Go to:
Gentoo Home
Documentation
Forums
Lists
Bugs
Planet
Store
Wiki
Get Gentoo!
Gentoo's Bugzilla – Attachment 607640 Details for
Bug 707166
sci-biology/meme-4.11.2_p2 : fails to build with -fno-common or gcc-10
Home
|
New
–
[Ex]
|
Browse
|
Search
|
Privacy Policy
|
[?]
|
Reports
|
Requests
|
Help
|
New Account
|
Log In
[x]
|
Forgot Password
Login:
[x]
sci-biology:meme-4.11.2_p2:20200129-020308.log
sci-biology:meme-4.11.2_p2:20200129-020308.log (text/plain), 137.11 KB, created by
Toralf Förster
on 2020-01-29 17:52:13 UTC
(
hide
)
Description:
sci-biology:meme-4.11.2_p2:20200129-020308.log
Filename:
MIME Type:
Creator:
Toralf Förster
Created:
2020-01-29 17:52:13 UTC
Size:
137.11 KB
patch
obsolete
> * Package: sci-biology/meme-4.11.2_p2 > * Repository: gentoo > * Maintainer: sci-biology@gentoo.org > * USE: abi_x86_64 amd64 elibc_glibc kernel_linux python_single_target_python2_7 python_targets_python2_7 userland_GNU > * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox >>>> Unpacking source... >>>> Unpacking meme_4.11.2.tar.gz to /var/tmp/portage/sci-biology/meme-4.11.2_p2/work >>>> Source unpacked in /var/tmp/portage/sci-biology/meme-4.11.2_p2/work >>>> Preparing source in /var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2 ... > * Applying meme-4.11.2_p2-patch1.patch ... > [ ok ] > * Applying meme-4.11.2_p2-patch2.patch ... > [ ok ] > * Applying meme-4.11.2_p2-fix-build-system.patch ... > [ ok ] > * Running eautoreconf in '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2' ... > * Running libtoolize --install --copy --force --automake ... > [ ok ] > * Running aclocal ... > [ ok ] > * Running autoconf --force ... > [ ok ] > * Running autoheader ... > [ ok ] > * Running automake --add-missing --copy --force-missing ... > [ ok ] > * Running elibtoolize in: meme_4.11.2/ > * Running elibtoolize in: meme_4.11.2/config/ > * Applying portage/1.2.0 patch ... > * Applying sed/1.5.6 patch ... > * Applying as-needed/2.4.3 patch ... > * Running elibtoolize in: meme_4.11.2/src/libxml2/ > * Applying portage/1.5.10 patch ... > * Applying sed/1.5.6 patch ... > * Applying as-needed/1.5 patch ... >>>> Source prepared. >>>> Configuring source in /var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2 ... > * econf: updating meme_4.11.2/config/config.sub with /usr/share/gnuconfig/config.sub > * econf: updating meme_4.11.2/config/config.guess with /usr/share/gnuconfig/config.guess >./configure --prefix=/usr --build=x86_64-pc-linux-gnu --host=x86_64-pc-linux-gnu --mandir=/usr/share/man --infodir=/usr/share/info --datadir=/usr/share --sysconfdir=/etc --localstatedir=/var/lib --disable-dependency-tracking --disable-silent-rules --docdir=/usr/share/doc/meme-4.11.2_p2 --htmldir=/usr/share/doc/meme-4.11.2_p2/html --libdir=/usr/lib64 --sysconfdir=/etc/meme --with-logs=/var/log/meme --with-perl=perl --with-convert=convert --with-gs=gs --disable-build-libxml2 --disable-build-libxslt --disable-debug --disable-doc --disable-examples --enable-serial --with-perl-dir=/lib64/perl5/vendor_perl/5.30.1 PYTHON=python2.7 >configure: loading site script /usr/share/config.site >checking for a BSD-compatible install... /usr/lib/portage/python3.6/ebuild-helpers/xattr/install -c >checking whether build environment is sane... yes >checking for a thread-safe mkdir -p... /bin/mkdir -p >checking for gawk... gawk >checking whether make sets $(MAKE)... yes >checking whether make supports nested variables... yes >checking whether make supports nested variables... (cached) yes >checking for x86_64-pc-linux-gnu-gcc... x86_64-pc-linux-gnu-gcc >checking whether the C compiler works... yes >checking for C compiler default output file name... a.out >checking for suffix of executables... >checking whether we are cross compiling... no >checking for suffix of object files... o >checking whether we are using the GNU C compiler... yes >checking whether x86_64-pc-linux-gnu-gcc accepts -g... yes >checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... none needed >checking whether x86_64-pc-linux-gnu-gcc understands -c and -o together... yes >checking whether make supports the include directive... yes (GNU style) >checking dependency style of x86_64-pc-linux-gnu-gcc... none >checking whether