Wunused-function] fprintf_m_stk_entry(FILE *fp, Int4 index, char *msg) ^ suggest.c:1331:13: warning: 'ReportSuggestIntervalsError' defined but not used [-Wunused-function] static void ReportSuggestIntervalsError (SeqRecPtr srp, CharPtr gen_txt) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF suggslp.c suggslp.c: In function 'MakeReverseSequence': suggslp.c:190:3: warning: array subscript has type 'char' [-Wchar-subscripts] *t++ = r[*--s]; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast.c blast.c: In function 'BlastReevaluateWithAmbiguities': blast.c:2954:24: warning: variable 'query_end' set but not used [-Wunused-but-set-variable] Uint1Ptr query_start, query_end, subject_real_start=NULL; ^ blast.c:2949:16: warning: variable 'hspcnt' set but not used [-Wunused-but-set-variable] Int4 context, hspcnt, hspcnt_max, index, index1, status; ^ blast.c: In function 'BlastGetVirtualOIDList': blast.c:3179:9: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (virtual_oidlist = rdfp_chain->oidlist) { ^ blast.c: In function 'BlastGetDbChunk': blast.c:3210:9: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (virtual_oidlist = BlastGetVirtualOIDList(rdfp)) { ^ blast.c: In function 'BlastCreateQueryDNAP': blast.c:4100:11: warning: variable 'strand_option' set but not used [-Wunused-but-set-variable] Uint1 strand_option; ^ blast.c: In function 'BlastWordFinder_contig': blast.c:7094:16: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] register Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c: In function 'BlastWordExtend': blast.c:7835:46: warning: variable 'leftscore' set but not used [-Wunused-but-set-variable] BLAST_Score leftsum, rightsum, rightscore, leftscore; ^ blast.c: In function 'BlastNewWordExtend': blast.c:7982:46: warning: variable 'leftscore' set but not used [-Wunused-but-set-variable] BLAST_Score leftsum, rightsum, rightscore, leftscore; ^ blast.c: In function 'BlastNtWordFinder_mh': blast.c:8843:23: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] register Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c:8842:103: warning: variable 'compression_factor' set but not used [-Wunused-but-set-variable] Int4 s_pos, q_off, s_off, offset, virtual_wordsize, wordsize, compressed_wordsize, compression_factor; ^ blast.c: In function 'BlastNtWordFinder': blast.c:9076:14: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c: In function 'BlastSaveCurrentHitlist': blast.c:10115:11: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if( hitlist_max > 1 ) ^ blast.c:9785:7: warning: variable 'query_length' set but not used [-Wunused-but-set-variable] Int4 query_length; ^ blast.c: In function 'SumHSPEvalue': blast.c:10588:9: warning: variable 'gap_size' set but not used [-Wunused-but-set-variable] Int4 gap_size, num, subject_length; ^ blast.c: In function 'link_hsps': blast.c:11267:10: warning: variable 'frame_change' set but not used [-Wunused-but-set-variable] Boolean frame_change, linked_set, ignore_small_gaps; ^ blast.c: In function 'blastMergeFilterLocs': blast.c:3983:16: warning: 'dup_slp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (dup_slp->choice == SEQLOC_PACKED_INT) { ^ blast.c: In function 'BlastLinkHsps': blast.c:10455:41: warning: 'orig_hitlist' may be used uninitialized in this function [-Wmaybe-uninitialized] search->current_hitlist = orig_hitlist; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blastutl.c blastutl.c: In function 'BlastSeqLocFilterEx': blastutl.c:7554:11: warning: statement with no effect [-Wunused-value] stop_timer("after repeat filtering"); ^ blastutl.c: In function 'BlastPreliminaryGappedScore': blastutl.c:9853:30: warning: variable 'query_length' set but not used [-Wunused-but-set-variable] Int4 index, max_offset = 0, query_length, min_score; ^ blastutl.c: In function 'BlastGetGappedScore': blastutl.c:10282:11: warning: statement with no effect [-Wunused-value] stop_timer("after BlastGappedScoreInternal"); ^ blastutl.c: In function 'BlastNtFindWords': blastutl.c:11445:10: warning: 'end' may be used uninitialized in this function [-Wmaybe-uninitialized] end = MIN(end, len-initial_wordsize); ^ blastutl.c: In function 'BlastFindWords': blastutl.c:11623:8: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] stop = MIN(stop, len); ^ blastutl.c:11711:18: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += matrix[(Int4) *(str+index2)][*(words+index2)]; ^ blastutl.c:11704:17: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score+first_score; ^ blastutl.c:11695:11: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'BlastNewFindWords_Old': blastutl.c:11931:18: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += MtrxScorePosSearch(search->sbp, ^ blastutl.c:11924:17: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score+first_score; ^ blastutl.c:11915:11: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'BlastNewFindWordsEx': blastutl.c:12124:30: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += posMatrix[offset+index2][*(words+index2)]; ^ blastutl.c:12118:29: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score + first_score; ^ blastutl.c:12110:23: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'RealBlastGetGappedAlignmentTraceback': blastutl.c:9377:56: warning: 'seqalign_array' may be used uninitialized in this function [-Wmaybe-uninitialized] seqalign_array[index2] = ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blastool.c blastool.c: In function 'OOFBlastHSPGetNumIdentical': blastool.c:6081:9: warning: variable 'context' set but not used [-Wunused-but-set-variable] Int2 context; ^ blastool.c: In function 'BlastCreateVirtualOIDList': blastool.c:2556:24: warning: 'gilist' may be used uninitialized in this function [-Wmaybe-uninitialized] BlastDoubleInt4Ptr gilist, real_gilist = NULL, *real_gilist_ptrs = NULL; ^ blastool.c: In function 'BlastInsertList2Heap': blastool.c:3575:30: warning: 'query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 begin, end, hspcnt, query_length; ^ blastool.c: In function 'BlastFreeHeap': blastool.c:3670:33: warning: 'query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 begin, end, i, hspcnt, query_length; ^ blastool.c: In function 'BLASTFilterOverlapRegions': blastool.c:4531:24: warning: 'next_tail' may be used uninitialized in this function [-Wmaybe-uninitialized] tail->next = seqalign; ^ blastool.c: In function 'BlastPrintAlignInfo': blastool.c:4800:23: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] sap->next = SeqAlignNew(); ^ blastool.c: In function 'MegaBlastPrintAlignInfo': blastool.c:5321:17: warning: 'subject_seq_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(subject_seq_buffer); ^ blastool.c:5320:17: warning: 'query_seq_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(query_seq_buffer); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blastconcat.c blastconcat.c: In function 'BlastMakeFakeBspConcat': blastconcat.c:648:12: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp = NULL; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF splutil.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gapxdrop.c gapxdrop.c: In function 'ALIGN_EX': gapxdrop.c:864:10: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s == 1) ^ gapxdrop.c:867:10: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s == 2) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bandalg0.c bandalg0.c: In function 'g_band0_align': bandalg0.c:273:9: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(leftd >= 1) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bandalg1.c bandalg1.c: In function 'gband_quadratic': bandalg1.c:54:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg1.c: In function 'g_band1_align': bandalg1.c:205:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(leftd >= 1) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bandalg2.c bandalg2.c: In function 'gb_linear_align': bandalg2.c:208:24: warning: variable 'misma' set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^ bandalg2.c:208:17: warning: variable 'match' set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^ bandalg2.c:207:18: warning: variable 'AA' set but not used [-Wunused-but-set-variable] register Uint1 AA; ^ bandalg2.c:494:15: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] if (rmid > Y - X) { ^ bandalg2.c:494:15: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bandalg3.c bandalg3.c: In function 'gband_linear_qgap': bandalg3.c:54:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg3.c:314:41: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] else if(Y != rightd) _INS(rightd-Y) ^ bandalg3.c:185:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ bandalg3.c:313:5: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M) _DEL(M - X) ^ bandalg3.c:185:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bandalg4.c bandalg4.c: In function 'g_band4_align_small': bandalg4.c:826:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 1) ^ bandalg4.c:829:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 2) ^ bandalg4.c:630:8: warning: variable 'band' set but not used [-Wunused-but-set-variable] Int4 band, j; ^ bandalg4.c: In function 'g_band4_align': bandalg4.c:534:22: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M || Y != N) regA = regB = 1; ^ bandalg4.c:534:12: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M || Y != N) regA = regB = 1; ^ bandalg4.c:545:7: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] FP[k] = r; ^ bandalg4.c:857:37: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (Y != rightd) _INS(rightd - Y); ^ bandalg4.c:640:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ In file included from bandalg4.c:37:0: ../include/bandalgn.h:140:76: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] data->last = (data->last < 0) ? (data->sapp[-1] -= (k)) : (*data->sapp++ = -(k)); ^ bandalg4.c:640:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bandalg5.c bandalg5.c: In function 'gband_q3gap': bandalg5.c:56:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg5.c: In function 'g_band5_align': bandalg5.c:292:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 1) ^ bandalg5.c:295:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 2) ^ bandalg5.c: In function 'gband_q3gap': bandalg5.c:320:32: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] if (Y != rightd) _INS(rightd - Y); ^ bandalg5.c:146:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ bandalg5.c:319:6: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if (X != M) _DEL(M - X); ^ bandalg5.c:146:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bandalgn.c bandalgn.c: In function 'ExtendSeqAlign': bandalgn.c:1113:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ bandalgn.c: In function 'CC_ExtendSeqAlign': bandalgn.c:1188:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ bandalgn.c: At top level: bandalgn.c:699:14: warning: 'HSblastna_to_ncbi4na' defined but not used [-Wunused-variable] static Uint1 HSblastna_to_ncbi4na[] = { 1, /* A, 0 */ ^ bandalgn.c: In function 'LocalBandToEditBlock': bandalgn.c:463:20: warning: 'edit_block' may be used uninitialized in this function [-Wmaybe-uninitialized] lbsp->edit_block = edit_block; ^ bandalgn.c: In function 'SetLowUpFromBlast': bandalgn.c:1053:7: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] if (maxsc < val) { ^ bandalgn.c:1060:7: warning: 'alnlen' may be used uninitialized in this function [-Wmaybe-uninitialized] if (maxlen < alnlen) { ^ bandalgn.c:1070:9: warning: 'maxdi_up' may be used uninitialized in this function [-Wmaybe-uninitialized] maxy = MAX(maxy,maxdi_up); ^ bandalgn.c:1069:9: warning: 'mindi_low' may be used uninitialized in this function [-Wmaybe-uninitialized] miny = MIN(miny,mindi_low); ^ bandalgn.c:1062:10: warning: 'maxdi' may be used uninitialized in this function [-Wmaybe-uninitialized] maxy = maxdi + width; ^ bandalgn.c:1063:10: warning: 'mindi' may be used uninitialized in this function [-Wmaybe-uninitialized] miny = mindi - width; ^ bandalgn.c: In function 'GetAlignExtremes': bandalgn.c:1309:7: warning: 'y2' may be used uninitialized in this function [-Wmaybe-uninitialized] *yy2 = y2; ^ bandalgn.c:1308:7: warning: 'y1' may be used uninitialized in this function [-Wmaybe-uninitialized] *yy1 = y1; ^ bandalgn.c:1307:7: warning: 'x2' may be used uninitialized in this function [-Wmaybe-uninitialized] *xx2 = x2; ^ bandalgn.c:1306:7: warning: 'x1' may be used uninitialized in this function [-Wmaybe-uninitialized] *xx1 = x1; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blastkar.c blastkar.c:1053:21: warning: 'blosum62_20_values' defined but not used [-Wunused-variable] static Nlm_FloatHi blosum62_20_values[BLOSUM62_20_VALUES_MAX][8] = { ^ blastkar.c:1121:13: warning: 'blosum62_20_prefs' defined but not used [-Wunused-variable] static Int4 blosum62_20_prefs[BLOSUM62_20_VALUES_MAX] = { ^ blastkar.c:2347:25: warning: 'Dayhoff_prob' defined but not used [-Wunused-variable] static BLAST_LetterProb Dayhoff_prob[] = { ^ blastkar.c:2373:25: warning: 'Altschul_prob' defined but not used [-Wunused-variable] static BLAST_LetterProb Altschul_prob[] = { ^ blastkar.c: In function 'BLAST_ScoreBlkNew': blastkar.c:1213:29: warning: 'sctp' may be used uninitialized in this function [-Wmaybe-uninitialized] sbp->alphabet_size = sctp->num; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF actutils.c actutils.c: In function 'SlideToHit': actutils.c:346:23: warning: variable 'done' set but not used [-Wunused-but-set-variable] Boolean inIsland, done; ^ actutils.c:346:13: warning: variable 'inIsland' set but not used [-Wunused-but-set-variable] Boolean inIsland, done; ^ actutils.c: In function 'ResolveSpinConflict': actutils.c:1484:35: warning: unused variable 'row2_conflict' [-Wunused-variable] Boolean row1_conflict = FALSE, row2_conflict = FALSE; ^ actutils.c:1484:12: warning: unused variable 'row1_conflict' [-Wunused-variable] Boolean row1_conflict = FALSE, row2_conflict = FALSE; ^ actutils.c: In function 'ACT_FindBestAlnByDotPlot': actutils.c:2002:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ actutils.c:2001:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ actutils.c:2000:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from actutils.c:232: actutils.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ actutils.c:749:13: warning: 'StateTableSearch' defined but not used [-Wunused-function] static void StateTableSearch (TextFsaPtr tbl, CharPtr txt, Int4Ptr state, Int4 pos, ACT_sitelistPtr PNTR asp_prev, ACT_sitelistPtr PNTR asp_head) ^ actutils.c:1375:16: warning: 'am_isa_gap' defined but not used [-Wunused-function] static Boolean am_isa_gap(Int4 start, Int4 prevstop, Uint1 strand) ^ actutils.c:1392:13: warning: 'am_fix_strand' defined but not used [-Wunused-function] static void am_fix_strand(SeqAlignPtr sap, Uint1 strand1, Uint1 strand2) ^ actutils.c:1654:16: warning: 'SpinsConflict' defined but not used [-Wunused-function] static Boolean SpinsConflict (SQN_nPtr spin1, SQN_nPtr spin2, Int4 fuzz, Int4 strand) ^ actutils.c:2927:13: warning: 'MapBioseqToBioseqSpecial' defined but not used [-Wunused-function] static Int4 MapBioseqToBioseqSpecial(SeqAlignPtr sap, Int4 begin, Int4 fin, Int4 pos, Int4 which_end) ^ actutils.c:3132:13: warning: 'DumpAlignments' defined but not used [-Wunused-function] static void DumpAlignments (SeqAlignPtr salp) ^ actutils.c: In function 'GetOldBlastAlignmentPiece': actutils.c:3126:8: warning: 'program' may be used uninitialized in this function [-Wmaybe-uninitialized] sap = BlastTwoSequencesByLoc(slp1, slp2, program, options); ^ actutils.c: In function 'ACT_FindPeakScores': actutils.c:1342:31: warning: 'ats_newprev' may be used uninitialized in this function [-Wmaybe-uninitialized] ats_newprev->next = ats_new; ^ actutils.c:1321:28: warning: 'ats_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] ats_prev->next = ats; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF posit.c posit.c: In function 'posDemographics': posit.c:1110:17: warning: variable 'numSeqAligns' set but not used [-Wunused-but-set-variable] Int4 numseq, numSeqAligns; /*number of matching sequences and SeqAligns*/ ^ posit.c: In function 'posFreqsToMatrix': posit.c:1679:45: warning: operation on '*(*(posSearch->posPrivateMatrix + (sizetype)((long unsigned int)length * 8ul)) + (sizetype)((long unsigned int)a * 4ul))' may be undefined [-Wsequence-point] posSearch->posPrivateMatrix[length][a] = posSearch->posPrivateMatrix[length][a] = BLAST_SCORE_MIN; ^ posit.c: In function 'posComputePseudoFreqs': posit.c:1840:16: warning: variable 'lambda' set but not used [-Wunused-but-set-variable] Nlm_FloatHi lambda; /*Karlin-Altschul parameter*/ ^ posit.c: In function 'WposComputation': posit.c:1988:13: warning: variable 'numSeqAligns' set but not used [-Wunused-but-set-variable] Int4 i, numSeqAligns, numseq, qlength; ^ posit.c: In function 'posPrintInformation': posit.c:2319:8: warning: variable 'querySize' set but not used [-Wunused-but-set-variable] Int4 querySize; ^ posit.c: In function 'posFindAlignmentDimensions': posit.c:3064:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3070:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3079:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3086:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posPreprocessAlignment': posit.c:3137:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3152:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posReadAlignment': posit.c:3253:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextline, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posFindAlignmentDimensions': posit.c:3087:20: warning: 'testCountSeqs' may be used uninitialized in this function [-Wmaybe-uninitialized] testCountSeqs++; ^ posit.c: In function 'posComputeSequenceWeights': posit.c:1447:36: warning: 'intervalSigma' may be used uninitialized in this function [-Wmaybe-uninitialized] posSearch->posSigma[qplace] = intervalSigma; ^ posit.c:1424:11: warning: 'Sigma' may be used uninitialized in this function [-Wmaybe-uninitialized] if (Sigma > 0) { ^ posit.c: In function 'posReadCheckpoint': posit.c:2873:28: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] if (i < pssm->numColumns || j < pssm->numRows) { ^ posit.c:2702:11: note: 'j' was declared here Int4 i, j, c; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF lookup.c In file included from ../include/blastdef.h:922:0, from ../include/blast.h:470, from lookup.c:309: lookup.c: In function 'MegaBlastBuildLookupTable': ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1047:35: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq)) & no_bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1051:35: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq)) & no_bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1078:31: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq) | bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1082:31: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq) | bit0; ^ lookup.c:914:25: warning: variable 'extra_code' set but not used [-Wunused-but-set-variable] register Int4 ecode, extra_code; ^ lookup.c:975:10: warning: 'word_weight' may be used uninitialized in this function [-Wmaybe-uninitialized] if (word_weight >= 12) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF readdb.c readdb.c: In function 'readdb_parse_db_names': readdb.c:2498:12: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (**filenames == '"') ^ readdb.c: In function 's_GetBlastDirInfo': readdb.c:2729:32: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess] memset(blast_dir, 0, sizeof(blast_dir)); ^ readdb.c: In function 'readdb_read_alias_file': readdb.c:3162:17: warning: format '%lld' expects argument of type 'long long int *', but argument 3 has type 'Nlm_Int8 *' [-Wformat=] sscanf(ptr, "%lld", &(rdbap->len)); ^ readdb.c: In function 'FindBlastDBFileEx': readdb.c:3475:33: warning: unused variable 'envp' [-Wunused-variable] CharPtr buffer, buffer1, envp = NULL; ^ readdb.c: In function 'readdb_new_internalEx': readdb.c:3553:25: warning: unused variable 'envp' [-Wunused-variable] CharPtr charptr, envp = NULL; ^ readdb.c: In function 'readdb_get_link': readdb.c:4747:12: warning: variable 'loaded_new' set but not used [-Wunused-but-set-variable] Boolean loaded_new = FALSE; ^ readdb.c:4746:24: warning: variable 'last_used' set but not used [-Wunused-but-set-variable] ReadDBFILEPtr last, last_used, rdfp_var; ^ readdb.c: In function 'readdb_seqid2fasta': readdb.c:5231:22: warning: unused variable 'dummy_gi' [-Wunused-variable] Int4 dummy_gi = 0; /* Not used, should have been handled above. */ ^ readdb.c:5175:13: warning: unused variable 'chptr' [-Wunused-variable] CharPtr chptr = NULL; ^ readdb.c: In function 'FDBuildOldStyleDefline': readdb.c:6361:33: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess] MemSet(defline, '\0', sizeof(defline)); ^ readdb.c: In function 'FDBLoadMembershipsTable': readdb.c:8260:21: warning: variable 'fn_name' set but not used [-Wunused-but-set-variable] const char* fn_name = NULL; ^ readdb.c: In function 'SeqIdE2Index': readdb.c:8572:13: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp, ptr=NULL; ^ readdb.c:8571:11: warning: unused variable 'tmptype' [-Wunused-variable] Uint1 tmptype; ^ readdb.c: In function 'SeqIdSetE2Index': readdb.c:8876:14: warning: variable 'oldanp' set but not used [-Wunused-but-set-variable] SeqIdPtr oldanp; ^ readdb.c: In function 'Fastacmd_Search_ex': readdb.c:12072:22: warning: variable 'guess_gi' set but not used [-Wunused-but-set-variable] Int4 guess_gi = -1; ^ readdb.c: In function 'DumpOneSequence': readdb.c:12409:14: warning: unused variable 'numeric_id' [-Wunused-variable] Boolean numeric_id = GetAccessionVersionFromSeqId(accn, &gi, &id, TRUE); ^ In file included from readdb.c:2055:0: readdb.c: At top level: ../include/ncbisami.h:183:14: warning: 'PowersOfTwo' defined but not used [-Wunused-variable] static Uint4 PowersOfTwo[] = {01,02,04,010,020,040,0100,0200,0400,01000, ^ ../include/ncbisami.h:191:14: warning: 'OneBit' defined but not used [-Wunused-variable] static Uint1 OneBit[] = {0x80 , 0x40, 0x20, 0x10, 0x8, 0x4, 0x2, 0x1}; ^ In file included from ../include/sqnutils.h:51:0, from readdb.c:2062: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ readdb.c:12821:1: warning: 'readdb_preload_index' defined but not used [-Wunused-function] readdb_preload_index (ReadDBFILEPtr rdfp, Int4 first_db_seq, ^ readdb.c: In function 'readdb_get_taxonomy_names': readdb.c:5674:28: warning: 'ufp_last' may be used uninitialized in this function [-Wmaybe-uninitialized] ufp_last->next = ufp; ^ readdb.c: In function 'readdb_get_descriptor': readdb.c:6666:31: warning: 'new_defline_length' may be used uninitialized in this function [-Wmaybe-uninitialized] MemCpy(tmp_defline, new_defline, defline_length); ^ readdb.c: In function 'GetAccList': readdb.c:11813:29: warning: 'AccListLast' may be used uninitialized in this function [-Wmaybe-uninitialized] AccListLast->next = AccListTmp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbisam.c ncbisam.c: In function 'ISAMMakeStringIndex': ncbisam.c:842:22: warning: unused variable 'file_pos' [-Wunused-variable] Int4 file_pos = ftell(data->db_fd); ^ ncbisam.c: In function 'ISAMInitSearch': ncbisam.c:1399:10: warning: variable 'reserved2' set but not used [-Wunused-but-set-variable] Int4 reserved2; ^ ncbisam.c: In function 'ISAMMakeIndex': ncbisam.c:984:21: warning: 'KeyDataInfo' may be used uninitialized in this function [-Wmaybe-uninitialized] NISAMKeyDataPtr KeyDataInfo, KeyDataSamples; ^ ncbisam.c:983:14: warning: 'KeyInfo' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint4Ptr KeyInfo, KeySamples; ^ ncbisam.c: In function 'ISAMCreateDatabase': ncbisam.c:1372:12: warning: 'prevterm' may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(prevterm); ^ ncbisam.c:1331:29: warning: 'field_in' may be used uninitialized in this function [-Wmaybe-uninitialized] ErrLogPrintf("Invalidly formatted database. Database creation " ^ ncbisam.c: In function 'NISAMSearch': ncbisam.c:1814:32: warning: 'KeyDataPageStart' may be used uninitialized in this function [-Wmaybe-uninitialized] KeyDataPageStart = MemFree(KeyDataPageStart); ^ ncbisam.c:1812:28: warning: 'KeyPageStart' may be used uninitialized in this function [-Wmaybe-uninitialized] KeyPageStart = MemFree(KeyPageStart); ^ ncbisam.c:1750:36: warning: 'KeyPage' may be used uninitialized in this function [-Wmaybe-uninitialized] Key = SwapUint4(KeyPage[current]); ^ ncbisam.c:1593:24: warning: 'SampleNum' may be used uninitialized in this function [-Wmaybe-uninitialized] *Start = SampleNum * data->PageSize; ^ ncbisam.c:1618:27: note: 'SampleNum' was declared here Int4 Start = 0, Stop, SampleNum; ^ ncbisam.c: In function 'SISAMSearch': ncbisam.c:2373:8: warning: 'SampleNum' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( (SampleNum < 0) || (SampleNum >= data->NumSamples)) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbisort.c ncbisort.c: In function 'SORTFracCompare': ncbisort.c:692:12: warning: type defaults to 'int' in declaration of 'tmpa' [-Wimplicit-int] register tmpa = UCHAR(*a), tmpb = UCHAR(*b); ^ ncbisort.c:692:30: warning: type defaults to 'int' in declaration of 'tmpb' [-Wimplicit-int] register tmpa = UCHAR(*a), tmpb = UCHAR(*b); ^ In file included from ncbisort.c:83:0: ncbisort.c: At top level: ../include/ncbisrti.h:213:13: warning: 'inthandler' declared 'static' but never defined [-Wunused-function] static void inthandler(int i); ^ ncbisort.c: In function 'SORTMergeFPS': ncbisort.c:1110:10: warning: 'savealloc' may be used uninitialized in this function [-Wmaybe-uninitialized] if (savealloc < lines[ord[0]].lines[cur[ord[0]]].length + 1) { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salign.c salign.c: In function 'BandAlignTwoSeqLocsFunc': salign.c:173:13: warning: variable 'is_prot' set but not used [-Wunused-but-set-variable] Boolean is_prot; ^ salign.c: In function 'SortBlastHits': salign.c:391:15: warning: variable 'totalvalmax' set but not used [-Wunused-but-set-variable] totalvalmax = INT4_MAX, ^ salign.c: In function 'link_solution': salign.c:1188:15: warning: unused variable 'first' [-Wunused-variable] Boolean first = TRUE; ^ salign.c: In function 'SortBlastHits': salign.c:455:22: warning: 'salpdup' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignSetFree (salpdup); ^ salign.c: In function 'TranslateSeqLoc.constprop.5': salign.c:660:3: warning: 'slpp' may be used uninitialized in this function [-Wmaybe-uninitialized] return slpp; ^ salign.c: In function 'BlastTwoSeqLocs': salign.c:591:18: warning: 'strand2' may be used uninitialized in this function [-Wmaybe-uninitialized] sit->strand = strand2; ^ salign.c:589:18: warning: 'strand1' may be used uninitialized in this function [-Wmaybe-uninitialized] sit->strand = strand1; ^ salign.c: In function 'BlastBandAlignTwoSeqLocs.isra.4': salign.c:1433:17: warning: 'tail' may be used uninitialized in this function [-Wmaybe-uninitialized] tail->next = salptmp; ^ salign.c:1408:15: note: 'tail' was declared here tail, ^ salign.c:1348:38: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlens)/(float)(j-1); ^ salign.c:1301:30: note: 'stop' was declared here Int4 start, start1, stop; ^ salign.c:1348:38: warning: 'start1' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlens)/(float)(j-1); ^ salign.c:1301:22: note: 'start1' was declared here Int4 start, start1, stop; ^ salign.c:1270:38: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlen)/(float)(j-1); ^ salign.c:1229:30: note: 'stop' was declared here Int4 start, start1, stop; ^ salign.c:1270:38: warning: 'start1' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlen)/(float)(j-1); ^ salign.c:1229:22: note: 'start1' was declared here Int4 start, start1, stop; ^ salign.c: In function 'SeqLocListToSeqAlign': salign.c:1672:23: warning: 'slptmp1' may be used uninitialized in this function [-Wmaybe-uninitialized] salpnew = BandAlignTwoSeqLocs (master_slp, slp, msp); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF salptool.c salptool.c: In function 'MergeTwoDspBySIM4': salptool.c:285:10: warning: variable 'has_overlap' set but not used [-Wunused-but-set-variable] Boolean has_overlap; ^ salptool.c:281:7: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int4 gap=0,gap_1, gap_2; ^ In file included from ../include/sqnutils.h:51:0, from salptool.c:12: salptool.