x86_64-pc-linux-gnu-gcc and cc understand -c and -o together... yes >checking build system type... x86_64-pc-linux-gnu >checking host system type... x86_64-pc-linux-gnu >checking how to print strings... printf >checking for a sed that does not truncate output... /bin/sed >checking for grep that handles long lines and -e... /bin/grep >checking for egrep... /bin/grep -E >checking for fgrep... /bin/grep -F >checking for ld used by x86_64-pc-linux-gnu-gcc... /usr/x86_64-pc-linux-gnu/bin/ld >checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld) is GNU ld... yes >checking for BSD- or MS-compatible name lister (nm)... /usr/bin/x86_64-pc-linux-gnu-nm -B >checking the name lister (/usr/bin/x86_64-pc-linux-gnu-nm -B) interface... BSD nm >checking whether ln -s works... yes >checking the maximum length of command line arguments... 1572864 >checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop >checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop >checking for /usr/x86_64-pc-linux-gnu/bin/ld option to reload object files... -r >checking for x86_64-pc-linux-gnu-objdump... x86_64-pc-linux-gnu-objdump >checking how to recognize dependent libraries... pass_all >checking for x86_64-pc-linux-gnu-dlltool... no >checking for dlltool... no >checking how to associate runtime and link libraries... printf %s\n >checking for x86_64-pc-linux-gnu-ar... x86_64-pc-linux-gnu-ar >checking for archiver @FILE support... @ >checking for x86_64-pc-linux-gnu-strip... x86_64-pc-linux-gnu-strip >checking for x86_64-pc-linux-gnu-ranlib... x86_64-pc-linux-gnu-ranlib >checking command to parse /usr/bin/x86_64-pc-linux-gnu-nm -B output from x86_64-pc-linux-gnu-gcc object... ok >checking for sysroot... no >checking for a working dd... /bin/dd >checking how to truncate binary pipes... /bin/dd bs=4096 count=1 >checking for x86_64-pc-linux-gnu-mt... no >checking for mt... no >checking if : is a manifest tool... no >checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E >checking for ANSI C header files... yes >checking for sys/types.h... yes >checking for sys/stat.h... yes >checking for stdlib.h... yes >checking for string.h... yes >checking for memory.h... yes >checking for strings.h... yes >checking for inttypes.h... yes >checking for stdint.h... yes >checking for unistd.h... yes >checking for dlfcn.h... yes >checking for objdir... .libs >checking if x86_64-pc-linux-gnu-gcc supports -fno-rtti -fno-exceptions... no >checking for x86_64-pc-linux-gnu-gcc option to produce PIC... -fPIC -DPIC >checking if x86_64-pc-linux-gnu-gcc PIC flag -fPIC -DPIC works... yes >checking if x86_64-pc-linux-gnu-gcc static flag -static works... yes >checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o... yes >checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o... (cached) yes >checking whether the x86_64-pc-linux-gnu-gcc linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes >checking whether -lc should be explicitly linked in... no >checking dynamic linker characteristics... GNU/Linux ld.so >checking how to hardcode library paths into programs... immediate >checking whether stripping libraries is possible... yes >checking if libtool supports shared libraries... yes >checking whether to build shared libraries... yes >checking whether to build static libraries... yes >checking whether make sets $(MAKE)... (cached) yes >checking for ld... /usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64 >checking for sed... (cached) /bin/sed >checking for sendmail... /usr/sbin/sendmail >checking for perl... /usr/bin/perl >checking for python... /var/tmp/portage/sci-biology/meme-4.11.2_p2/temp/python2.7/bin/python >checking for convert... /usr/bin/convert >checking for gs... /usr/bin/gs >checking for xml2-config... /usr/bin/xml2-config >checking for xslt-config... /usr/bin/xslt-config >checking for ant... /usr/bin/ant >checking for isnan, sqrt, log, exp, fabs, pow, floor, ceil in -lm... yes >checking for compress in -lz... yes >checking for ANSI C header files... (cached) yes >checking for sys/wait.h that is POSIX.1 compatible... yes >checking arpa/inet.h usability... yes >checking arpa/inet.h presence... yes >checking for arpa/inet.h... yes >checking ctype.h usability... yes >checking ctype.h presence... yes >checking for ctype.h... yes >checking fcntl.h usability... yes >checking fcntl.h presence... yes >checking for fcntl.h... yes >checking limits.h usability... yes >checking limits.h presence... yes >checking for limits.h... yes >checking netdb.h usability... yes >checking netdb.h presence... yes >checking for netdb.h... yes >checking netinet/in.h usability... yes >checking netinet/in.h presence... yes >checking for netinet/in.h... yes >checking for stdlib.h... (cached) yes >checking for string.h... (cached) yes >checking for strings.h... (cached) yes >checking sys/socket.h usability... yes >checking sys/socket.h presence... yes >checking for sys/socket.h... yes >checking sys/time.h usability... yes >checking sys/time.h presence... yes >checking for sys/time.h... yes >checking for unistd.h... (cached) yes >checking for an ANSI C-conforming const... yes >checking for stdbool.h that conforms to C99... yes >checking for _Bool... yes >checking for pid_t... yes >checking for size_t... yes >checking vfork.h usability... no >checking vfork.h presence... no >checking for vfork.h... no >checking for fork... yes >checking for vfork... yes >checking for working fork... yes >checking for working vfork... (cached) yes >checking for stdlib.h... (cached) yes >checking for GNU libc compatible malloc... yes >checking for stdlib.h... (cached) yes >checking for GNU libc compatible realloc... yes >checking return type of signal handlers... void >checking whether lstat correctly handles trailing slash... yes >checking whether stat accepts an empty string... no >checking for floor... yes >checking for getcwd... yes >checking for gethostbyname... yes >checking for isascii... yes >checking for memset... yes >checking for pow... yes >checking for rint... yes >checking for socket... yes >checking for sqrt... yes >checking for strchr... yes >checking for strcspn... yes >checking for strdup... yes >checking for strspn... yes >checking for strstr... yes >checking for strlcpy... no >checking for special C compiler options needed for large files... no >checking for _FILE_OFFSET_BITS value needed for large files... no >checking for mpicc... /usr/bin/mpicc >checking for mpirun... /usr/bin/mpirun >checking for MPI_Comm_rank in -lmpi... yes >checking for x86_64-pc-linux-gnu-pkg-config... /usr/bin/x86_64-pc-linux-gnu-pkg-config >checking pkg-config is at least version 0.9.0... yes >checking for LIBXML2... yes >checking for LIBXSLT... yes >checking for LIBEXSLT... yes >checking for python version... 2.7 >checking for python platform... linux2 >checking for python script directory... ${prefix}/lib64/python2.7/site-packages >checking for python extension module directory... ${exec_prefix}/lib64/python2.7/site-packages >checking that generated files are newer than configure... done >configure: creating ./config.status >config.status: creating Makefile >config.status: creating doc/Makefile >config.status: creating doc/css/Makefile >config.status: creating doc/examples/Makefile >config.status: creating doc/examples/compute_prior_dist_example_output_files/Makefile >config.status: creating doc/examples/sample_opal_scripts/Makefile >config.status: creating doc/images/Makefile >config.status: creating doc/js/Makefile >config.status: creating etc/Makefile >config.status: creating src/filters/Makefile >config.status: creating src/filters/purge/Makefile >config.status: creating src/filters/dust/Makefile >config.status: creating scripts/Makefile >config.status: creating src/Makefile >config.status: creating src/libxml2/Makefile >config.status: creating src/libxml2/include/Makefile >config.status: creating src/libxml2/include/libxml/Makefile >config.status: creating src/libxslt/Makefile >config.status: creating src/libexslt/Makefile >config.status: creating src/parallel/Makefile >config.status: creating tests/Makefile >config.status: creating tests/ame/Makefile >config.status: creating tests/centrimo/Makefile >config.status: creating tests/clustalw2fasta/Makefile >config.status: creating tests/common/Makefile >config.status: creating tests/common/motif.crp0/Makefile >config.status: creating tests/common/motif.Puf3p/Makefile >config.status: creating tests/create-priors/Makefile >config.status: creating