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salptool.c:14: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salptool.c:46:13: warning: 'SeqAnnotWrite' defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^ salptool.c:838:13: warning: 'SeqLocTrimPolyATail' defined but not used [-Wunused-function] static void SeqLocTrimPolyATail(SeqLocPtr loc_2, BioseqPtr bsp_2) { ^ salptool.c:1267:16: warning: 'need_recompute' defined but not used [-Wunused-function] static Boolean need_recompute(SeqAlignPtr align, Int4 m_len, Int4 s_len) ^ salptool.c:1453:13: warning: 'getlengthforid' defined but not used [-Wunused-function] static Int4 getlengthforid (SeqIdPtr sip) ^ salptool.c:1468:13: warning: 'showtextalign_fromalign' defined but not used [-Wunused-function] static void showtextalign_fromalign (SeqAlignPtr salp, CharPtr path, FILE *fp) ^ salptool.c:1518:24: warning: 'OrderBestHits' defined but not used [-Wunused-function] static int LIBCALLBACK OrderBestHits(Pointer ptr1, Pointer ptr2) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urkutil.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urkpcc.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urkptpf.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urkepi.c urkepi.c: In function 'PredictEpiI0': urkepi.c:214:7: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*seq] += 1; ^ urkepi.c:239:7: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = DownArrayScore (episcore, epip->epiarray[*seq]); ^ urkepi.c:240:7: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*seq] += 1; ^ urkepi.c:241:7: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = UpArrayScore (episcore, epip->epiarray[*seq]); ^ urkepi.c:263:7: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = DownArrayScore (episcore, epip->epiarray[*(seq-window)]); ^ urkepi.c:264:7: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*(seq-window)] -= 1; ^ urkepi.c:265:7: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = UpArrayScore (episcore, epip->epiarray[*(seq-window)]); ^ urkepi.c: In function 'OptimizeEpiComp': urkepi.c:605:11: warning: array subscript has type 'char' [-Wchar-subscripts] bin[seq[i]] += 1; ^ urkepi.c:621:11: warning: array subscript has type 'char' [-Wchar-subscripts] bin[seq[i]] += 1; ^ urkepi.c:651:7: warning: array subscript has type 'char' [-Wchar-subscripts] if (fbin[seq[i]] > expect) ^ urkepi.c:657:7: warning: array subscript has type 'char' [-Wchar-subscripts] if (fbin[seq[i]] > expect) ^ urkepi.c: In function 'OptimizeEpiHP': urkepi.c:782:13: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[j]] += 1; ^ urkepi.c:797:13: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[j]] += 1; ^ urkepi.c:837:11: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] -= 1; ^ urkepi.c: In function 'OptimizeEpiProbFunc': urkepi.c:982:13: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] += 1; ^ urkepi.c:994:13: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] += 1; ^ urkepi.c: In function 'FilterEpi': urkepi.c:1053:21: warning: 'right' may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->right = right; ^ urkepi.c:936:56: note: 'right' was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^ urkepi.c:1052:20: warning: 'left' may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->left = left; ^ urkepi.c:936:50: note: 'left' was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urkfltr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urkdust.c urkdust.c: In function 'DustMe_h': urkdust.c:196:42: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (dcvp->curlevel <= newlevel) && dcvp->curend == loop+1) ^ urkdust.c: In function 'DustForGraph': urkdust.c:776:17: warning: variable 'drphead' set but not used [-Wunused-but-set-variable] DustRegionPtr drphead; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urksigu.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seg.c seg.c: In function 'getprob': seg.c:935:15: warning: 'ans2' may be used uninitialized in this function [-Wmaybe-uninitialized] ans = ans1 + ans2 - totseq; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urkbias.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urkcnsrt.c urkcnsrt.c:1203:13: warning: 'ScanFrame' defined but not used [-Wunused-function] static void ScanFrame (BioseqPtr bsp, SeqLocPtr slp, Int4 frame, ^ urkcnsrt.c: In function 'Scan3Frames': urkcnsrt.c:1312:34: warning: 'length' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, n, start, stop, length, chunk; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF urktree.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pseed3.c pseed3.c: In function 'SeedPruneHitsFromSeedReturn': pseed3.c:230:17: warning: variable 'curSegs' set but not used [-Wunused-but-set-variable] DenseSegPtr curSegs, testSegs; /*Used to extract ids from curSeqAlign, testSeqAlign*/ ^ pseed3.c: In function 'seedEngineCore': pseed3.c:507:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (pattern = get_a_pat(patfp, &pname, occurArray, hitArray, &numPatOccur, &effectiveOccurrences, program_flag, unfilter_query, query, search->sbp->query_length, is_dna, patternSearch, seedSearch, showDiagnostics, &(search->error_return), info_vnp, hitArraySz)) { ^ pseed3.c: In function 'output_hits': pseed3.c:1202:10: warning: variable 'posBaseIndex' set but not used [-Wunused-but-set-variable] Int4 posBaseIndex; /*loop index for copying pos results arrays*/ ^ pseed3.c: In function 'init_order': pseed3.c:1483:2: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->order[seedSearch->pchars[i]] = i; ^ pseed3.c:1483:2: warning: array subscript has type 'char' [-Wchar-subscripts] pseed3.c:1487:9: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->charMultiple[i] = 0; ^ pseed3.c:1489:2: warning: array subscript has type 'char' [-Wchar-subscripts] if (seedSearch->standardProb[i] > seedepsilon) { ^ pseed3.c:1490:4: warning: array subscript has type 'char' [-Wchar-subscripts] matrixRow = matrix[i]; ^ pseed3.c:1493:6: warning: array subscript has type 'char' [-Wchar-subscripts] if (seedSearch->standardProb[j] > seedepsilon) ^ pseed3.c:1494:8: warning: array subscript has type 'char' [-Wchar-subscripts] rowSum += seedSearch->standardProb[j]*exp(-(seedSearch->paramLambda)*matrixRow[j]); ^ pseed3.c:1494:8: warning: array subscript has type 'char' [-Wchar-subscripts] pseed3.c:1496:4: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->charMultiple[i] = rowSum; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pattern1.c pattern1.c: In function 'init_pattern': pattern1.c:286:6: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability = seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c:303:6: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability += seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c:317:6: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability -= seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c: In function 'find_hitsS_DNA': pattern1.c:534:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (tmp = (prefixMatchedBitPattern & patternSearch->DNAwhichPrefixPosPtr[seq[i]])) { ^ pattern1.c:547:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (tmp = (prefixMatchedBitPattern & patternSearch->DNAwhichPrefixPosPtr[seq[i]])) { ^ pattern1.c: At top level: pattern1.c:744:8: warning: return type defaults to 'int' [-Wreturn-type] static and(Int4 *result, Int4 *a, Int4 *b, patternSearchItems *patternSearch) ^ pattern1.c: In function 'and': pattern1.c:750:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (result[i] = (a[i] & b[i])) ^ pattern1.c: In function 'align': pattern1.c:1102:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (leftd >= 1) ^ pattern1.c: In function 'get_patL': pattern1.c:1348:42: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] *end = wordIndex*BITS_PACKED_PER_WORD+j; ^ pattern1.c: In function 'align': pattern1.c:1158:8: warning: 'CDrow' may be used uninitialized in this function [-Wmaybe-uninitialized] score = (CDrow-1)->CC; ^ pattern1.c: In function 'get_patLL': pattern1.c:1393:5: warning: 'pos' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j = 0; j < pos; j+= wordIndex) { ^ pattern1.c: In function 'init_pattern': pattern1.c:192:11: warning: 'tj' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 tj; /*temporary copy of j*/ ^ pattern1.c: In function 'align_of_pattern': pattern1.c:1506:30: warning: 'data' may be used uninitialized in this function [-Wmaybe-uninitialized] local_score += ALIGN_B(querySeq-1, dbSeq-1, hitArray1[wordIndex+1], hitArray2[wordIndex+1], ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF impatool.c impatool.c: In function 'IMPALAPrintHelp': impatool.c:301:20: warning: 'ret_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] ret_buffer = MemFree(ret_buffer); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF posit2.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mbalign.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF vecscrn.c vecscrn.c: In function 'VSPrintOverviewFromSeqLocs': vecscrn.c:1081:11: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (tmp->next) ^ vecscrn.c: In function 'VSPrintListFromSeqLocs': vecscrn.c:1191:8: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp = tmp->next; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF mblast.c mblast.c: In function 'BioseqMegaBlastEngineCore': mblast.c:961:12: warning: statement with no effect [-Wunused-value] stop_timer("BioseqBlastEngineCore: before do_the_blast_run()"); ^ mblast.c:987:12: warning: statement with no effect [-Wunused-value] stop_timer("MegaBlastEngineCore: after do_the_blast_run()"); ^ mblast.c:942:14: warning: variable 'seqalign' set but not used [-Wunused-but-set-variable] SeqAlignPtr seqalign, PNTR seqalignp; ^ mblast.c: In function 'MegaBlastSetUpSearchInternalByLoc': mblast.c:1167:16: warning: variable 'avglen' set but not used [-Wunused-but-set-variable] Nlm_FloatHi avglen; ^ mblast.c: In function 'MegaBlastPackAlignmentsByQuery': mblast.c:1829:14: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp; ^ mblast.c: In function 'MegaBlastWordFinder_disc_1b': mblast.c:2372:32: warning: variable 'mask' set but not used [-Wunused-but-set-variable] register Int4 s_off, ecode, mask, q_off, extra_code; ^ mblast.c: In function 'MegaBlastPackAlignmentsByQuery': mblast.c:1864:19: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] sap->next = seqalign_var; ^ mblast.c: In function 'MBToGapXEditScript': mblast.c:3490:18: warning: 'esp_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] esp_prev->next = esp; ^ mblast.c:3475:22: warning: 'esp_start' may be used uninitialized in this function [-Wmaybe-uninitialized] GapXEditScriptPtr esp_start, esp, esp_prev; ^ mblast.c: In function 'MegaBlastWordFinder_disc': mblast.c:2250:53: warning: 'ecode2' may be used uninitialized in this function [-Wmaybe-uninitialized] (((PV_ARRAY_TYPE) 1)<<(ecode2&PV_ARRAY_MASK))) == 0))) { ^ mblast.c:2117:51: warning: 'ecode1' may be used uninitialized in this function [-Wmaybe-uninitialized] (((PV_ARRAY_TYPE) 1)<<(ecode1&PV_ARRAY_MASK))) == 0) ^ mblast.c: In function 'MegaBlastWordFinder': mblast.c:2620:54: warning: 'ecode2' may be used uninitialized in this function [-Wmaybe-uninitialized] (((PV_ARRAY_TYPE) 1)<<(ecode2&PV_ARRAY_MASK))) == 0))) { ^ mblast.c:2373:17: note: 'ecode2' was declared here Int4 ecode1, ecode2; ^ mblast.c:2475:52: warning: 'ecode1' may be used uninitialized in this function [-Wmaybe-uninitialized] (((PV_ARRAY_TYPE) 1)<<(ecode1&PV_ARRAY_MASK))) == 0) ^ mblast.c:2373:9: note: 'ecode1' was declared here Int4 ecode1, ecode2; ^ mblast.c: In function 'MegaBlastGapInfoToSeqAlign': mblast.c:3504:16: warning: 'seqalign' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignPtr seqalign, seqalign_var, sap; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF rpsutil.c rpsutil.c: In function 'RPSBlastSearchLight': rpsutil.c:1838:10: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ rpsutil.c: In function 'RPSBgetCddHits': rpsutil.c:2210:21: warning: variable 'found_score' set but not used [-Wunused-but-set-variable] Boolean found_score = FALSE; ^ In file included from ../include/sqnutils.h:51:0, from rpsutil.c:282: rpsutil.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ rpsutil.c: In function 'getAuxInformation': rpsutil.c:398:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%s",underlyingMatrixName); ^ rpsutil.c:404:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", gap_open); ^ rpsutil.c:405:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", gap_extend); ^ rpsutil.c:406:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Kungapped); ^ rpsutil.c:407:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Hungapped); ^ rpsutil.c:408:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^ rpsutil.c:409:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &dbLength); ^ rpsutil.c:410:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%lf", &privateScalingFactor); ^ rpsutil.c:415:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^ rpsutil.c:416:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &(rpsinfo->karlinK[index])); ^ rpsutil.c: In function 'RPSAlignTraceBack': rpsutil.c:1444:32: warning: 'posMatrix' may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ^ rpsutil.c:1433:22: warning: 'rev_subject_length' may be used uninitialized in this function [-Wmaybe-uninitialized] seqalign = BlastGetGapAlgnTbck (search, 0, TRUE, FALSE, ^ rpsutil.c: In function 'RPSCalcEValue': rpsutil.c:1269:30: warning: 'posMatrix' may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF kappa.c kappa.c: In function 'Kappa_SequenceGetProteinRange': kappa.c:1399:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ kappa.c: At top level: kappa.c:2203:5: warning: initialization from incompatible pointer type [enabled by default] Kappa_SequenceGetRange, ^ kappa.c:2203:5: warning: (near initialization for 'redo_align_callbacks.get_range') [enabled by default] gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF xmlblast.c xmlblast.c: In function 'PSIXmlInit': xmlblast.c:1239:13: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ xmlblast.c: In function 'BXMLGetSeqLineForStdSeg': xmlblast.c:491:34: warning: 'genetic_code2' may be used uninitialized in this function [-Wmaybe-uninitialized] residue1 = AAForCodon(codon, master_is_translated ? genetic_code2 : genetic_code1); ^ xmlblast.c: In function 'BXMLSeqAlignToHits': xmlblast.c:867:36: warning: 'hspp' may be used uninitialized in this function [-Wmaybe-uninitialized] if((hspp->next = BXMLGetHspFromSeqAlign(sap2, is_aa, chain, ^ xmlblast.c: In function 'SeqAlignToHits': xmlblast.c:1646:24: warning: 'hspp' may be used uninitialized in this function [-Wmaybe-uninitialized] hspp->next = GetHspFromSeqAlign(sap2, ungapped, &hsp_count); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bxmlobj.c bxmlobj.c: In function 'BlastOutputAsnRead': bxmlobj.c:96:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'ParametersAsnRead': bxmlobj.c:361:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:360:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ bxmlobj.c: In function 'IterationAsnRead': bxmlobj.c:613:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'StatisticsAsnRead': bxmlobj.c:829:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:828:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ bxmlobj.c: In function 'HitAsnRead': bxmlobj.c:1039:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'HspAsnRead': bxmlobj.c:1244:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:1243:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF dotseq.c dotseq.c:97:3: warning: missing braces around initializer [-Wmissing-braces] 4, -1, -2, -2, 0, -1, -1, 0, -2, -1, -1, -1, -1, -2, -1, 1, 0, -3, -2, 0, -2, -1, 0, -4, ^ dotseq.c:97:3: warning: (near initialization for 'DOTblosum62[0]') [-Wmissing-braces] dotseq.c: In function 'DOT_BuildPLookup': dotseq.c:887:31: warning: variable 'found_ambig' set but not used [-Wunused-but-set-variable] Boolean EXACTMATCH, found_ambig, saved_index = FALSE; ^ dotseq.c:885:19: warning: unused variable 'threshold' [-Wunused-variable] Int4 threshold=13; /* one-hit heuristics T must be at least 13*/ ^ dotseq.c:883:19: warning: unused variable 'index' [-Wunused-variable] Int4 index = 0; ^ dotseq.c: In function 'DOT_ComputeHits': dotseq.c:1043:47: warning: variable 'q_end' set but not used [-Wunused-but-set-variable] Uint1Ptr s, subject0, s_end, q_end; ^ dotseq.c:1041:19: warning: unused variable 'saved_index' [-Wunused-variable] Boolean saved_index = FALSE; ^ dotseq.c:1039:19: warning: unused variable 'threshold' [-Wunused-variable] Int4 threshold=13; ^ dotseq.c: In function 'DOT_SPI_FindBestAlnByDotPlot': dotseq.c:2016:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ dotseq.c:2015:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ dotseq.c:2014:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from dotseq.c:87: dotseq.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dotseq.c: In function 'DOT_BuildHitList': dotseq.c:1310:19: warning: 'index' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 index; ^ dotseq.c:1309:19: warning: 'hitlist' may be used uninitialized in this function [-Wmaybe-uninitialized] DOTDiagPtr PNTR hitlist; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF spidey.c spidey.c: In function 'SPI_PrintResult': spidey.c:1736:21: warning: variable 'offset' set but not used [-Wunused-but-set-variable] Int4 offset; ^ spidey.c: In function 'SPI_AlnSinglemRNAToPieces': spidey.c:2850:19: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] if (spot->from == spot->to == 0) ^ spidey.c: In function 'SPI_FillInLastmRNAHoles': spidey.c:6295:21: warning: variable 'internal' set but not used [-Wunused-but-set-variable] Boolean internal; ^ spidey.c: In function 'SPI_FindBestAlnByDotPlot': spidey.c:6441:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ spidey.c:6440:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ spidey.c:6439:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ spidey.c: In function 'SPI_ConnectAlnPieces': spidey.c:7810:30: warning: variable 'tmparray' set but not used [-Wunused-but-set-variable] SPI_FragPtr PNTR tmparray; ^ spidey.c:7796:25: warning: variable 'sfpprev' set but not used [-Wunused-but-set-variable] SPI_FragPtr sfpprev; ^ spidey.c: In function 'SPI_AdjustSplicesInPieces': spidey.c:8444:23: warning: variable 'minus' set but not used [-Wunused-but-set-variable] Boolean minus; ^ spidey.c: In function 'SPI_CheckMrnaOrder': spidey.c:10292:35: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] if ((ival->strand == Seq_strand_plus == ival2->strand ^ spidey.c:10296:38: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] || (ival->strand == Seq_strand_minus == ival2->strand ^ spidey.c:10309:35: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] if ((ival->strand == Seq_strand_plus == ival2->strand ^ spidey.c:10311:38: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] || (ival->strand == Seq_strand_plus == ival2->strand ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/spidey.h:103, from spidey.c:259: spidey.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ spidey.c: In function 'SPI_GetProteinFrommRNA': spidey.c:9771:22: warning: 'c3start' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = 2+3*c3start; ^ spidey.c:9765:22: warning: 'c2start' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = 1+3*c2start; ^ spidey.c:9759:20: warning: 'c1start' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = 3*c1start; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF motif.c motif.c: In function 'MOT_FindPolyA': motif.c:86:18: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^ motif.c: In function 'MOT_FindKozak': motif.c:216:18: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/motif.h:48, from motif.c:47: motif.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blfmtutl.c blfmtutl.c: In function 'BlastPrintTabularResults': blfmtutl.c:1113:13: warning: 'alignments_count' may be used uninitialized in this function [-Wmaybe-uninitialized] if (--alignments_count < 0) ^ blfmtutl.c:1331:19: warning: 's_end' may be used uninitialized in this function [-Wmaybe-uninitialized] s_end += s_shift; ^ blfmtutl.c:1330:21: warning: 's_start' may be used uninitialized in this function [-Wmaybe-uninitialized] s_start += s_shift; ^ blfmtutl.c:1329:19: warning: 'q_end' may be used uninitialized in this function [-Wmaybe-uninitialized] q_end += q_shift; ^ blfmtutl.c:1328:21: warning: 'q_start' may be used uninitialized in this function [-Wmaybe-uninitialized] q_start += q_shift; ^ blfmtutl.c:1072:20: warning: 'query_id' may be used uninitialized in this function [-Wmaybe-uninitialized] if (SeqIdComp(query_id, old_query_id) != SIC_YES) { ^ blfmtutl.c: In function 'BlastSetUserErrorString': blfmtutl.c:1392:26: warning: 'title' may be used uninitialized in this function [-Wmaybe-uninitialized] CharPtr buf_start, ptr, title; ^ rm -f libncbitool.a ar cru libncbitool.a csim.o db_slist.o dust.o blast_dust.o falign.o g_any.o sim2.o sim3.o sim4.o simutil.o slist.o sec.o tfuns.o toasn3.o toporg.o pobutil.o stsutil.o suggadj.o suggest.o suggslp.o blast.o blastutl.o blastool.o blastconcat.o splutil.o gapxdrop.o bandalg0.o bandalg1.o bandalg2.o bandalg3.o bandalg4.o bandalg5.o bandalgn.o blastkar.o actutils.o posit.o lookup.o readdb.o ncbisam.o ncbisort.o salign.o salptool.o urkutil.o urkpcc.o urkptpf.o urkepi.o urkfltr.o urkdust.o urksigu.o seg.o urkbias.o urkcnsrt.o urktree.o pseed3.o pattern1.o impatool.o posit2.o mbalign.o vecscrn.o mblast.o rpsutil.o kappa.o xmlblast.o bxmlobj.o dotseq.o spidey.o motif.o blfmtutl.o cp -p libncbitool.a ../lib ranlib ../lib/libncbitool.