tests/draw-mhmm/Makefile >config.status: creating tests/dreme/Makefile >config.status: creating tests/fasta-center/Makefile >config.status: creating tests/fimo/Makefile >config.status: creating tests/glam2/Makefile >config.status: creating tests/glam2scan/Makefile >config.status: creating tests/gomo/Makefile >config.status: creating tests/mast/Makefile >config.status: creating tests/mcast/Makefile >config.status: creating tests/meme/Makefile >config.status: creating tests/mhmm/Makefile >config.status: creating tests/mhmms/Makefile >config.status: creating tests/mhmmscan/Makefile >config.status: creating tests/motiph/Makefile >config.status: creating tests/psp-gen/Makefile >config.status: creating tests/qvalue/Makefile >config.status: creating tests/scaffold/Makefile >config.status: creating tests/spamo/Makefile >config.status: creating tests/scripts/Makefile >config.status: creating tests/tomtom/Makefile >config.status: creating tests/web/Makefile >config.status: creating config.h >config.status: executing depfiles commands >config.status: executing libtool commands >configure: WARNING: Neither Ghostscript or convert utilities were found. Png images won''t be generated from encapsulated postscript. >configure: All required and optional Perl modules were found. > > ======================== > Configuration parameters > ======================== > > Install path (prefix): /usr > Install UID: > Version: 4.11.2 > C compiler (CC): x86_64-pc-linux-gnu-gcc > C compiler flags (CFLAGS): -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common > C preproc flags (CPPFLAGS): -DUNIX -D__USE_FIXED_PROTOTYPES__ > Linker (LD): /usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64 > Linker flags (LDFLAGS): -Wl,-O1 -Wl,--as-needed > Special Libs (LIBS): -lmpi -lz -lm > MPICC x86_64-pc-linux-gnu-gcc > MPIRUN /usr/bin/mpirun > MPI_CMD > MPIINC > MPILIBDIR > MPIFLAGS > MEME URL: > PREVIOUS VERSION URL: > SERVER CONTACT: > DEVELOPER CONTACT: meme-suite@uw.edu > GO-SERVER URL: http://amigo.geneontology.org/cgi-bin/amigo/term_details?term=GO_TERM_ID > PERL: perl > PYTHON: /var/tmp/portage/sci-biology/meme-4.11.2_p2/temp/python2.7/bin/python > CONVERT: convert > GHOSTSCRIPT: gs > BUILD LIBXML2: > LIBXML2 compiler flags: -I/usr/include/libxml2 > LIBXML2 libs: -lxml2 > BUILD LIBXSLT: > LIBXSLT compiler flags: -I/usr/include/libxml2 > LIBXSLT libs: -lxslt -lm -lxml2 > MEME DB: ${prefix}/db > MEME LOGS: /var/log/meme > MEME TEMP FILES: > OPAL URL: no > OPAL DEPLOY DIRECTORY: > > Run the following commands to compile, test and install meme: > make > make test > make install >>>> Source configured. >>>> Compiling source in /var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2 ... >make -j1 >/bin/sed -e 's%@catalina.home@%%' -e 's%@version@%4.11.2%' -e 's%@site.url@%%' -e 's%@site.services@%no%' -e 's%@site.DN@%%' -e 's%@site.contact@%%' -e 's%@developer.contact@%meme-suite@uw.edu%' -e 's%@expiry@%4%' -e 's%@bin.dir@%/usr/bin%' -e 's%@etc.dir@%/etc/meme%' -e 's%@lib.dir@%/usr/lib64%' -e 's%@db.dir@%/usr/db%' -e 's%@sendmail@%/usr/sbin/sendmail%' -e 's%@quota@%%' MemeSuite.properties.in > MemeSuite.properties >make all-recursive >make[1]: Entering directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2' >Making all in src >make[2]: Entering directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src' >echo '#define MEME_DIR "/usr"' >dir.h >echo '#define ETC_DIR "/etc/meme" ' >> dir.h >echo '#define BIN_DIR "/usr/bin" ' >> dir.h >echo '#define TEMP_DIR "" ' >> dir.h >echo '#define REVISION "05f067b1c0a726a532a626d82e471844a3a40f54"' > projrel.h >echo '#define ARCHIVE_DATE "Thu May 05 14:58:55 2016 -0700"' >> projrel.h >make all-recursive >make[3]: Entering directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src' >Making all in filters >make[4]: Entering directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src/filters' >Making all in purge >make[5]: Entering directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src/filters/purge' >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o afnio.o afnio.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o alphabet.o alphabet.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o block.o block.