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF matrix_frequency_data.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF compo_mode_condition.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF composition_adjustment.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF nlm_linear_algebra.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF optimize_target_freq.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF compo_heap.c compo_heap.c:142:1: warning: 's_CompoHeapIsValid' defined but not used [-Wunused-function] s_CompoHeapIsValid(BlastCompo_HeapRecord * heapArray, int i, int n) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF smith_waterman.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF redo_alignment.c redo_alignment.c:184:1: warning: 's_AlignmentsAreSorted' defined but not used [-Wunused-function] s_AlignmentsAreSorted(BlastCompo_Alignment * alignments) ^ redo_alignment.c:199:1: warning: 's_DistinctAlignmentsLength' defined but not used [-Wunused-function] s_DistinctAlignmentsLength(BlastCompo_Alignment * list) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF unified_pvalues.c rm -f libblastcompadj.a ar cru libblastcompadj.a matrix_frequency_data.o compo_mode_condition.o composition_adjustment.o nlm_linear_algebra.o optimize_target_freq.o compo_heap.o smith_waterman.o redo_alignment.o unified_pvalues.o cp -p libblastcompadj.a ../lib ranlib ../lib/libblastcompadj.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gdfontg.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gdfontmb.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gdfontt.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pictogif.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gdfontl.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gdfonts.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DWIN_GIF -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbidrwg.c ncbidrwg.c: In function 'Nlm_ClearRgn': ncbidrwg.c:6081:16: warning: variable 'ntool' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool; ^ ncbidrwg.c: In function 'Nlm_DiffRgn': ncbidrwg.c:6273:16: warning: variable 'ntool3' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool3; ^ ncbidrwg.c:6272:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6271:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_XorRgn': ncbidrwg.c:6324:16: warning: variable 'ntool3' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool3; ^ ncbidrwg.c:6323:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6322:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_EqualRgn': ncbidrwg.c:6353:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6352:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_EmptyRgn': ncbidrwg.c:6381:17: warning: variable 'ntool' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool; ^ ncbidrwg.c: In function 'Nlm_CopyPixmap': ncbidrwg.c:7040:25: warning: variable 'height' set but not used [-Wunused-but-set-variable] Nlm_Int2 height; ^ ncbidrwg.c:7039:25: warning: variable 'width' set but not used [-Wunused-but-set-variable] Nlm_Int2 width; ^ ncbidrwg.c: In function 'Nlm_GetColorRGB': ncbidrwg.c:1373:3: warning: 'i' may be used uninitialized in this function [-Wmaybe-uninitialized] return (Nlm_Uint4)i; ^ rm -f libvibgif.a ar cru libvibgif.a gdfontg.o gdfontmb.o gdfontt.o pictogif.o gdfontl.o gdfonts.o ncbidrwg.o drawing.o mapping.o picture.o ncbimain.o cp -p libvibgif.a ../lib ranlib ../lib/libvibgif.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF algorend.c algorend.c: In function 'ColorFromSS': algorend.c:893:10: warning: unused variable 'rsult' [-Wunused-variable] Int2 rsult = 0; ^ algorend.c: In function 'Cn3D_RenWire': algorend.c:1400:10: warning: unused variable 'pmldThis' [-Wunused-variable] PMLD pmldThis = NULL; ^ algorend.c:1399:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ algorend.c:1398:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ algorend.c: In function 'Cn3D_ColSeqCons': algorend.c:1795:24: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] pars->ConsColAlg = (Nlm_Int2) GetObjectExtra(i); ^ algorend.c: In function 'RenderObject': algorend.c:3135:25: warning: variable 'fZTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3135:19: warning: variable 'fYTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3135:13: warning: variable 'fXTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3134:29: warning: variable 'fZFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c:3134:21: warning: variable 'fYFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c:3134:13: warning: variable 'fXFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c: In function 'RenderLabel': algorend.c:3393:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ algorend.c: In function 'RenderBond': algorend.c:3554:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent = NULL; ^ algorend.c: In function 'RenderHalfWormBond': algorend.c:3673:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent; ^ algorend.c:3671:24: warning: variable 'pmad2' set but not used [-Wunused-but-set-variable] PMAD pmad0, pmad1, pmad2, pmad3; ^ algorend.c: In function 'RenderAnAtom': algorend.c:3758:10: warning: unused variable 'pmadFrom' [-Wunused-variable] PMAD pmadFrom = NULL; ^ algorend.c:3757:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent = NULL; ^ algorend.c: In function 'RenderAllAtom': algorend.c:3829:9: warning: variable 'iMenu' set but not used [-Wunused-but-set-variable] int iMenu; ^ algorend.c:3815:11: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c:3811:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ algorend.c: In function 'RenderGraph': algorend.c:4498:10: warning: unused variable 'bReservedThis' [-Wunused-variable] Byte bReservedThis = 0; ^ algorend.c: In function 'LabelChainTermini': algorend.c:4772:14: warning: unused variable 'pmbdThis' [-Wunused-variable] PMBD pmbdThis = NULL; ^ algorend.c:4771:15: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c: In function 'RenderMolecule': algorend.c:4871:11: warning: variable 'pdnmmThis' set but not used [-Wunused-but-set-variable] PDNMM pdnmmThis = NULL; ^ algorend.c: In function 'fnARLoop': algorend.c:5556:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ algorend.c: In function 'AlgorithmicRendering': algorend.c:5684:10: warning: unused variable 'i' [-Wunused-variable] Int2 i = 0; ^ algorend.c:5683:10: warning: unused variable 'Cn3d_LayerNow_sofar' [-Wunused-variable] Int2 Cn3d_LayerNow_sofar = 0; ^ algorend.c: In function 'Do3DOrigin': algorend.c:5756:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ algorend.c:5751:13: warning: variable 'fTo' set but not used [-Wunused-but-set-variable] FloatLo fTo[3]; ^ algorend.c:5750:13: warning: variable 'fFrom' set but not used [-Wunused-but-set-variable] FloatLo fFrom[3]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from algorend.c:598: algorend.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ algorend.c:717:16: warning: 'Cn3d_CopyToNode' defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^ algorend.c:2265:13: warning: 'LabelGroupOnOffProc' defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^ algorend.c: In function 'RenderLabel': algorend.c:3493:14: warning: 'iX' may be used uninitialized in this function [-Wmaybe-uninitialized] AddText3D(pic, (Segment3D) paldPrim->pGraphic, (BigScalar) 0, ^ algorend.c:3493:14: warning: 'iY' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:3493:14: warning: 'iZ' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:3448:15: warning: 'fZCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fZCen += fZt / l; ^ algorend.c:3447:15: warning: 'fYCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fYCen += fYt / l; ^ algorend.c:3446:15: warning: 'fXCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fXCen += fXt / l; ^ algorend.c:3449:41: warning: 'fZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fYCen - fYFrom) * (fZCen - fZTo) - (fZCen - fZFrom) * (fYCen - fYTo); ^ algorend.c:3449:77: warning: 'fYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fYCen - fYFrom) * (fZCen - fZTo) - (fZCen - fZFrom) * (fYCen - fYTo); ^ algorend.c:3450:41: warning: 'fXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fZCen - fZFrom) * (fXCen - fXTo) - (fXCen - fXFrom) * (fZCen - fZTo); ^ algorend.c:3449:58: warning: 'fZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fYCen - fYFrom) * (fZCen - fZTo) - (fZCen - fZFrom) * (fYCen - fYTo); ^ algorend.c:3449:22: warning: 'fYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fYCen - fYFrom) * (fZCen - fZTo) - (fZCen - fZFrom) * (fYCen - fYTo); ^ algorend.c:3450:58: warning: 'fXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fZCen - fZFrom) * (fXCen - fXTo) - (fXCen - fXFrom) * (fZCen - fZTo); ^ algorend.c: In function 'MasterChangeRenderProc.isra.1': algorend.c:1316:33: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] pars->SolventRender = k; ^ algorend.c: In function 'RenderObject': algorend.c:3260:22: warning: 'iXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] AddCylinder3D(pic, NULL, (BigScalar) pmodThis, ^ algorend.c:3260:22: warning: 'iYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:3260:22: warning: 'iZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:3260:22: warning: 'iXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:3260:22: warning: 'iYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:3260:22: warning: 'iZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c: In function 'Do3DOrigin': algorend.c:5792:18: warning: 'iXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] AddLine3D(p3d, NULL, (BigScalar) 0, Cn3d_LayerNow, ^ algorend.c:5792:18: warning: 'iYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:5792:18: warning: 'iZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:5792:18: warning: 'iXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:5792:18: warning: 'iYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] algorend.c:5792:18: warning: 'iZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dmsel.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dopen.c cn3dopen.c: In function 'Cn3D_OpenStart': cn3dopen.c:722:10: warning: unused variable 'iBioseq' [-Wunused-variable] Int4 iBioseq = 0; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:1000:19: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dopen.c:989:25: warning: unused variable 'pbsasThis' [-Wunused-variable] BiostrucAlignSeqPtr pbsasThis = NULL; ^ cn3dopen.c: In function 'Cn3D_NetOpenBiostruc': cn3dopen.c:1310:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dopen.c:412: cn3dopen.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from cn3dopen.c:413: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dopen.c:430:15: warning: 'Cn3D_wOpen' defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^ cn3dopen.c:431:15: warning: 'Cn3D_bOpenBrowse' defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:528:28: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] if(am_guess_numrows(salp) > 2) return sap; ^ cn3dopen.c:513:15: note: 'salp' was declared here SeqAlign *salp; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dsave.c cn3dsave.c: In function 'Cn3D_ExportAsnNow': cn3dsave.c:375:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dsave.c:372:24: warning: variable 'pbsfThis' set but not used [-Wunused-but-set-variable] BiostrucFeaturePtr pbsfThis; ^ cn3dsave.c:366:10: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdSlave = NULL, pmsdMaster = NULL; ^ cn3dsave.c:362:27: warning: variable 'FirstSlave' set but not used [-Wunused-but-set-variable] Boolean iCn3d = TRUE, FirstSlave = FALSE; ^ cn3dsave.c:357:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveBiostruc': cn3dsave.c:524:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:523:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dsave.c:518:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_ExportDictNow': cn3dsave.c:598:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c:596:10: warning: unused variable 'iCount' [-Wunused-variable] Int4 iCount = 0; ^ cn3dsave.c: In function 'Cn3D_SaveDictionary': cn3dsave.c:629:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:624:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveSub': cn3dsave.c:688:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ In file included from cn3dsave.c:165:0: cn3dsave.c: At top level: ../include/asnmime.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^ ../include/asnmime.h:117:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/asnmime.h:118:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnmime.h:119:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dsave.c:184:15: warning: 'Cn3D_bFeatOn' defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^ cn3dsave.c: In function 'Cn3D_GetSubSet.isra.1': cn3dsave.c:289:24: warning: 'isep' may be used uninitialized in this function [-Wmaybe-uninitialized] isep->next = SeqEntryNew(); ^ cn3dsave.c: In function 'Cn3D_ExportAsnNow': cn3dsave.c:943:27: warning: 'pUFprev' may be used uninitialized in this function [-Wmaybe-uninitialized] pUFprev->next = pUF; ^ cn3dsave.c:900:23: note: 'pUFprev' was declared here UserFieldPtr pUF, pUFprev; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dxprt.c cn3dxprt.c: In function 'Cn3D_ExportPDB': cn3dxprt.c:209:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:208:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:203:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportKin': cn3dxprt.c:381:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:380:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:375:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportSub': cn3dxprt.c:513:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dwin.c cn3dwin.c:734:3: warning: missing braces around initializer [-Wmissing-braces] 255, 255, 255, /* default 0 */ ^ cn3dwin.c:734:3: warning: (near initialization for 'Cn3d_PaletteRGB[0]') [-Wmissing-braces] cn3dwin.c: In function 'Viewer3DGroups': cn3dwin.c:1728:10: warning: unused variable 'groups' [-Wunused-variable] Int2 groups = 0; ^ cn3dwin.c: In function 'Viewer3DViewer': cn3dwin.c:1784:10: warning: unused variable 'groups' [-Wunused-variable] Int2 groups = 0; ^ cn3dwin.c: In function 'Cn3D_AlignEdit': cn3dwin.c:1936:10: warning: unused variable 'iCount' [-Wunused-variable] Int2 iCount = 0; ^ cn3dwin.c:1935:10: warning: variable 'pmmdThis' set but not used [-Wunused-but-set-variable] PMMD pmmdThis = NULL; ^ cn3dwin.c:1933:17: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp = NULL; ^ cn3dwin.c:1931:29: warning: variable 'pmsdSlave' set but not used [-Wunused-but-set-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dwin.c:1930:11: warning: unused variable 'pdnmsSlave' [-Wunused-variable] PDNMS pdnmsSlave = NULL; ^ cn3dwin.c: In function 'Cn3D_Menus': cn3dwin.c:2131:11: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] (Nlm_VoidPtr) i, NULL); ^ In file included from ../include/sqnutils.h:51:0, from ../include/udviewer.h:219, from cn3dwin.c:665: cn3dwin.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/udviewer.h:228, from cn3dwin.c:665: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dwin.c:682:13: warning: 'Cn3D_iLabelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^ cn3dwin.c:688:13: warning: 'Cn3D_iModelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^ cn3dwin.c:922:13: warning: 'Cn3D_ZoomCB' defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^ cn3dwin.c:929:13: warning: 'Cn3D_MoveCB' defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^ cn3dwin.c:1428:13: warning: 'HLatom_MA' defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^ cn3dwin.c:1626:13: warning: 'HLmolecule_MA' defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dentr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dmsg.c cn3dmsg.c: In function 'SeqStrucMediaMsgFunc': cn3dmsg.c:593:19: warning: variable 'omudp' set but not used [-Wunused-but-set-variable] OMUserDataPtr omudp = NULL; ^ In file included from ../include/sqnutils.h:51:0, from cn3dmsg.c:267: cn3dmsg.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmsg.c:271: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dmatn.c cn3dmatn.c: In function 'FindMM': cn3dmatn.c:217:29: warning: unused variable 'pdnmsThisSlave' [-Wunused-variable] PDNMS pdnmsThis = NULL, pdnmsThisSlave = NULL; ^ cn3dmatn.c: In function 'DoMediaHL': cn3dmatn.c:249:10: warning: variable 'MainAtom' set but not used [-Wunused-but-set-variable] Byte MainAtom = 0; ^ cn3dmatn.c:247:10: warning: unused variable 'paldThis' [-Wunused-variable] PALD paldThis = NULL; ^ cn3dmatn.c:246:11: warning: unused variable 'pvnalThis' [-Wunused-variable] PVNAL pvnalThis = NULL; ^ cn3dmatn.c:245:10: warning: unused variable 'pmadThis' [-Wunused-variable] PMAD pmadThis = NULL; ^ cn3dmatn.c:244:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ cn3dmatn.c: In function 'Cn3DCheckAndDoHighlight': cn3dmatn.c:372:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmatn.c:371:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dmodl.c cn3dmodl.c: In function 'Cn3DCheckNoSingleHighlight': cn3dmodl.c:353:11: warning: unused variable 'pdnmgThis' [-Wunused-variable] PDNMG pdnmgThis = NULL; ^ cn3dmodl.c: In function 'Cn3DCheckHighlighted': cn3dmodl.c:364:29: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dmodl.c: In function 'Cn3D_ReSetVisibleStatus': cn3dmodl.c:508:10: warning: unused variable 'pmgd' [-Wunused-variable] PMGD pmgd = NULL; ^ cn3dmodl.c:507:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:506:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'fnAlignList': cn3dmodl.c:996:25: warning: unused variable 'itemtype' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:996:11: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:995:14: warning: unused variable 'sipThis' [-Wunused-variable] SeqIdPtr sipThis = NULL; ^ cn3dmodl.c:993:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SynchronizeModVisibleStatus': cn3dmodl.c:1065:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:1064:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SetResidueVisibilities': cn3dmodl.c:1201:11: warning: unused variable 'pvnmoThis' [-Wunused-variable] PVNMO pvnmoThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmodl.c:319: cn3dmodl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dmodl.c:323: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dshim.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dmesh.c cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:103:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmesh.c: In function 'Cn3D_OpenMesh': cn3dmesh.c:151:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:111:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d", &(Mesh.NumVert), &(Mesh.NumEdge), ^ cn3dmesh.c:119:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%lf %lf %lf %lf %lf %lf %f %f %f %d %d %d", ^ cn3dmesh.c:129:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d", &Mesh.Edges[i].Vertex[0], ^ cn3dmesh.c:133:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d %d %d %d %d", &Mesh.Tri[i].Edge[0], ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF cn3dstyl.c cn3dstyl.c: In function 'GetThisSpecialAlgorRenderSet': cn3dstyl.c:459:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'GetSpecialAlgorRenderSet': cn3dstyl.c:641:10: warning: unused variable 'parsThis' [-Wunused-variable] PARS parsThis = NULL; ^ cn3dstyl.c:640:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ChangeSpecialLabelsProc': cn3dstyl.c:866:44: warning: unused variable 'PDBOn' [-Wunused-variable] Boolean NumOn = FALSE, NameOn = FALSE, PDBOn = FALSE, WhiteOn = ^ cn3dstyl.c: In function 'lFeatureEditedAction': cn3dstyl.c:1136:10: warning: unused variable 'val' [-Wunused-variable] Int4 val = 0; ^ cn3dstyl.c: In function 'bFeatureMoveAction': cn3dstyl.c:1153:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'bFeatureEditAction': cn3dstyl.c:1176:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ModelControls': cn3dstyl.c:1364:19: warning: variable 'ppt13' set but not used [-Wunused-but-set-variable] PrompT ppt12, ppt13, ppt14; ^ cn3dstyl.c:1362:36: warning: variable 'ppt5' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c:1362:12: warning: variable 'ppt1' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c: In function 'GetBiostrucFeatureLocationForHihglightedResidues': cn3dstyl.c:1728:30: warning: variable 'SingleInterval' set but not used [-Wunused-but-set-variable] Boolean Started = FALSE, SingleInterval, UserDefinedFeatureFound = ^ cn3dstyl.c:1725:20: warning: variable 'iMolCurrent' set but not used [-Wunused-but-set-variable] Int2 iMol = 0, iMolCurrent = 0; ^ cn3dstyl.c: In function 'MakeBiostrucFeatureSetForUserDefinedFeature': cn3dstyl.c:2122:60: warning: unused variable 'bsfsp_tail' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c:2122:41: warning: unused variable 'bsfsp_head' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c: In function 'GetUserDefinedFeature': cn3dstyl.c:2196:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'Cn3DIndexUserDefinedFeature': cn3dstyl.c:2551:23: warning: variable 'sfpThis' set but not used [-Wunused-but-set-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c:2549:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dstyl.c:2548:11: warning: unused variable 'pdnmmHead' [-Wunused-variable] PDNMM pdnmmHead = NULL; ^ cn3dstyl.c:2547:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dstyl.c:89: cn3dstyl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dstyl.c:144:14: warning: 'Cn3D_pupModelStyleItem' defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^ cn3dstyl.c:149:15: warning: 'bResetFeatureTitle' defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^ cn3dstyl.c:456:30: warning: 'GetThisSpecialAlgorRenderSet' defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^ cn3dstyl.c: In function 'CopyLocation': cn3dstyl.c:496:27: warning: 'rsipNewHead' may be used uninitialized in this function [-Wmaybe-uninitialized] rspNew->data.ptrvalue = (VoidPtr) rsipNewHead; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqcons.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from seqcons.c:115: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from seqcons.c:116: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ seqcons.c: In function 'CSC_Algorithm_ByBlosum62': seqcons.c:402:43: warning: 'minScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ seqcons.c:402:67: warning: 'maxScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ rm -f libncbicn3d.a ar cru libncbicn3d.a algorend.o cn3dmsel.o cn3dopen.o cn3dsave.o cn3dxprt.o cn3dwin.o cn3dentr.o cn3dmsg.o cn3dmatn.o cn3dmodl.o cn3dshim.o cn3dmesh.o cn3dstyl.o seqcons.o cp -p libncbicn3d.a ../lib ranlib ../lib/libncbicn3d.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF chartables.c chartables.c:13:22: warning: 'pcre_default_tables' defined but not used [-Wunused-variable] static unsigned char pcre_default_tables[] = { ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF get.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF maketables.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pcre.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pcreposix.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF study.c study.c: In function 'set_start_bits': study.c:98:14: warning: variable 'dummy' set but not used [-Wunused-but-set-variable] volatile int dummy; ^ rm -f libregexp.a ar cru libregexp.a chartables.o get.o maketables.o pcre.o pcreposix.o study.o cp -p libregexp.a ../lib ranlib ../lib/libregexp.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF aa_ungapped.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_diagnostics.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_engine.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_extend.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_filter.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_gapalign.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_hits.c blast_hits.c: In function 'Blast_HSPResultsFromHSPStreamWithLimitEx': blast_hits.c:3499:13: warning: variable 'rm_hsps' set but not used [-Wunused-but-set-variable] Boolean rm_hsps = FALSE; ^ blast_hits.c: At top level: blast_hits.c:3212:12: warning: 's_SortHspWrapEvalue' defined but not used [-Wunused-function] static int s_SortHspWrapEvalue(const void *x, const void *y) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_itree.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_lookup.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_message.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_options.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_seg.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_seqsrc.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_sw.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_setup.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_stat.c blast_stat.c: In function 's_BlastGumbelBlkNew': blast_stat.c:818:21: warning: unused variable 'retv' [-Wunused-variable] Blast_GumbelBlk* retv; ^ blast_stat.c: At top level: blast_stat.c:5081:15: warning: 's_CalculateNormalProbability' defined but not used [-Wunused-function] static double s_CalculateNormalProbability(double x_, double eps_) ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_traceback.c blast_traceback.c: In function 'Blast_TracebackFromHSPList': blast_traceback.c:393:38: warning: 'qe' may be used uninitialized in this function [-Wmaybe-uninitialized] Blast_HSPInit(qs, qe, ss, se, qs, ss, ^ blast_traceback.c:365:22: note: 'qe' was declared here Int4 qs, qe, ss, se, es, ee, os; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_util.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gapinfo.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF greedy_align.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF link_hsps.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF lookup_wrap.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF na_ungapped.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_math.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ncbi_std.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF pattern.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF phi_extend.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF phi_lookup.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF lookup_util.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_encoding.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_psi.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_psi_priv.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_kappa.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF matrix_freq_ratios.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_hspstream.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_parameters.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_posit.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF phi_gapalign.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_program.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_query_info.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_tune.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_aalookup.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_nalookup.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_aascan.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_nascan.c blast_nascan.c: In function 's_BlastNaScanSubject_8_4': blast_nascan.c:110:10: warning: variable 'lut_word_length' set but not used [-Wunused-but-set-variable] Int4 lut_word_length; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_dynarray.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF split_query.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gencode_singleton.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF index_ungapped.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF hspfilter_collector.c rm -f libblast.a ar cru libblast.a aa_ungapped.o blast_diagnostics.o blast_engine.o blast_extend.o blast_filter.o blast_gapalign.o blast_hits.o blast_itree.o blast_lookup.o blast_message.o blast_options.o blast_seg.o blast_seqsrc.o blast_sw.o blast_setup.o blast_stat.o blast_traceback.o blast_util.o gapinfo.o greedy_align.o link_hsps.o lookup_wrap.o na_ungapped.o ncbi_math.o ncbi_std.o pattern.o phi_extend.o phi_lookup.o lookup_util.o blast_encoding.o blast_psi.o blast_psi_priv.o blast_kappa.o matrix_freq_ratios.o blast_hspstream.o blast_parameters.o blast_posit.o phi_gapalign.o blast_program.o blast_query_info.o blast_tune.o blast_aalookup.o blast_nalookup.o blast_aascan.o blast_nascan.o blast_dynarray.o split_query.o gencode_singleton.o index_ungapped.o hspfilter_collector.o cp -p libblast.a ../lib ranlib ../lib/libblast.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_api.c blast_api.c: In function 's_BlastRPSInfoInit': blast_api.c:149:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%s", buffer); ^ blast_api.c:151:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.gap_open_penalty); ^ blast_api.c:152:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.gap_extend_penalty); ^ blast_api.c:153:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.ungapped_k); ^ blast_api.c:154:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.ungapped_h); ^ blast_api.c:155:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.max_db_seq_length); ^ blast_api.c:156:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.db_length); ^ blast_api.c:157:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%lf", &info->aux_info.scale_factor); ^ blast_api.c:161:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &seq_size); /* not used */ ^ blast_api.c:162:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.karlin_k[i]); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_input.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_format.c blast_format.c: In function 's_MBXmlInit': blast_format.c:255:13: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ blast_format.c: In function 's_LoadMatrix': blast_format.c:673:18: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ blast_format.c:673:18: warning: array subscript has type 'char' [-Wchar-subscripts] gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_mtlock.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_options_api.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_prelim.c blast_prelim.c: In function 'Blast_PrelimSearchThreadRun': blast_prelim.c:100:9: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status = 0; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_returns.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_seq.c blast_seq.c: In function 's_SeqLocFillSequenceBuffer': blast_seq.c:529:10: warning: variable 'seq_code' set but not used [-Wunused-but-set-variable] Uint1 seq_code, strand; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_seqalign.c blast_seqalign.c: In function 's_HSPListToSeqAlignUngapped': blast_seqalign.c:343:26: warning: variable 'hspset_cnt_old' set but not used [-Wunused-but-set-variable] Int4 hsp_cnt, index2, hspset_cnt_old; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_tabular.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF repeats_filter.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqsrc_multiseq.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF seqsrc_readdb.c seqsrc_readdb.c: In function 's_ReaddbGetNextChunk': seqsrc_readdb.c:375:11: warning: variable 'real_readdb_entries' set but not used [-Wunused-but-set-variable] Uint4 real_readdb_entries; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF twoseq_api.c twoseq_api.c: In function 's_TwoSeqBasicFillOptions': twoseq_api.c:100:10: warning: unused variable 'status' [-Wunused-variable] Int2 status = 0; ^ In file included from ../include/sqnutils.h:51:0, from ../include/algo/blast/api/twoseq_api.h:41, from twoseq_api.c:45: twoseq_api.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF dust_filter.c dust_filter.c: In function 's_GetFilteringLocations': dust_filter.c:171:32: warning: unused variable 'filter_slp_rev' [-Wunused-variable] BlastSeqLoc* filter_slp_rev = NULL; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF blast_message_api.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF hspfilter_queue.c hspfilter_queue.c: In function 's_BlastHSPQueueInit': hspfilter_queue.c:65:24: warning: unused variable 'q_data' [-Wunused-variable] BlastHSPQueueData * q_data = data; ^ rm -f libblastapi.a ar cru libblastapi.a blast_api.o blast_input.o blast_format.o blast_mtlock.o blast_options_api.o blast_prelim.o blast_returns.o blast_seq.o blast_seqalign.o blast_tabular.o repeats_filter.o seqsrc_multiseq.o seqsrc_readdb.o twoseq_api.o dust_filter.o blast_message_api.o hspfilter_queue.o cp -p libblastapi.a ../lib ranlib ../lib/libblastapi.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o asntool -O3 -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -L../lib asntool.c asncode.c ../lib/libncbi.a -lm cp -p asntool ../bin make -f makedemo.unx CFLAGS1="-DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c" LDFLAGS1="-O3" SHELL="/bin/sh" OTHERLIBS="-lm" LCL="lnx" RAN="ranlib" AR="ar" CC="gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE" ./ln-if-absent ../demo/*.* . ./ln-if-absent ../regexp/test/*.* . ./ln-if-absent ../regexp/demo/*.* . ./ln-if-absent ../internal/*.* . set: No match. chmod -R ug+rw,o+r . make: [copy] Error 1 (ignored) echo Waiting...go Waiting...go gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o testcore -O3 -I../include -L../lib testcore.c -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o makeset -O3 -I../include -L../lib makeset.c -lncbiobj -lncbi -lm In file included from makeset.c:9:0: ../include/all.h:7192:0: warning: "RNA_QUAL" redefined [enabled by default] #define RNA_QUAL &at[2231] ^ ../include/all.h:5745:0: note: this is the location of the previous definition #define RNA_QUAL &at[1023] ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o getmesh -O3 -I../include -L../lib getmesh.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o indexpub -O3 -I../include -L../lib indexpub.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o getpub -O3 -I../include -L../lib getpub.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o testobj -O3 -I../include -L../lib testobj.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o seqtest -O3 -I../include -L../lib seqtest.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o dosimple -O3 -I../include -L../lib dosimple.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o asn2ff -O3 -I../include -L../lib asn2ff.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o checksub -O3 -I../include -L../lib checksub.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o asndhuff -O3 -I../include -L../lib asndhuff.c -lncbiacc -lncbicdr -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o entrcmd -O3 -I../include -L../lib entrcmd.c -lncbiacc -lncbicdr -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o errhdr -O3 -I../include -L../lib errhdr.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o cdscan -O3 -I../include -L../lib cdscan.c -lncbiacc -lncbicdr -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o findspl -O3 -I../include -L../lib findspl.c -lncbiacc -lncbicdr -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o ncbisort -O3 -I../include -L../lib sortcmd.c -lncbitool -lblastcompadj \ -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o fa2htgs -O3 -I../include -L../lib fa2htgs.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o fastacmd -O3 -I../include -L../lib fastacmd.c -lncbitool -lblastcompadj \ -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o formatdb -O3 -I../include -L../lib formatdb.c -lncbitool -lblastcompadj \ -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o formatrpsdb -O3 -I../include -L../lib formatrpsdb.c -lblastapi -lncbitool \ -lblastcompadj -lblast -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o blastall -O3 -I../include -L../lib blastall.c -lblastapi \ -lblast -lncbitool -lblastcompadj -lncbiobj -lncbi \ -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o blastpgp -O3 -I../include -L../lib blastpgp.c -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o testval -O3 -I../include -L../lib testval.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o seedtop -O3 -I../include -L../lib seedtop.c -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o makemat -O3 -I../include -L../lib makemat.c -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o copymat -O3 -I../include -L../lib copymat.c -lblast -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o impala -O3 -I../include -L../lib profiles.c -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o megablast -O3 -I../include -L../lib megablast.c -lblastapi \ -lblast -lncbitool -lblastcompadj -lncbiobj -lncbi -lm \ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o vecscreen -O3 -I../include -L../lib vecscreen.c -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o gil2bin -O3 -I../include -L../lib gil2bin.c -lncbitool -lblastcompadj \ -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o blastclust -O3 -I../include -L../lib blastclust.c -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o rpsblast -O3 -I../include -L../lib rpsblast.c -lblastapi \ -lblast -lncbitool -lblastcompadj -lncbiobj -lncbi -lm \ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o asn2xml -O3 -I../include -L../lib asn2xml.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o debruijn -O3 -I../include -L../lib debruijn.c -lblast -lblastcompadj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o asn2idx -O3 -I../include -L../lib asn2idx.c -lncbitool -lblastcompadj -lncbiobj \ -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o sortbyquote -O3 -I../include -L../lib sortbyquote.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o subfuse -O3 -I../include -L../lib subfuse.c -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o test_regexp -O3 -I../include -L../lib pcretest.c -lregexp gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o demo_regexp -O3 -I../include -L../lib pcredemo.c -lregexp gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o demo_regexp_grep -O3 -I../include -L../lib pcregrep.c -lregexp make -f makedemo.unx CFLAGS1="-DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c" LDFLAGS1="-O3" SHELL="/bin/sh" OTHERLIBS="-lm" LCL="lnx" RAN="ranlib" AR="ar" CC="gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE" THREAD_OBJ=ncbithr.o THREAD_OTHERLIBS="-lpthread" blastall blastpgp seedtop megablast rpsblast blastclust ./ln-if-absent ../demo/*.* . ./ln-if-absent ../regexp/test/*.* . ./ln-if-absent ../regexp/demo/*.* . ./ln-if-absent ../internal/*.* . set: No match. make: [copy] Error 1 (ignored) chmod -R ug+rw,o+r . gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o blastall -O3 -I../include -L../lib blastall.c ncbithr.o -lblastapi \ -lblast -lncbitool -lblastcompadj -lncbiobj -lncbi \ -lm -lpthread gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o blastpgp -O3 -I../include -L../lib blastpgp.c ncbithr.o -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm -lpthread gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o seedtop -O3 -I../include -L../lib seedtop.c ncbithr.o -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm -lpthread gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o megablast -O3 -I../include -L../lib megablast.c ncbithr.o -lblastapi \ -lblast -lncbitool -lblastcompadj -lncbiobj -lncbi -lm \ -lpthread gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o rpsblast -O3 -I../include -L../lib rpsblast.c ncbithr.o -lblastapi \ -lblast -lncbitool -lblastcompadj -lncbiobj -lncbi -lm \ -lpthread gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o blastclust -O3 -I../include -L../lib blastclust.c ncbithr.o -lncbitool \ -lblastcompadj -lncbiobj -lncbi -lm -lpthread make -f makenet.unx CFLAGS1="-DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c " LDFLAGS1="-O3" SHELL="/bin/sh" AR="ar" CC="gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE" RAN="ranlib" OTHERLIBS="-lm" THREAD_OBJ=ncbithr.o THREAD_OTHERLIBS="-lpthread" NETENTREZVERSION="2.02c2ASN1SPEC6 " BLIB31=libvibnet.a VIBLIBS="-L/usr/X11R6/lib -lXmu -lXm -Wl,-Bdynamic -lXft -lfontconfig -ljpeg -lpng -lXt -lSM -lICE -lXext -lXp -lX11 -ldl" OGLLIBS=" " VIBFLAG="-I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF" VIB="Psequin sbtedit Nentrez udv ddv blastcl3 taxblast idfetch bl2seq asn2gb tbl2asn gene2xml entrez2 gbseqget psiblast.REAL psiblast_cs.REAL blast.REAL blast_cs.REAL nph-viewgif.cgi wblast2.REAL wblast2_cs.REAL bl2bag.cgi " ./ln-if-absent ../connect/test/*.c . ./ln-if-absent ../network/entrez/client/*.h ../include ./ln-if-absent ../network/entrez/client/*.c . ./ln-if-absent ../network/medarch/client/*.h ../include ./ln-if-absent ../network/medarch/client/*.c . ./ln-if-absent ../network/taxonomy/client/*.h ../include set: No match. ./ln-if-absent ../network/taxonomy/client/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../network/taxon1/common/*.h ../include make: [copy] Error 1 (ignored) ./ln-if-absent ../network/taxon1/common/*.c . ./ln-if-absent ../network/taxon1/taxon2/*.h ../include ./ln-if-absent ../network/taxon1/taxon2/*.c . ./ln-if-absent ../network/id0arch/client/*.h ../include set: No match. ./ln-if-absent ../network/id0arch/client/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../network/id1arch/*.h ../include make: [copy] Error 1 (ignored) ./ln-if-absent ../network/id1arch/*.c . ./ln-if-absent ../network/id2arch/*.h ../include ./ln-if-absent ../network/id2arch/*.c . ./ln-if-absent ../network/spell/client/*.h ../include ./ln-if-absent ../network/spell/client/*.c . ./ln-if-absent ../network/suggest/client/*.h ../include ./ln-if-absent ../network/suggest/client/*.c . ./ln-if-absent ../network/blast3/client/*.h ../include ./ln-if-absent ../network/blast3/client/*.c . ./ln-if-absent ../tools/taxblast.h ../include ./ln-if-absent ../tools/taxblast.c . ./ln-if-absent /*.c . set: No match. ./ln-if-absent ../internal/misc/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/misc/*.h ../include make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/ssparse/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/ssparse/*.h ../include make: [copy] Error 1 (ignored) set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libparsn/*.c . set: No match. ./ln-if-absent ../internal/libparsn/*.h ../include make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/smart/smartnet/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/smart/smartnet/*.h ../include make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/www/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/www/*.h ../include make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/query/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../internal/query/*.h ../include make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../network/sybutils/ctlib/*.c . make: [copy] Error 1 (ignored) set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/ctlib/*.h ../include set: No match. ./ln-if-absent ../network/sybutils/oslib/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../network/sybutils/oslib/*.h ../include make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../network/sybutils/idloadlib/*.c . make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../network/sybutils/idloadlib/*.h ../include make: [copy] Error 1 (ignored) set: No match. ./ln-if-absent ../network/nsclilib/*.h ../include make: [copy] Error 1 (ignored) ./ln-if-absent ../network/nsclilib/*.c . ./ln-if-absent ../network/vibnet/*.c . ./ln-if-absent ../network/vibnet/*.h ../include ./ln-if-absent ../cdromlib/*.h ../include ./ln-if-absent ../network/wwwblast/Src/*.c . ./ln-if-absent ../network/wwwblast/Src/*.h ../include ./ln-if-absent ../cdromlib/accentr.c . ./ln-if-absent ../cdromlib/accutils.c . ./ln-if-absent ../sequin/*.* . ./ln-if-absent ../demo/entrez.c . ./ln-if-absent ../demo/seqget.c . ./ln-if-absent ../demo/entrcmd.c . ./ln-if-absent ../demo/batch.c . ./ln-if-absent ../demo/qbatch.c . ./ln-if-absent ../demo/elecpcr.c . ./ln-if-absent ../demo/asn2fast.c . ./ln-if-absent ../demo/asn2asn.c . ./ln-if-absent ../demo/cleanasn.c . ./ln-if-absent ../demo/cspeedtest.c . ./ln-if-absent ../demo/sqn2agp.c . ./ln-if-absent ../demo/sugint.c . ./ln-if-absent ../demo/fetchent.c . ./ln-if-absent ../demo/udvmain.c . ./ln-if-absent ../demo/rtestval.c . ./ln-if-absent ../demo/aceread_tst.c . ./ln-if-absent ../demo/asn2ff.c . ./ln-if-absent ../demo/asn2gb.c . ./ln-if-absent ../demo/asn2fsa.c . ./ln-if-absent ../demo/asn2all.c . ./ln-if-absent ../demo/gene2xml.c . ./ln-if-absent ../demo/asnval.c . ./ln-if-absent ../demo/asndisc.c . ./ln-if-absent ../demo/asnbarval.c . ./ln-if-absent ../demo/aceread_tst.c . ./ln-if-absent ../demo/asnmacro.c . ./ln-if-absent ../demo/asnstrip.c . ./ln-if-absent ../demo/tbl2asn.c . ./ln-if-absent ../demo/raw2delt.c . ./ln-if-absent ../demo/flint.c . ./ln-if-absent ../demo/xlint.c . ./ln-if-absent ../demo/diffshift.c . ./ln-if-absent ../demo/gbseqget.c . ./ln-if-absent ../demo/insdseqget.c . ./ln-if-absent ../demo/nps2gps.c . ./ln-if-absent ../demo/testent2.c . ./ln-if-absent ../demo/trna2sap.c . ./ln-if-absent ../demo/trna2tbl.c . ./ln-if-absent ../demo/entrez2.c . ./ln-if-absent ../demo/condense.c . ./ln-if-absent ../demo/spideymain.c . ./ln-if-absent ../demo/dotmain.c . ./ln-if-absent ../demo/ingenmain.c . ./ln-if-absent ../demo/bl2seq.c . ./ln-if-absent ../demo/blastall.c . ./ln-if-absent ../demo/blast_driver.c . ./ln-if-absent ../demo/src_chk.c . ./ln-if-absent ../demo/tbl_chk.c . ./ln-if-absent ../demo/srchnt.c ../demo/srchaa.c ../demo/mts.c ../demo/sigme.c ../demo/dst.c ../demo/ccp.c ../demo/epi.c ../demo/twop.c ../demo/cnsrt.c ../demo/cnsgn.c ../demo/ccpv.c ../demo/dustv.c ../demo/epiv.c ../demo/sigmev.c ../demo/twopv.c ../demo/cnsrtv.c ../demo/cnsgnv.c ../demo/searchv.c . ./ln-if-absent ../network/entrez/server/*.* . set: No match. make: [copy] Error 1 (ignored) ./ln-if-absent ../network/suggest/server/*.* . chmod -R ug+rw,o+r . echo Waiting...go Waiting...go gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_lib_.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_debug.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_service.c ni_service.c: In function 's_GenericGetService': ni_service.c:199:19: warning: unused variable 'c' [-Wunused-variable] CONNECTOR c; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_error.c rm -f libnetcli.a ar cru libnetcli.a ni_lib_.o ni_debug.o ni_service.o ni_error.o cp -p libnetcli.a ../lib ranlib ../lib/libnetcli.