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o dheap.o dheap.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o gblast.o gblast.c >gblast.c: In function âMakeGBlastâ: >gblast.c:110:2: warning: this âforâ clause does not guard... [-Wmisleading-indentation] > 110 | for(c=0; c <= nAlpha(A); c++) free(best[c]); free(best); > | ^~~ >gblast.c:110:47: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the âforâ > 110 | for(c=0; c <= nAlpha(A); c++) free(best[c]); free(best); > | ^~~~ >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o karlin.o karlin.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o mheap.o mheap.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o mlist.o mlist.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o pairaln.o pairaln.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o pmain.o pmain.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o purge.o purge.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o random.o random.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o seqset.o seqset.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o sequence.o sequence.c >sequence.c: In function âRandomizeSeqâ: >sequence.c:235:2: warning: this âifâ clause does not guard... [-Wmisleading-indentation] > 235 | if(E->info!=NULL)free(E->info); E->info = NULL; return E; > | ^~ >sequence.c:235:34: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the âifâ > 235 | if(E->info!=NULL)free(E->info); E->info = NULL; return E; > | ^ >sequence.c: In function âShuffleSeqâ: >sequence.c:290:2: warning: this âifâ clause does not guard... [-Wmisleading-indentation] > 290 | if(E->info!=NULL)free(E->info); E->info = NULL; > | ^~ >sequence.c:290:34: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the âifâ > 290 | if(E->info!=NULL)free(E->info); E->info = NULL; > | ^ >sequence.c: In function âShuffleSeq2â: >sequence.c:309:2: warning: this âifâ clause does not guard... [-Wmisleading-indentation] > 309 | if(E->info!=NULL)free(E->info); E->info = NULL; > | ^~ >sequence.c:309:34: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the âifâ > 309 | if(E->info!=NULL)free(E->info); E->info = NULL; > | ^ >/bin/sh ../../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -Wl,--as-needed -o purge afnio.o alphabet.o block.o dheap.o gblast.o karlin.o mheap.o mlist.o pairaln.o pmain.o purge.o random.o seqset.o sequence.o -lm -lmpi -lz -lm >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -o purge afnio.o alphabet.o block.o dheap.o gblast.o karlin.o mheap.o mlist.o pairaln.o pmain.o purge.o random.o seqset.o sequence.o -Wl,--as-needed -lmpi -lz -lm >make[5]: Leaving directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src/filters/purge' >Making all in dust >make[5]: Entering directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src/filters/dust' >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o tust.o tust.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o dust.o dust.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o getfa.o getfa.c >/bin/sh ../../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -Wl,--as-needed -o dust tust.o dust.o getfa.o -lmpi -lz -lm >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -o dust tust.o dust.o getfa.o -Wl,--as-needed -lmpi -lz -lm >make[5]: Leaving directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src/filters/dust' >make[5]: Entering directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src/filters' >make[5]: Nothing to be done for 'all-am'. >make[5]: Leaving directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src/filters' >make[4]: Leaving directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src/filters' >Making all in . >make[4]: Entering directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src' >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o alphtype-alphtype.o `test -f 'alphtype.c' || echo './'`alphtype.c >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-alignment.lo `test -f 'alignment.c' || echo './'`alignment.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c alignment.c -fPIC -DPIC -o .libs/libcommon_la-alignment.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c alignment.c -o libcommon_la-alignment.