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netentr.c netentr.c: In function 's_NetEntTLEvalCount': netentr.c:798:5: warning: "/*" within comment [-Wcomment] /*MsgSetReadTimeout(Entrez_ni, 60);*/ ^ netentr.c: In function 's_NetDocSumListGet': netentr.c:856:18: warning: variable 'amp' set but not used [-Wunused-but-set-variable] AsnModulePtr amp; ^ netentr.c: In function 's_NetTermListByTerm': netentr.c:1212:9: warning: variable 'terms_to_read' set but not used [-Wunused-but-set-variable] int terms_to_read; ^ netentr.c:1200:14: warning: unused variable 'asnout' [-Wunused-variable] AsnIoPtr asnout = Entrez_asnout; ^ netentr.c: In function 's_NetTermListByPage': netentr.c:1343:14: warning: unused variable 'asnout' [-Wunused-variable] AsnIoPtr asnout = Entrez_asnout; ^ netentr.c: In function 'NetEntTLEval': netentr.c:675:5: warning: 'lsp' may be used uninitialized in this function [-Wmaybe-uninitialized] return lsp; ^ netentr.c: In function 'NetEntTLEvalCount': netentr.c:800:8: warning: 'atp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (atp == ENTREZ_BACK_eval_count) ^ netentr.c:782:16: note: 'atp' was declared here AsnTypePtr atp; ^ netentr.c: In function 'NetTermListByTerm': netentr.c:1286:19: warning: 'next_page' may be used uninitialized in this function [-Wmaybe-uninitialized] next_page += p->num_pages_read; ^ netentr.c:1210:9: note: 'next_page' was declared here int next_page; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netlib.c netlib.c: In function 'BoolExprAsnWrite': netlib.c:307:16: warning: unused variable 'n' [-Wunused-variable] static int n = 0; ^ netlib.c: At top level: netlib.c:96:16: warning: 'loaded' defined but not used [-Wunused-variable] static Boolean loaded = FALSE; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objneten.c objneten.c: In function 'EntrezNeighborTextAsnRead': objneten.c:2938:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'ChildLinkAsnRead': objneten.c:3148:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'EntrezHierarchyAsnRead': objneten.c:3442:15: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'EntrezBlastreqAsnRead': objneten.c:3705:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:3704:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'EntrezExtraInfoAsnRead': objneten.c:3911:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:3910:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'ClusterArticlesAsnRead': objneten.c:4262:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4261:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'ClusterRespAsnRead': objneten.c:4455:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'DateConstraintsAsnRead': objneten.c:4622:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'DateVectorAsnRead': objneten.c:4785:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4784:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'GetByFidAsnRead': objneten.c:4963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4962:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'GetFeatIdsAsnRead': objneten.c:5133:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:5132:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'EntrezHierarchyAsnWrite': objneten.c:3130:12: warning: 'Start' may be used uninitialized in this function [-Wmaybe-uninitialized] next = ptr -> next; ^ objneten.c:3316:22: note: 'Start' was declared here ChildLinkPtr Link, Start; ^ objneten.c:3327:24: warning: 'Link' may be used uninitialized in this function [-Wmaybe-uninitialized] Link -> next = ChildLinkNew(); ^ objneten.c:3316:16: note: 'Link' was declared here ChildLinkPtr Link, Start; ^ objneten.c:3626:10: warning: 'start' may be used uninitialized in this function [-Wmaybe-uninitialized] retval = AsnGenericBaseSeqOfAsnWrite(LineageList ,ASNCODE_PTRVAL_SLOT, ^ objneten.c:3383:23: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr -> next = MemNew(sizeof(ValNode)); ^ objneten.c:3369:14: note: 'ptr' was declared here ValNodePtr ptr, start; ^ rm -f libnetentr.a ar cru libnetentr.a netentr.o netlib.o objneten.o cp -p libnetentr.a ../lib ranlib ../lib/libnetentr.a ./ln-if-absent accentr.c Naccentr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NETENT_ Naccentr.c Naccentr.c:358:3: warning: missing braces around initializer [-Wmissing-braces] 8, 6, 3, 3, ^ Naccentr.c:358:3: warning: (near initialization for 'AdaptiveDocSumMatrix[0]') [-Wmissing-braces] Naccentr.c: In function 'EntrezDocSumListGet': Naccentr.c:1409:14: warning: variable 'actual' set but not used [-Wunused-but-set-variable] Int2 actual; ^ rm -f libncbiNacc.a ar cru libncbiNacc.a Naccentr.o accutils.o cp -p libncbiNacc.a ../lib ranlib ../lib/libncbiNacc.a ./ln-if-absent accentr.c Caccentr.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NET_AND_CD_ Caccentr.c Caccentr.c:358:3: warning: missing braces around initializer [-Wmissing-braces] 8, 6, 3, 3, ^ Caccentr.c:358:3: warning: (near initialization for 'AdaptiveDocSumMatrix[0]') [-Wmissing-braces] Caccentr.c: In function 'EntrezDocSumListGet': Caccentr.c:1409:14: warning: variable 'actual' set but not used [-Wunused-but-set-variable] Int2 actual; ^ rm -f libncbiCacc.a ar cru libncbiCacc.a Caccentr.o accutils.o cp -p libncbiCacc.a ../lib ranlib ../lib/libncbiCacc.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netcnfg.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" trmlst.c trmlst.c: In function 'FetchFromTermList': trmlst.c:1048:16: warning: variable 'numRead' set but not used [-Wunused-but-set-variable] Int2 numRead; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" docsum.c docsum.c: In function 'ImportDocSumForm': docsum.c:2298:21: warning: unused variable 'sephead' [-Wunused-variable] SeqEntryPtr sephead = NULL; ^ docsum.c:2296:21: warning: unused variable 'is_na' [-Wunused-variable] Boolean is_na = TRUE; ^ docsum.c:2290:21: warning: unused variable 'choice' [-Wunused-variable] Uint1 choice = 0; ^ docsum.c: In function 'SaveDocsumProject': docsum.c:3042:16: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SummFormPtr sfp; ^ docsum.c: At top level: docsum.c:439:15: warning: 'checkmark' defined but not used [-Wunused-variable] static Uint1 checkmark [] = { ^ docsum.c: In function 'LaunchStructureViewer': docsum.c:4192:10: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ docsum.c: In function 'FetchLocalBioseq': docsum.c:1223:6: warning: 'str' may be used uninitialized in this function [-Wmaybe-uninitialized] if (str == NULL) return failed; ^ rm -f libvibnet.a ar cru libvibnet.a netcnfg.o trmlst.o docsum.o cp -p libvibnet.a ../lib ranlib ../lib/libvibnet.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objtax1.c objtax1.c: In function 'Taxon1ReqFree': objtax1.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax1.c: In function 'Taxon1ReqAsnRead': objtax1.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1InfoAsnRead': objtax1.c:467:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:466:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1ErrorAsnRead': objtax1.c:1067:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1066:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1NameAsnRead': objtax1.c:1232:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1231:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1DataAsnRead': objtax1.c:1418:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1417:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon2DataAsnRead': objtax1.c:1606:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c: In function 'Taxon1ReqAsnRead': objtax1.c:265:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax1.c: In function 'Taxon1RespAsnRead': objtax1.c:868:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxutil.c taxutil.c: In function 'taxname_match': taxutil.c:66:24: warning: unused variable 'taxstr' [-Wunused-variable] CharPtr taxstr = NULL; ^ taxutil.c: In function 'get_lineage': taxutil.c:140:28: warning: 'onp' may be used uninitialized in this function [-Wmaybe-uninitialized] return Nlm_StringSave(onp->lineage); ^ taxutil.c: In function 'get_gcode': taxutil.c:160:23: warning: 'onp' may be used uninitialized in this function [-Wmaybe-uninitialized] gclp->genomic = onp->gcode; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -c -o tc2dproc.o -DTAXSERVICE tc2proc.c tc2proc.c: In function 'getIdByOrgRef': tc2proc.c:407:17: warning: unused variable 'om_flag' [-Wunused-variable] Boolean om_flag= FALSE; ^ tc2proc.c: In function 'bldLineage': tc2proc.c:1095:10: warning: unused variable 'rank' [-Wunused-variable] Int2 rank= 0; ^ tc2proc.c: In function 'storedTaxId': tc2proc.c:2114:17: warning: unused variable 'object_id' [-Wunused-variable] ObjectIdPtr object_id; ^ tc2proc.c: In function 'tax1e_needUpdate': tc2proc.c:2181:13: warning: unused variable 'hit_name' [-Wunused-variable] CharPtr hit_name; ^ tc2proc.c:2180:13: warning: unused variable 'need_search_name' [-Wunused-variable] Boolean need_search_name= TRUE; ^ tc2proc.c:2179:9: warning: unused variable 'is_species' [-Wunused-variable] int is_species; ^ tc2proc.c:2176:19: warning: unused variable 'res' [-Wunused-variable] Taxon1DataPtr res; ^ tc2proc.c: At top level: tc2proc.c:403:13: warning: 'getIdByOrgRef' defined but not used [-Wunused-function] static Int4 getIdByOrgRef(CharPtr sname, OrgNamePtr orNm) ^ tc2proc.c: In function 'mergeOrgMod': tc2proc.c:1619:22: warning: 'lst' may be used uninitialized in this function [-Wmaybe-uninitialized] lst->next= src; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -c -o txcdproc.o -DTAXSERVICE txcdproc.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" parttree.c parttree.c: In function 'tax_ptree_addSubtree': parttree.c:392:13: warning: unused variable 'need_remove' [-Wunused-variable] Boolean need_remove= FALSE; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxcs.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxblast.c taxblast.c: In function 'TXBHtmlReportInternal': taxblast.c:1294:37: warning: variable 'linlines' set but not used [-Wunused-but-set-variable] Int2 numtaxa, numorgs, numhits, linlines, longname; ^ taxblast.c: At top level: taxblast.c:1902:13: warning: 'getTotalTaxIdCount' defined but not used [-Wunused-function] static Int4 getTotalTaxIdCount(TreeCursorPtr cursor) ^ taxblast.c: In function 'TXBGetTargetGi.isra.2': taxblast.c:501:5: warning: 'gi' may be used uninitialized in this function [-Wmaybe-uninitialized] return gi; ^ rm -f libncbitxc2.a ar cru libncbitxc2.a objtax1.o taxutil.o tc2dproc.o txcdproc.o parttree.o taxcs.o taxblast.o cp -p libncbitxc2.a ../lib ranlib ../lib/libncbitxc2.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1gen.c id1gen.c: In function 'ID1serverRequestFree': id1gen.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ id1gen.c: In function 'ID1serverRequestAsnRead': id1gen.c:90:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1serverMaxcomplexAsnRead': id1gen.c:348:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:347:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1SeqHistAsnRead': id1gen.c:530:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:529:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1SeqEntryInfoAsnRead': id1gen.c:979:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:978:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1blobInfoAsnRead': id1gen.c:1147:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:1146:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1serverDebugAsnRead': id1gen.c:1368:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c: In function 'ID1serverBackAsnRead': id1gen.c:811:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ id1gen.c: In function 'ID1serverRequestAsnRead': id1gen.c:186:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1arch.c id1arch.c: In function 'ID1ArchSeqEntryGet': id1arch.c:173:7: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ id1arch.c: In function 'ID1ArchGIGet': id1arch.c:486:10: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ id1arch.c: In function 'SeqHistPrintTable': id1arch.c:556:57: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] 1900+shp->replace_date->data[1]); ^ id1arch.c:556:57: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] id1arch.c:556:57: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] id1arch.c:563:25: warning: spurious trailing '%' in format [-Wformat=] fprintf(fp,"%-20d%-20s%",old_gi,repl_date); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" accid1.c accid1.c: In function 's_ID1BioseqFetchFunc': accid1.c:262:9: warning: unused variable 'retcode' [-Wunused-variable] Int2 retcode=0; ^ rm -f libncbiid1.a ar cru libncbiid1.a id1gen.o id1arch.o accid1.o cp -p libncbiid1.a ../lib ranlib ../lib/libncbiid1.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objblst3.c objblst3.c: In function 'BlastSearchAsnRead': objblst3.c:91:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:90:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastRequestFree': objblst3.c:287:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastRequestAsnRead': objblst3.c:337:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff2_cutoff2Free': objblst3.c:999:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastParametersAsnRead': objblst3.c:1027:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'Cutoff2_cutoff2AsnRead': objblst3.c:1422:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff_cutoffAsnRead': objblst3.c:1788:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff_cutoffFree': objblst3.c:1871:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastMatrixAsnRead': objblst3.c:1936:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastDbinfoAsnRead': objblst3.c:2153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastMaskAsnRead': objblst3.c:2357:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastKABlkAsnRead': objblst3.c:2517:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2516:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastErrorAsnRead': objblst3.c:2697:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2696:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastPhialignAsnRead': objblst3.c:2861:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastDbinfoGetAsnRead': objblst3.c:3022:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3021:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastSeqIdAsnRead': objblst3.c:3187:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3186:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastSequenceAsnRead': objblst3.c:3364:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3363:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastPartsAsnRead': objblst3.c:3532:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastQueuedAsnRead': objblst3.c:3694:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3693:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastProgressAsnRead': objblst3.c:3846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3845:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastDeflineAsnRead': objblst3.c:4000:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3999:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastVersionAsnRead': objblst3.c:4168:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:4167:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'MegaBlastHitAsnRead': objblst3.c:4335:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:4334:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'MegaBlastResultsAsnRead': objblst3.c:4546:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastRequestAsnRead': objblst3.c:430:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c: In function 'BlastResponseAsnRead': objblst3.c:791:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c: In function 'BlastParametersAsnRead': objblst3.c:1474:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c:1421:10: note: 'choice' was declared here Uint1 choice; ^ objblst3.c:1840:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c:1787:10: note: 'choice' was declared here Uint1 choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netblap3.c netblap3.c: In function 'BlastNetBioseqFetchFunc': netblap3.c:1835:16: warning: variable 'omdp' set but not used [-Wunused-but-set-variable] OMUserDataPtr omdp; ^ netblap3.c: In function 'MegaBlastSeqLocNetCore': netblap3.c:2049:8: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID = 0; ^ In file included from ../include/netblap3.h:134:0, from netblap3.c:364: netblap3.c: At top level: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from netblap3.c:364: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ netblap3.c:430:1: warning: 'BlastSetErrorHook' defined but not used [-Wunused-function] BlastSetErrorHook(void) ^ netblap3.c:438:1: warning: 'BlastSetErrorStatus' defined but not used [-Wunused-function] BlastSetErrorStatus(Boolean status) ^ netblap3.c:445:1: warning: 'BlastGetErrorStatus' defined but not used [-Wunused-function] BlastGetErrorStatus(void) ^ netblap3.c:452:1: warning: 'BlastResetOldHook' defined but not used [-Wunused-function] BlastResetOldHook(void) ^ netblap3.c: In function 'BlastNetMatrixToBlastMatrix': netblap3.c:1212:35: warning: 'index2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (index1 != blast_matrix->rows || index2 != blast_matrix->columns) ^ netblap3.c: In function 'TraditionalBlastReportEngine': netblap3.c:2570:11: warning: 'next_seqalign' may be used uninitialized in this function [-Wmaybe-uninitialized] while (seqalign) { ^ rm -f libnetblast.a ar cru libnetblast.a objblst3.o netblap3.o cp -p libnetblast.a ../lib ranlib ../lib/libnetblast.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -DNLM_OBJ_INCL=\"mapmla.h\" objmla.c objmla.c: In function 'MlaRequestFree': objmla.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmla.c: In function 'MlaRequestAsnRead': objmla.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla.c: In function 'TitleMsgAsnRead': objmla.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla.c:446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla.c: In function 'TitleMsgListAsnRead': objmla.c:612:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla.c: In function 'MlaRequestAsnRead': objmla.c:249:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmla.c: In function 'MlaBackAsnRead': objmla.c:902:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medarch.c medarch.c:710:8: warning: 's_MedArchPubSetEntryGetPmId' defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetPmId ( ^ medarch.c:758:8: warning: 's_MedArchPubSetEntryGetUid' defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetUid ( ^ medarch.c: In function 'MedArchPubSetCreate': medarch.c:1693:30: warning: 'pubSetEAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] MedlineEntryAsnWrite (lastmep, aip, pubSetEAtp); ^ In file included from ../include/ni_types.h:85:0, from ../include/ncbinet.h:84, from medarch.c:122: ../include/asn.h:465:41: warning: 'pubSetAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AsnEndStruct(x,y) AsnCloseStruct(x, y, NULL) ^ medarch.c:1625:16: note: 'pubSetAtp' was declared here AsnTypePtr pubSetAtp; ^ medarch.c:1655:14: warning: 'startAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] AsnWrite (aip, startAtp, NULL); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medutil.c rm -f libncbimla.a ar cru libncbimla.a objmla.o medarch.o medutil.o cp -p libncbimla.a ../lib ranlib ../lib/libncbimla.a gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o Psequin -I. -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -UINTERNAL_NCBI_SEQUIN sequin1.c sequin2.c sequin3.c sequin4.c sequin5.c sequin6.c sequin7.c sequin8.c sequin9.c sequin10.c sequinx.c \ -lncbicn3d -lddvlib -lvibnet -lncbidesk -lblastapi -lblast -lncbimmdb \ -lncbitxc2 -lncbiid1 -lnetblast -lncbitool -lblastcompadj -lncbimla \ -lncbiNacc -lnetentr -lnetcli -lncbicdr -lvibrant -lncbiobj -lncbi -L/usr/X11R6/lib -lXmu -lXm -Wl,-Bdynamic -lXft -lfontconfig -ljpeg -lpng -lXt -lSM -lICE -lXext -lXp -lX11 -ldl -lm sequin3.c: In function 'AddBlastTag': sequin3.c:18797:24: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] align_type = (Uint1) (Int4) gcp->userdata; ^ sequin3.c: In function 'CommonAddBlastToSeqAnnot': sequin3.c:18822:60: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] GatherItem (sel->entityID, sel->itemID, sel->itemtype, (Pointer) (Int4) align_type, AddBlastTag); ^ sequin9.c: In function 'UpdatePairToUpdateTitlesDialog': sequin9.c:14092:17: warning: large integer implicitly truncated to unsigned type [-Woverflow] PRINTID_REPORT, sizeof (id_txt) - 50); ^ ../lib/libncbitool.a(pobutil.o): In function `memset': /usr/include/bits/string3.h:81: warning: memset used with constant zero length parameter; this could be due to transposed parameters : Psequin gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o sbtedit -I. -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -UINTERNAL_NCBI_SEQUIN sbtedit.c \ -lncbicn3d -lddvlib -lvibnet -lncbidesk -lblastapi -lblast -lncbimmdb \ -lncbitxc2 -lncbiid1 -lnetblast -lncbitool -lblastcompadj -lncbimla \ -lncbiNacc -lnetentr -lnetcli -lncbicdr -lvibrant -lncbiobj -lncbi -L/usr/X11R6/lib -lXmu -lXm -Wl,-Bdynamic -lXft -lfontconfig -ljpeg -lpng -lXt -lSM -lICE -lXext -lXp -lX11 -ldl -lm : sbtedit gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o Nentrez -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF entrez.c -lncbiid1 -lvibnet -lncbicn3d -lncbidesk -lblastapi -lblast -lncbimmdb -lddvlib \ -lnetblast -lncbitool -lblastcompadj -lncbiNacc -lnetentr -lnetcli -lncbiacc -lvibrant -lncbicdr -lncbiobj -lncbi -L/usr/X11R6/lib -lXmu -lXm -Wl,-Bdynamic -lXft -lfontconfig -ljpeg -lpng -lXt -lSM -lICE -lXext -lXp -lX11 -ldl -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" udvmain.c udvmain.c: In function 'Nlm_Main': udvmain.c:232:8: warning: unused variable 'rcL' [-Wunused-variable] RecT rcL; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from udvmain.c:81: udvmain.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from udvmain.c:81: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from udvmain.c:81: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from udvmain.c:81: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o udv -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF udvmain.o -lncbiid1 -lvibnet -lncbidesk -lblastapi -lblast -lncbimmdb -lddvlib \ -lncbiNacc -lnetentr -lnetcli -lncbicdr -lvibrant \ -lncbitool -lblastcompadj -lncbiobj \ -lncbi -L/usr/X11R6/lib -lXmu -lXm -Wl,-Bdynamic -lXft -lfontconfig -ljpeg -lpng -lXt -lSM -lICE -lXext -lXp -lX11 -ldl -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -Wno-format-security -c -I../include -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ddvmain.c ddvmain.c:147:13: warning: 'DDV_myargs' initialized and declared 'extern' [enabled by default] extern Args DDV_myargs[NUMARGS] = { ^ ddvmain.c:267:16: warning: 'DDV_UseNetwork' defined but not used [-Wunused-function] static Boolean DDV_UseNetwork(void) ^ ddvmain.c: In function 'Nlm_Main': ddvmain.c:441:5: warning: 'UseNetwork' may be used uninitialized in this function [-Wmaybe-uninitialized] if (UseNetwork && EntrezIsInited()) EntrezBioseqFetchDisable(); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o ddv -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF ddvmain.o -lncbiid1 -lvibnet -lncbidesk -lblastapi -lblast -lncbimmdb -lddvlib \ -lncbiNacc -lnetentr -lnetcli -lncbicdr -lvibrant -lncbitool \ -lblastcompadj -lncbiobj -lncbi \ -L/usr/X11R6/lib -lXmu -lXm -Wl,-Bdynamic -lXft -lfontconfig -ljpeg -lpng -lXt -lSM -lICE -lXext -lXp -lX11 -ldl -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -g -o blastcl3 -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DBLAST_CS_API blastall.c \ -lblastapi -lblast -lnetblast -lncbitool -lblastcompadj \ -lnetcli -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -g -o taxblast -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF taxblast_main.c \ -lblastapi -lblast -lnetblast -lncbiid1 -lncbitxc2 -lncbitool -lblastcompadj \ -lnetcli -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -g -o idfetch -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF idfetch.c -lncbiid1 -lnetcli -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o bl2seq -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bl2seq.c -lblastapi -lblast -lncbitool \ -lblastcompadj -lncbiid1 -lnetcli -lncbiobj -lncbi \ -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -g -o asn2gb -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF asn2gb.c -lncbiid1 -lnetcli \ -lncbitool -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o tbl2asn -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF tbl2asn.c -lncbitool -lblastcompadj \ -lncbiobj -lnetcli -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -g -o gene2xml -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gene2xml.c -lnetcli -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -g -o entrez2 -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF entrez2.c -lncbiid1 -lnetcli -lncbidesk \ -lblastapi -lblast -lncbimmdb -lncbitool -lblastcompadj \ -lncbiobj -lvibrant -lncbi -L/usr/X11R6/lib -lXmu -lXm -Wl,-Bdynamic -lXft -lfontconfig -ljpeg -lpng -lXt -lSM -lICE -lXext -lXp -lX11 -ldl -lm : entrez2 gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -g -o gbseqget -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF gbseqget.c -lncbiid1 -lnetcli \ -lncbitool -lblastcompadj -lncbiobj -lncbi -lm gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o psiblast.REAL -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF psiblast.c wwwbutl.c ncbithr.o \ -lncbidesk -lblastapi -lblast -lncbitool -lblastcompadj \ -lvibgif -lncbiobj -lncbi -lm -lpthread gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o psiblast_cs.REAL -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNCBI_ENTREZ_CLIENT psiblast.c wwwbutl.c \ ncbithr.o -lncbitxc2 -lncbiid1 -lnetblast -lnetcli -lncbidesk -lblastapi \ -lblast -lncbitool -lblastcompadj -lvibgif \ -lncbiobj -lncbi -lm -lpthread wwwbutl.c: In function 'WWWCreateSearchOptions': wwwbutl.c:948:32: warning: assignment from incompatible pointer type [enabled by default] query_bsp->seq_data = BSNew(query_bsp->length); ^ wwwbutl.c:968:15: warning: passing argument 1 of 'Nlm_BSWrite' from incompatible pointer type [enabled by default] BSWrite(query_bsp->seq_data, buf, retval); ^ In file included from ../include/ncbi.h:63:0, from ../include/wwwblast.h:81, from wwwbutl.c:214: ../include/ncbibs.h:80:29: note: expected 'Nlm_ByteStorePtr' but argument is of type 'SeqDataPtr' NLM_EXTERN Nlm_Int4 LIBCALL Nlm_BSWrite PROTO((Nlm_ByteStorePtr bsp, Nlm_VoidPtr ptr, Nlm_Int4 len)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o blast.REAL -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF wwwblast.c wwwbutl.c ncbithr.o \ -lncbidesk -lblastapi -lblast -lncbitool -lblastcompadj -lvibgif -lncbiobj \ -lncbi -lm -lpthread gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o blast_cs.REAL -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNCBI_ENTREZ_CLIENT wwwblast.c wwwbutl.c \ ncbithr.o -lncbitxc2 -lncbiid1 -lnetblast -lnetcli -lncbidesk -lblastapi \ -lblast -lncbitool -lblastcompadj -lvibgif \ -lncbiobj -lncbi -lm -lpthread wwwbutl.c: In function 'WWWCreateSearchOptions': wwwbutl.c:948:32: warning: assignment from incompatible pointer type [enabled by default] query_bsp->seq_data = BSNew(query_bsp->length); ^ wwwbutl.c:968:15: warning: passing argument 1 of 'Nlm_BSWrite' from incompatible pointer type [enabled by default] BSWrite(query_bsp->seq_data, buf, retval); ^ In file included from ../include/ncbi.h:63:0, from ../include/wwwblast.h:81, from wwwbutl.c:214: ../include/ncbibs.h:80:29: note: expected 'Nlm_ByteStorePtr' but argument is of type 'SeqDataPtr' NLM_EXTERN Nlm_Int4 LIBCALL Nlm_BSWrite PROTO((Nlm_ByteStorePtr bsp, Nlm_VoidPtr ptr, Nlm_Int4 len)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o nph-viewgif.cgi -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF viewgif.c gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o wblast2.REAL -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DBL2SEQ_STANDALONE wblast2.c \ -lblastapi -lncbitool -lblastcompadj -lncbiobj -lblast -lncbi -lm wblast2.c: In function 'PrintOutScore': wblast2.c:1052:16: warning: assignment from incompatible pointer type [enabled by default] seq_data = q_bsp->seq_data; ^ wblast2.c:1057:26: warning: assignment from incompatible pointer type [enabled by default] q_bsp->seq_data = seq_data; ^ wblast2.c:1070:23: warning: assignment from incompatible pointer type [enabled by default] q_bsp->seq_data = seq_data; ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o wblast2_cs.REAL -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF -DNCBI_ENTREZ_CLIENT -DBL2SEQ_STANDALONE \ wblast2.c -lncbiid1 -lnetcli -lblastapi -lncbitool -lblastcompadj \ -lncbiobj -lblast -lncbi \ -lm wblast2.c: In function 'PrintOutScore': wblast2.c:1052:16: warning: assignment from incompatible pointer type [enabled by default] seq_data = q_bsp->seq_data; ^ wblast2.c:1057:26: warning: assignment from incompatible pointer type [enabled by default] q_bsp->seq_data = seq_data; ^ wblast2.c:1070:23: warning: assignment from incompatible pointer type [enabled by default] q_bsp->seq_data = seq_data; ^ wblast2.c: In function 'FindSeqByAccession': wblast2.c:1573:17: warning: assignment from incompatible pointer type [enabled by default] old_seq_data = bsp->seq_data; ^ wblast2.c:1574:18: warning: assignment from incompatible pointer type [enabled by default] bsp->seq_data = BSNew(bsp->length); ^ wblast2.c:1582:7: warning: passing argument 1 of 'Nlm_BSWrite' from incompatible pointer type [enabled by default] BSWrite(bsp->seq_data, buf, retval); ^ In file included from ../include/ncbi.h:63:0, from wblast2.c:271: ../include/ncbibs.h:80:29: note: expected 'Nlm_ByteStorePtr' but argument is of type 'SeqDataPtr' NLM_EXTERN Nlm_Int4 LIBCALL Nlm_BSWrite PROTO((Nlm_ByteStorePtr bsp, Nlm_VoidPtr ptr, Nlm_Int4 len)); ^ gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_GNU_SOURCE -o bl2bag.cgi -O3 -I../include -L../lib -I/usr/X11R6/include -L/usr/X11R6/lib -DWIN_MOTIF bl2bag.c -lncbi -lm Put the date stamp to the file ../VERSION ********************************************************* *The new binaries are located in ./ncbi/build/ directory* ********************************************************* + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.EHB6ix + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64 ++ dirname /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64 + cd ncbi-6.1 + mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast + cd ncbi + install -m 755 bin/blast.REAL bin/blast_cs.REAL bin/psiblast.REAL bin/psiblast_cs.REAL bin/wblast2.REAL bin/wblast2_cs.REAL /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/ + install -m 755 bin/bl2bag.cgi bin/nph-viewgif.cgi /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/ + rm -rf bin/blast.REAL bin/blast_cs.REAL bin/psiblast.REAL bin/psiblast_cs.REAL bin/wblast2.REAL bin/wblast2_cs.REAL + rm -rf bin/bl2bag.cgi bin/nph-viewgif.cgi + mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/bin + install -m 755 bin/Nentrez bin/Psequin bin/asn2ff bin/asn2gb bin/asn2idx bin/asn2xml bin/asndhuff bin/asntool bin/bl2seq bin/blastall bin/blastcl3 bin/blastclust bin/blastpgp bin/cdscan bin/checksub bin/copymat bin/ddv bin/debruijn bin/demo_regexp bin/demo_regexp_grep bin/dosimple bin/entrcmd bin/entrez2 bin/errhdr bin/fa2htgs bin/fastacmd bin/findspl bin/formatdb bin/formatrpsdb bin/gene2xml bin/getmesh bin/getpub bin/gil2bin bin/idfetch bin/impala bin/indexpub bin/makemat bin/makeset bin/megablast bin/ncbisort bin/rpsblast bin/sbtedit bin/seedtop bin/seqtest bin/taxblast bin/tbl2asn bin/test_regexp bin/testcore bin/testobj bin/testval bin/udv bin/vecscreen /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/bin/ + mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi + cd include ++ find . -type d + for m in '`find . -type d`' + install -d -m 755 . /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/. + for m in '`find . -type d`' + install -d -m 755 ./algo /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo + for m in '`find . -type d`' + install -d -m 755 ./algo/blast /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast + for m in '`find . -type d`' + install -d -m 755 ./algo/blast/api /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api + for m in '`find . -type d`' + install -d -m 755 ./algo/blast/composition_adjustment /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment + for m in '`find . -type d`' + install -d -m 755 ./algo/blast/core /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core + for m in '`find . -type d`' + install -d -m 755 ./ctools /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./ctools + for m in '`find . -type d`' + install -d -m 755 ./util /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./util + for m in '`find . -type d`' + install -d -m 755 ./util/creaders /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./util/creaders + for m in '`find . -type d`' + install -d -m 755 ./util/tables /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./util/tables + for m in '`find . -type d`' + install -d -m 755 ./connect /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect ++ find . -type f + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/twoseq_api.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/twoseq_api.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/seqsrc_readdb.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/seqsrc_readdb.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/seqsrc_multiseq.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/seqsrc_multiseq.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/repeats_filter.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/repeats_filter.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/hspfilter_queue.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/hspfilter_queue.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/dust_filter.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/dust_filter.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_tabular.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_tabular.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_seqalign.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_seqalign.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_seq.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_seq.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_returns.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_returns.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_prelim.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_prelim.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_options_api.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_options_api.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_mtlock.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_mtlock.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_message_api.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_message_api.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_input.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_input.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_format.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_format.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/api/blast_api.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/api/blast_api.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/unified_pvalues.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/unified_pvalues.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/smith_waterman.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/smith_waterman.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/redo_alignment.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/redo_alignment.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/optimize_target_freq.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/optimize_target_freq.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/nlm_linear_algebra.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/nlm_linear_algebra.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/matrix_frequency_data.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/matrix_frequency_data.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/composition_constants.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/composition_constants.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/composition_adjustment.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/composition_adjustment.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/compo_mode_condition.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/compo_mode_condition.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/composition_adjustment/compo_heap.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/composition_adjustment/compo_heap.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/split_query.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/split_query.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/phi_lookup.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/phi_lookup.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/phi_gapalign.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/phi_gapalign.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/phi_extend.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/phi_extend.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/pattern_priv.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/pattern_priv.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/pattern.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/pattern.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/ncbi_std.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/ncbi_std.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/ncbi_math.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/ncbi_math.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/na_ungapped.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/na_ungapped.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/mb_indexed_lookup.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/mb_indexed_lookup.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/matrix_freq_ratios.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/matrix_freq_ratios.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/lookup_wrap.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/lookup_wrap.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/lookup_util.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/lookup_util.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/link_hsps.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/link_hsps.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/index_ungapped.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/index_ungapped.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/hspfilter_collector.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/hspfilter_collector.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/hspfilter_besthit.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/hspfilter_besthit.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/greedy_align.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/greedy_align.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/gencode_singleton.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/gencode_singleton.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/gapinfo.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/gapinfo.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/erfc.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/erfc.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_util.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_util.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_tune.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_tune.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_traceback.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_traceback.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_toolkit.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_toolkit.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_sw.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_sw.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_stat.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_stat.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_setup.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_setup.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_seqsrc_impl.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_seqsrc_impl.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_seqsrc.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_seqsrc.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_seg.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_seg.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_rps.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_rps.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_query_info.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_query_info.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_psi_priv.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_psi_priv.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_psi.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_psi.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_program.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_program.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_posit.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_posit.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_parameters.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_parameters.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_options.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_options.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_nascan.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_nascan.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_nalookup.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_nalookup.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_message.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_message.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_lookup.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_lookup.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_kappa.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_kappa.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_itree.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_itree.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_hspstream.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_hspstream.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_hspfilter.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_hspfilter.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_hits_priv.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_hits_priv.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_hits.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_hits.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_gapalign_priv.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_gapalign_priv.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_gapalign.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_gapalign.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_filter.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_filter.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_extend.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_extend.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_export.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_export.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_engine.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_engine.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_encoding.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_encoding.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_dynarray.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_dynarray.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_diagnostics.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_diagnostics.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_def.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_def.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_aascan.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_aascan.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/blast_aalookup.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/blast_aalookup.h + for n in '`find . -type f`' + install -m 644 ./algo/blast/core/aa_ungapped.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./algo/blast/core/aa_ungapped.h + for n in '`find . -type f`' + install -m 644 ./ctools/error_codes.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./ctools/error_codes.h + for n in '`find . -type f`' + install -m 644 ./ctools/asn_connection.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./ctools/asn_connection.h + for n in '`find . -type f`' + install -m 644 ./util/creaders/creaders_export.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./util/creaders/creaders_export.h + for n in '`find . -type f`' + install -m 644 ./util/creaders/alnread.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./util/creaders/alnread.h + for n in '`find . -type f`' + install -m 644 ./util/tables/tables_export.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./util/tables/tables_export.h + for n in '`find . -type f`' + install -m 644 ./util/tables/raw_scoremat.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./util/tables/raw_scoremat.h + for n in '`find . -type f`' + install -m 644 ./connect/connect_export.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/connect_export.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_version.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_version.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_util.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_util.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_types.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_types.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_socketp.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_socketp.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_socket_unix.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_socket_unix.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_socket_connector.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_socket_connector.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_socket.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_socket.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_servicep.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_servicep.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_service_connector.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_service_connector.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_service.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_service.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_server_infop.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_server_infop.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_server_info.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_server_info.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_sendmail.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_sendmail.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_priv.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_priv.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_memory_connector.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_memory_connector.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_local.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_local.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_lbsmd.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_lbsmd.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_lb.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_lb.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_http_connector.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_http_connector.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_host_infop.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_host_infop.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_host_info.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_host_info.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_heapmgr.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_heapmgr.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_gnutls.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_gnutls.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_ftp_connector.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_ftp_connector.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_file_connector.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_file_connector.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_dispd.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_dispd.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_core_c.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_core_c.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_core.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_core.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_connutil.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_connutil.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_connssl.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_connssl.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_connector.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_connector.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_connection.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_connection.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_config.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_config.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_comm.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_comm.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_buffer.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_buffer.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_base64.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_base64.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_assert.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_assert.h + for n in '`find . -type f`' + install -m 644 ./connect/ncbi_ansi_ext.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/include/ncbi/./connect/ncbi_ansi_ext.h + cd .. + mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/share/man/man1 + install -m 644 doc/man/Psequin.1 doc/man/asn2all.1 doc/man/asn2asn.1 doc/man/asn2ff.1 doc/man/asn2fsa.1 doc/man/asn2gb.1 doc/man/asn2idx.1 doc/man/asn2xml.1 doc/man/asndhuff.1 doc/man/asntool.1 doc/man/asnval.1 doc/man/bl2seq.1 doc/man/blast.1 doc/man/blastall.1 doc/man/blastall_old.1 doc/man/blastcl3.1 doc/man/blastclust.1 doc/man/blastpgp.1 doc/man/cdscan.1 doc/man/checksub.1 doc/man/cleanasn.1 doc/man/copymat.1 doc/man/ddv.1 doc/man/debruijn.1 doc/man/entrez2.1 doc/man/errhdr.1 doc/man/fa2htgs.1 doc/man/fastacmd.1 doc/man/findspl.1 doc/man/fmerge.1 doc/man/formatdb.1 doc/man/formatrpsdb.1 doc/man/gbseqget.1 doc/man/gene2xml.1 doc/man/getmesh.1 doc/man/getpub.1 doc/man/gil2bin.1 doc/man/idfetch.1 doc/man/impala.1 doc/man/indexpub.1 doc/man/insdseqget.1 doc/man/makemat.1 doc/man/makeset.1 doc/man/megablast.1 doc/man/nps2gps.1 doc/man/rpsblast.1 doc/man/sbtedit.1 doc/man/seedtop.1 doc/man/sortbyquote.1 doc/man/spidey.1 doc/man/subfuse.1 doc/man/taxblast.1 doc/man/tbl2asn.1 doc/man/trna2sap.1 doc/man/trna2tbl.1 doc/man/udv.1 doc/man/vecscreen.1 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/share/man/man1/ + rm -rf doc/man + mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/share/doc/ncbi-blast + install -m 644 doc/blast/bl2seq.html doc/blast/blast.html doc/blast/blastall.html doc/blast/blastclust.html doc/blast/blastdb.html doc/blast/blastftp.html doc/blast/blastpgp.html doc/blast/fastacmd.html doc/blast/filter.html doc/blast/formatdb.html doc/blast/formatrpsdb.html doc/blast/history.html doc/blast/impala.html doc/blast/index.html doc/blast/megablast.html doc/blast/netblast.html doc/blast/rpsblast.html doc/blast/scoring.pdf doc/blast/seedtop.html doc/blast/web_blast.pl /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/share/doc/ncbi-blast/ + rm -rf doc/blast + mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/share/ncbi/data + install -m 644 data/16SCore.nhr data/16SCore.nin data/16SCore.nsq data/64-matK-FINAL-aligned-DNA.fas.nhr data/64-matK-FINAL-aligned-DNA.fas.nin data/64-matK-FINAL-aligned-DNA.fas.nsq data/64-rbcL-FINAL-aligned-DNA.fas.nhr data/64-rbcL-FINAL-aligned-DNA.fas.nin data/64-rbcL-FINAL-aligned-DNA.fas.nsq data/BLOSUM45 data/BLOSUM50 data/BLOSUM62 data/BLOSUM80 data/BLOSUM90 data/Combined16SrRNA.nhr data/Combined16SrRNA.nin data/Combined16SrRNA.nsq data/Combined16SrRNA_2-12-2008.nhr data/Combined16SrRNA_2-12-2008.nin data/Combined16SrRNA_2-12-2008.nsq data/ContactPotential data/KSat.flt data/KSchoth.flt data/KSesigc.mat data/KSesigl.mat data/KSgc.flt data/KShopp.flt data/KSkyte.flt data/KSmtidk.mat data/KSmtk.mat data/KSnsigc.mat data/KSnsigl.mat data/KSpcc.mat data/KSpsigc.mat data/KSpsigl.mat data/KSpur.flt data/KSpyr.flt data/LSURef_93.fasta.nhr data/LSURef_93.fasta.nin data/LSURef_93.fasta.nsq data/PAM250 data/PAM30 data/PAM70 data/SSURef_93.fasta.nhr data/SSURef_93.fasta.nin data/SSURef_93.fasta.nsq data/UniVec.nhr data/UniVec.nin data/UniVec.nsq data/UniVec_Core.nhr data/UniVec_Core.nin data/UniVec_Core.nsq data/asn2ff.prt data/autofix.prt data/blast.prt data/bstdt.prt data/bstdt.val data/country_lat_lon.txt data/ecnum_ambiguous.txt data/ecnum_deleted.txt data/ecnum_replaced.txt data/ecnum_specific.txt data/featdef.prt data/featdef.val data/gc.prt data/gc.val data/humrep.fsa data/institution_codes.txt data/lat_lon_country.txt data/lat_lon_island.txt data/lat_lon_water.txt data/lineages.txt data/makerpt.prt data/ncbiendo.dat data/ncbipnam.dat data/ncbipros.dat data/ncbiren.dat data/ncbirnam.dat data/objprt.prt data/organelle_products.prt data/product_rules.prt data/pubkey.enc data/rRNA_blast.nal data/rRNAstrand.nal data/seqcode.prt data/seqcode.val data/sequin.hlp data/sgmlbb.ent data/taxlist.txt data/validrules.prt /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//usr/local/share/ncbi/data + cd network/wwwblast ++ find . -type d + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/. + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./data + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/test + for j in '`find . -type d`' + install -d -m 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/XML + mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/TmpGifs ++ find . -type f + for k in '`find . -type f`' + install -m 644 ./config_setup.pl /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./config_setup.pl + for k in '`find . -type f`' + install -m 644 ./wblast2_cs.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./wblast2_cs.html + for k in '`find . -type f`' + install -m 644 ./wblast2_cs.cgi /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./wblast2_cs.cgi + for k in '`find . -type f`' + install -m 644 ./wblast2.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./wblast2.html + for k in '`find . -type f`' + install -m 644 ./wblast2.cgi /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./wblast2.cgi + for k in '`find . -type f`' + install -m 644 ./rpsblast_cs.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./rpsblast_cs.html + for k in '`find . -type f`' + install -m 644 ./rpsblast.rc /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./rpsblast.rc + for k in '`find . -type f`' + install -m 644 ./rpsblast.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./rpsblast.html + for k in '`find . -type f`' + install -m 644 ./readme.txt /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./readme.txt + for k in '`find . -type f`' + install -m 644 ./readme.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./readme.html + for k in '`find . -type f`' + install -m 644 ./psiblast_cs.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./psiblast_cs.html + for k in '`find . -type f`' + install -m 644 ./psiblast_cs.cgi /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./psiblast_cs.cgi + for k in '`find . -type f`' + install -m 644 ./psiblast.rc /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./psiblast.rc + for k in '`find . -type f`' + install -m 644 ./psiblast.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./psiblast.html + for k in '`find . -type f`' + install -m 644 ./psiblast.cgi /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./psiblast.cgi + for k in '`find . -type f`' + install -m 644 ./ncbi_blast.rc /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./ncbi_blast.rc + for k in '`find . -type f`' + install -m 644 ./megablast_cs.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./megablast_cs.html + for k in '`find . -type f`' + install -m 644 ./megablast.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./megablast.html + for k in '`find . -type f`' + install -m 644 ./index.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./index.html + for k in '`find . -type f`' + install -m 644 ./discontiguous.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./discontiguous.html + for k in '`find . -type f`' + install -m 644 ./blast_cs.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./blast_cs.html + for k in '`find . -type f`' + install -m 644 ./blast_cs.cgi /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./blast_cs.cgi + for k in '`find . -type f`' + install -m 644 ./blast.rc /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./blast.rc + for k in '`find . -type f`' + install -m 644 ./blast.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./blast.html + for k in '`find . -type f`' + install -m 644 ./blast.cgi /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./blast.cgi + for k in '`find . -type f`' + install -m 644 ./README.rps /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./README.rps + for k in '`find . -type f`' + install -m 644 ./images/rpsblast.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/rpsblast.gif + for k in '`find . -type f`' + install -m 644 ./images/psi_blast.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/psi_blast.gif + for k in '`find . -type f`' + install -m 644 ./images/new.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/new.gif + for k in '`find . -type f`' + install -m 644 ./images/megablast_form.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/megablast_form.gif + for k in '`find . -type f`' + install -m 644 ./images/confused.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/confused.gif + for k in '`find . -type f`' + install -m 644 ./images/checked.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/checked.gif + for k in '`find . -type f`' + install -m 644 ./images/blast_results.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/blast_results.gif + for k in '`find . -type f`' + install -m 644 ./images/blast_form.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/blast_form.gif + for k in '`find . -type f`' + install -m 644 ./images/bl2seq.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/bl2seq.gif + for k in '`find . -type f`' + install -m 644 ./images/bg.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/bg.gif + for k in '`find . -type f`' + install -m 644 ./images/U.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/U.gif + for k in '`find . -type f`' + install -m 644 ./images/L.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/L.gif + for k in '`find . -type f`' + install -m 644 ./images/3.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/3.gif + for k in '`find . -type f`' + install -m 644 ./images/2.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/2.gif + for k in '`find . -type f`' + install -m 644 ./images/1.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/1.gif + for k in '`find . -type f`' + install -m 644 ./images/00.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/00.gif + for k in '`find . -type f`' + install -m 644 ./images/0.gif /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./images/0.gif + for k in '`find . -type f`' + install -m 644 ./docs/taxblasthelp.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/taxblasthelp.html + for k in '`find . -type f`' + install -m 644 ./docs/pattern.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/pattern.html + for k in '`find . -type f`' + install -m 644 ./docs/options.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/options.html + for k in '`find . -type f`' + install -m 644 ./docs/oof_notation.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/oof_notation.html + for k in '`find . -type f`' + install -m 644 ./docs/newoptions.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/newoptions.html + for k in '`find . -type f`' + install -m 644 ./docs/megablast_readme.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/megablast_readme.html + for k in '`find . -type f`' + install -m 644 ./docs/matrix_info.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/matrix_info.html + for k in '`find . -type f`' + install -m 644 ./docs/full_options.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/full_options.html + for k in '`find . -type f`' + install -m 644 ./docs/filtered.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/filtered.html + for k in '`find . -type f`' + install -m 644 ./docs/files.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/files.html + for k in '`find . -type f`' + install -m 644 ./docs/fasta.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/fasta.html + for k in '`find . -type f`' + install -m 644 ./docs/composition.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/composition.html + for k in '`find . -type f`' + install -m 644 ./docs/color_schema.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/color_schema.html + for k in '`find . -type f`' + install -m 644 ./docs/blast_program.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/blast_program.html + for k in '`find . -type f`' + install -m 644 ./docs/blast_help.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/blast_help.html + for k in '`find . -type f`' + install -m 644 ./docs/blast_databases.html /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./docs/blast_databases.html + for k in '`find . -type f`' + install -m 644 ./db/test_na_db.nsq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_na_db.nsq + for k in '`find . -type f`' + install -m 644 ./db/test_na_db.nin /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_na_db.nin + for k in '`find . -type f`' + install -m 644 ./db/test_na_db.nhr /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_na_db.nhr + for k in '`find . -type f`' + install -m 644 ./db/test_na_db /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_na_db + for k in '`find . -type f`' + install -m 644 ./db/test_aa_db.psq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_aa_db.psq + for k in '`find . -type f`' + install -m 644 ./db/test_aa_db.psi /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_aa_db.psi + for k in '`find . -type f`' + install -m 644 ./db/test_aa_db.psd /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_aa_db.psd + for k in '`find . -type f`' + install -m 644 ./db/test_aa_db.pni /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_aa_db.pni + for k in '`find . -type f`' + install -m 644 ./db/test_aa_db.pnd /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_aa_db.pnd + for k in '`find . -type f`' + install -m 644 ./db/test_aa_db.pin /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_aa_db.pin + for k in '`find . -type f`' + install -m 644 ./db/test_aa_db.phr /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_aa_db.phr + for k in '`find . -type f`' + install -m 644 ./db/test_aa_db /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/test_aa_db + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.sn /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.sn + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.rps /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.rps + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.psq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.psq + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.pn /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.pn + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.pin /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.pin + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.phr /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.phr + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.mn /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.mn + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.loo /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.loo + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db.aux /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db.aux + for k in '`find . -type f`' + install -m 644 ./db/CDD/test_CDD_db /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/test_CDD_db + for k in '`find . -type f`' + install -m 644 ./db/CDD/rpsfdb.csh /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/rpsfdb.csh + for k in '`find . -type f`' + install -m 644 ./db/CDD/make_cdd.csh /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/make_cdd.csh + for k in '`find . -type f`' + install -m 644 ./db/CDD/btg1.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/btg1.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/btg1.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/btg1.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/alkPPc.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/alkPPc.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/alkPPc.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/alkPPc.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/acidPPc.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/acidPPc.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/acidPPc.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/acidPPc.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ChtBD3.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ChtBD3.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ChtBD3.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ChtBD3.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ChtBD2.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ChtBD2.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ChtBD2.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ChtBD2.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ChtBD1.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ChtBD1.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ChtBD1.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ChtBD1.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CheW.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CheW.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CheW.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CheW.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ChSh.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ChSh.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ChSh.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ChSh.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/Calx_beta.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Calx_beta.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/Calx_beta.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Calx_beta.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CHROMO.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CHROMO.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CHROMO.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CHROMO.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CH.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CH.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CH.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CH.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CCP.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CCP.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CCP.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CCP.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CBS.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CBS.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CBS.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CBS.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CBF.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CBF.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CBF.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CBF.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CASc.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CASc.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CASc.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CASc.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CARD.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CARD.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CARD.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CARD.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CALCITONIN.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CALCITONIN.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CALCITONIN.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CALCITONIN.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CAD.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CAD.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CAD.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CAD.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/CA.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CA.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/CA.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/CA.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/C4.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/C4.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/C4.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/C4.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/C2.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/C2.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/C2.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/C2.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/C1Q.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/C1Q.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/C1Q.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/C1Q.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/C1.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/C1.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/C1.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/C1.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BowB.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BowB.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BowB.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BowB.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/B_lectin.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/B_lectin.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/B_lectin.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/B_lectin.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BTK.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BTK.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BTK.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BTK.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BTB.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BTB.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BTB.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BTB.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BROMO.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BROMO.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BROMO.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BROMO.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BRLZ.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BRLZ.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BRLZ.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BRLZ.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BRIGHT.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BRIGHT.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BRIGHT.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BRIGHT.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BRCT.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BRCT.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BRCT.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BRCT.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BPI2.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BPI2.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BPI2.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BPI2.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BPI1.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BPI1.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BPI1.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BPI1.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BIR.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BIR.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BIR.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BIR.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BHL.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BHL.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BHL.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BHL.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BH4.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BH4.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BH4.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BH4.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BCL.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BCL.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BCL.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BCL.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BBOX.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BBOX.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BBOX.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BBOX.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BBC.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BBC.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BBC.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BBC.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BASIC.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BASIC.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BASIC.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BASIC.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BAH.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BAH.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BAH.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BAH.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/BAG.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BAG.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/BAG.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/BAG.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/B41.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/B41.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/B41.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/B41.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ArfGap.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ArfGap.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ArfGap.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ArfGap.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/AXH.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AXH.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/AXH.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AXH.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/AT_hook.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AT_hook.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/AT_hook.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AT_hook.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ARM.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ARM.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ARM.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ARM.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ARF.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ARF.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ARF.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ARF.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/APPLE.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/APPLE.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/APPLE.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/APPLE.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/AP2Ec.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AP2Ec.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/AP2Ec.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AP2Ec.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/AP2.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AP2.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/AP2.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AP2.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ANX.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ANX.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ANX.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ANX.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ANK.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ANK.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ANK.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ANK.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ANATO.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ANATO.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ANATO.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ANATO.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ALBUMIN.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ALBUMIN.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ALBUMIN.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ALBUMIN.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ADF.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ADF.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ADF.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ADF.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/ACTIN.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ACTIN.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/ACTIN.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/ACTIN.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/AAI.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AAI.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/AAI.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AAI.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/AAA.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AAA.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/AAA.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/AAA.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/A4_EXTRA.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/A4_EXTRA.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/A4_EXTRA.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/A4_EXTRA.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/A1pp.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/A1pp.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/A1pp.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/A1pp.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/53EXOc.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/53EXOc.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/53EXOc.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/53EXOc.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/4.1m.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/4.1m.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/4.1m.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/4.1m.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/35EXOc.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/35EXOc.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/35EXOc.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/35EXOc.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/14_3_3.mtx /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/14_3_3.mtx + for k in '`find . -type f`' + install -m 644 ./db/CDD/14_3_3.csq /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/14_3_3.csq + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/btg1.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/btg1.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/alkPPc.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/alkPPc.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/acidPPc.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/acidPPc.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ChtBD3.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ChtBD3.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ChtBD2.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ChtBD2.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ChtBD1.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ChtBD1.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CheW.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CheW.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ChSh.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ChSh.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/Calx_beta.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/Calx_beta.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CHROMO.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CHROMO.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CH.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CH.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CCP.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CCP.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CBS.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CBS.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CBF.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CBF.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CASc.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CASc.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CARD.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CARD.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CALCITONIN.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CALCITONIN.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CAD.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CAD.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/CA.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/CA.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/C4.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/C4.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/C2.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/C2.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/C1Q.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/C1Q.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/C1.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/C1.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BowB.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BowB.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/B_lectin.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/B_lectin.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BTK.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BTK.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BTB.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BTB.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BROMO.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BROMO.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BRLZ.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BRLZ.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BRIGHT.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BRIGHT.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BRCT.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BRCT.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BPI2.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BPI2.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BPI1.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BPI1.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BIR.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BIR.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BHL.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BHL.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BH4.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BH4.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BCL.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BCL.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BBOX.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BBOX.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BBC.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BBC.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BASIC.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BASIC.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BAH.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BAH.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/BAG.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/BAG.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/B41.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/B41.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ArfGap.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ArfGap.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/AXH.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/AXH.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/AT_hook.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/AT_hook.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ARM.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ARM.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ARF.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ARF.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/APPLE.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/APPLE.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/AP2Ec.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/AP2Ec.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/AP2.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/AP2.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ANX.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ANX.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ANK.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ANK.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ANATO.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ANATO.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ALBUMIN.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ALBUMIN.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ADF.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ADF.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/ACTIN.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/ACTIN.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/AAI.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/AAI.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/AAA.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/AAA.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/A4_EXTRA.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/A4_EXTRA.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/A1pp.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/A1pp.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/53EXOc.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/53EXOc.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/4.1m.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/4.1m.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/35EXOc.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/35EXOc.chk + for k in '`find . -type f`' + install -m 644 ./db/CDD/Sun5.7_chk/14_3_3.chk /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./db/CDD/Sun5.7_chk/14_3_3.chk + for k in '`find . -type f`' + install -m 644 ./data/PAM70 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./data/PAM70 + for k in '`find . -type f`' + install -m 644 ./data/PAM30 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./data/PAM30 + for k in '`find . -type f`' + install -m 644 ./data/BLOSUM80 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./data/BLOSUM80 + for k in '`find . -type f`' + install -m 644 ./data/BLOSUM62 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./data/BLOSUM62 + for k in '`find . -type f`' + install -m 644 ./data/BLOSUM45 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./data/BLOSUM45 + for k in '`find . -type f`' + install -m 644 ./Src/wwwbutl.c /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/wwwbutl.c + for k in '`find . -type f`' + install -m 644 ./Src/wwwblast.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/wwwblast.h + for k in '`find . -type f`' + install -m 644 ./Src/wwwblast.c /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/wwwblast.c + for k in '`find . -type f`' + install -m 644 ./Src/wblast2.c /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/wblast2.c + for k in '`find . -type f`' + install -m 644 ./Src/viewgif.c /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/viewgif.c + for k in '`find . -type f`' + install -m 644 ./Src/showalignwrap.h /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/showalignwrap.h + for k in '`find . -type f`' + install -m 644 ./Src/showalignwrap.cpp /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/showalignwrap.cpp + for k in '`find . -type f`' + install -m 644 ./Src/psiblast.c /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/psiblast.c + for k in '`find . -type f`' + install -m 644 ./Src/bl2bag.c /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/bl2bag.c + for k in '`find . -type f`' + install -m 644 ./Src/Makefile.wblast2_cs /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/Makefile.wblast2_cs + for k in '`find . -type f`' + install -m 644 ./Src/Makefile /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/Makefile + for k in '`find . -type f`' + install -m 644 ./Src/test/run.pl /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/test/run.pl + for k in '`find . -type f`' + install -m 644 ./Src/XML/blstxml.asn /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/XML/blstxml.asn + for k in '`find . -type f`' + install -m 644 ./Src/XML/NCBI_Entity.mod /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/XML/NCBI_Entity.mod + for k in '`find . -type f`' + install -m 644 ./Src/XML/NCBI_BlastOutput.mod /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/XML/NCBI_BlastOutput.mod + for k in '`find . -type f`' + install -m 644 ./Src/XML/NCBI_BlastOutput.dtd /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/XML/NCBI_BlastOutput.dtd + for k in '`find . -type f`' + install -m 644 ./Src/XML/Makefile /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/./Src/XML/Makefile + cd /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/ ++ find . -name '*.cgi' + for m in '`find . -name '\''*.cgi'\''`' + chmod 755 ./blast.cgi + for m in '`find . -name '\''*.cgi'\''`' + chmod 755 ./blast_cs.cgi + for m in '`find . -name '\''*.cgi'\''`' + chmod 755 ./psiblast.cgi + for m in '`find . -name '\''*.cgi'\''`' + chmod 755 ./psiblast_cs.cgi + for m in '`find . -name '\''*.cgi'\''`' + chmod 755 ./wblast2.cgi + for m in '`find . -name '\''*.cgi'\''`' + chmod 755 ./wblast2_cs.cgi + for m in '`find . -name '\''*.cgi'\''`' + chmod 755 ./nph-viewgif.cgi + for m in '`find . -name '\''*.cgi'\''`' + chmod 755 ./bl2bag.cgi + chmod 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/db/CDD/rpsfdb.csh + chmod 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/db/CDD/make_cdd.csh + chmod 755 /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//var/lib/wwwblast/config_setup.pl + mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64//etc/apache2/conf.d + cat + /usr/lib/rpm/find-debuginfo.sh --strict-build-id -m --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 /builddir/build/BUILD/ncbi-6.1 extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/vecscreen extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/udv extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/testval extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/testobj extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/testcore extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/test_regexp extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/tbl2asn extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/taxblast extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/seqtest extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/seedtop extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/sbtedit extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/rpsblast extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/ncbisort extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/megablast extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/makeset extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/makemat extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/indexpub extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/impala extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/idfetch extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/gil2bin extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/getpub extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/getmesh extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/gene2xml extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/formatrpsdb extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/formatdb extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/findspl extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/fastacmd extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/fa2htgs extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/errhdr extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/entrez2 extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/entrcmd extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/dosimple extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/demo_regexp_grep extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/demo_regexp extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/debruijn extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/ddv extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/copymat extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/checksub extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/cdscan extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/blastpgp extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/blastclust extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/blastcl3 extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/blastall extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/bl2seq extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/asntool extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/asndhuff extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/asn2xml extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/asn2idx extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/asn2gb extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/asn2ff extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/Psequin extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/bin/Nentrez extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/var/lib/wwwblast/nph-viewgif.cgi extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/var/lib/wwwblast/bl2bag.cgi extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/var/lib/wwwblast/wblast2_cs.REAL extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/var/lib/wwwblast/wblast2.REAL extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/var/lib/wwwblast/psiblast_cs.REAL extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/var/lib/wwwblast/psiblast.REAL extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/var/lib/wwwblast/blast_cs.REAL extracting debug info from /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/var/lib/wwwblast/blast.REAL /usr/lib/rpm/sepdebugcrcfix: Updated 59 CRC32s, 1 CRC32s did match. 83206 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-compress + /usr/lib/rpm/redhat/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 + /usr/lib/rpm/redhat/brp-python-hardlink + /usr/lib/rpm/redhat/brp-java-repack-jars Processing files: ncbi-blast-6.1-4.29.x86_64 Provides: ncbi-blast = 6.1-4.29 ncbi-blast(x86-64) = 6.1-4.29 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.15)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.2.5)(64bit) libpthread.so.0(GLIBC_2.3.2)(64bit) rtld(GNU_HASH) Processing files: ncbi-tools-6.1-4.29.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.OLbfdI + umask 022 + cd /builddir/build/BUILD + cd ncbi-6.1 + DOCDIR=/builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/share/doc/ncbi-tools-6.1 + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/share/doc/ncbi-tools-6.1 + cp -pr ncbi/doc/FAQ.txt ncbi/doc/README.asn2xml ncbi/doc/README.sdk ncbi/doc/access.txt ncbi/doc/asn2gb.txt ncbi/doc/asn2gph.txt ncbi/doc/dispatcher.html ncbi/doc/fa2htgs ncbi/doc/firedialog.gif ncbi/doc/firewall.html ncbi/doc/fwd_check.sh ncbi/doc/gene2xml.txt ncbi/doc/images ncbi/doc/ncbixml.txt ncbi/doc/sdk.doc ncbi/doc/seq_install ncbi/doc/sequin.htm ncbi/doc/tbl2asn.txt /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64/usr/local/share/doc/ncbi-tools-6.1 + exit 0 Provides: ncbi-tools = 6.1-4.29 ncbi-tools(x86-64) = 6.1-4.29 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libICE.so.6()(64bit) libSM.so.6()(64bit) libX11.so.6()(64bit) libXext.so.6()(64bit) libXft.so.2()(64bit) libXm.so.4()(64bit) libXmu.so.6()(64bit) libXp.so.6()(64bit) libXt.so.6()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.15)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libdl.so.2()(64bit) libfontconfig.so.1()(64bit) libjpeg.so.62()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libpng15.so.15()(64bit) rtld(GNU_HASH) Processing files: ncbi-wwwblast-6.1-4.29.x86_64 warning: File listed twice: /var/lib/wwwblast/blast.rc warning: File listed twice: /var/lib/wwwblast/ncbi_blast.rc warning: File listed twice: /var/lib/wwwblast/psiblast.rc warning: File listed twice: /var/lib/wwwblast/rpsblast.rc Provides: config(ncbi-wwwblast) = 6.1-4.29 ncbi-wwwblast = 6.1-4.29 ncbi-wwwblast(x86-64) = 6.1-4.29 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /bin/csh /usr/bin/perl libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.15)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.2.5)(64bit) libpthread.so.0(GLIBC_2.3.2)(64bit) perl(strict) perl(vars) rtld(GNU_HASH) Processing files: ncbi-data-6.1-4.29.x86_64 Provides: ncbi-data = 6.1-4.29 ncbi-data(x86-64) = 6.1-4.29 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: ncbi-devel-6.1-4.29.x86_64 Provides: ncbi-devel = 6.1-4.29 ncbi-devel(x86-64) = 6.1-4.29 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: ncbi-debuginfo-6.1-4.29.x86_64 Provides: ncbi-debuginfo = 6.1-4.29 ncbi-debuginfo(x86-64) = 6.1-4.29 Requires(rpmlib): rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 rpmlib(CompressedFileNames) <= 3.0.4-1 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/ncbi-6.1-4.29.x86_64 warning: Could not canonicalize hostname: copr-builder-553177227.novalocal Wrote: /builddir/build/RPMS/ncbi-blast-6.1-4.29.x86_64.rpm Wrote: /builddir/build/RPMS/ncbi-tools-6.1-4.29.x86_64.rpm Wrote: /builddir/build/RPMS/ncbi-wwwblast-6.1-4.29.x86_64.rpm Wrote: /builddir/build/RPMS/ncbi-data-6.1-4.29.x86_64.rpm Wrote: /builddir/build/RPMS/ncbi-devel-6.1-4.29.x86_64.rpm Wrote: /builddir/build/RPMS/ncbi-debuginfo-6.1-4.29.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.OYUYWm + umask 022 + cd /builddir/build/BUILD + cd ncbi-6.1 + exit 0 Child return code was: 0 LEAVE do -->