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-alph-in.lo `test -f 'alph-in.c' || echo './'`alph-in.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c alph-in.c -fPIC -DPIC -o .libs/libcommon_la-alph-in.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c alph-in.c -o libcommon_la-alph-in.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-alphabet.lo `test -f 'alphabet.c' || echo './'`alphabet.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c alphabet.c -fPIC -DPIC -o .libs/libcommon_la-alphabet.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c alphabet.c -o libcommon_la-alphabet.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-array.lo `test -f 'array.c' || echo './'`array.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c array.c -fPIC -DPIC -o .libs/libcommon_la-array.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c array.c -o libcommon_la-array.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-array-list.lo `test -f 'array-list.c' || echo './'`array-list.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c array-list.c -fPIC -DPIC -o .libs/libcommon_la-array-list.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c array-list.c -o libcommon_la-array-list.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-binary-search.lo `test -f 'binary-search.c' || echo './'`binary-search.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c binary-search.c -fPIC -DPIC -o .libs/libcommon_la-binary-search.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c binary-search.c -o libcommon_la-binary-search.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-binomial.lo `test -f 'binomial.c' || echo './'`binomial.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c binomial.c -fPIC -DPIC -o .libs/libcommon_la-binomial.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c binomial.c -o libcommon_la-binomial.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-build-hmm.lo `test -f 'build-hmm.c' || echo './'`build-hmm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c build-hmm.c -fPIC -DPIC -o .libs/libcommon_la-build-hmm.o >In file included from /usr/include/string.h:494, > from build-hmm.c:11: >In function âstrncpyâ, > inlined from âbuild_complete_stateâ at build-hmm.c:809:5, > inlined from âbuild_complete_hmmâ at build-hmm.c:1055:7: >/usr/include/bits/string_fortified.h:106:10: warning: â__builtin_strncpyâ specified bound 102 equals destination size [-Wstringop-truncation] > 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c build-hmm.c -o libcommon_la-build-hmm.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-buffer.lo `test -f 'buffer.c' || echo './'`buffer.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c buffer.c -fPIC -DPIC -o .libs/libcommon_la-buffer.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c buffer.c -o libcommon_la-buffer.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-ceqlogo.lo `test -f 'ceqlogo.c' || echo './'`ceqlogo.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c ceqlogo.c -fPIC -DPIC -o .libs/libcommon_la-ceqlogo.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c ceqlogo.c -o libcommon_la-ceqlogo.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-cisml.lo `test -f 'cisml.c' || echo './'`cisml.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c cisml.c -fPIC -DPIC -o .libs/libcommon_la-cisml.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c cisml.c -o libcommon_la-cisml.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-cisml-sax.lo `test -f 'cisml-sax.c' || echo './'`cisml-sax.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c cisml-sax.c -fPIC -DPIC -o .libs/libcommon_la-cisml-sax.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c cisml-sax.c -o libcommon_la-cisml-sax.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-clustalw-io.lo `test -f 'clustalw-io.c' || echo './'`clustalw-io.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c clustalw-io.c -fPIC -DPIC -o .libs/libcommon_la-clustalw-io.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c clustalw-io.c -o libcommon_la-clustalw-io.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-dp.lo `test -f 'dp.c' || echo './'`dp.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c dp.c -fPIC -DPIC -o .libs/libcommon_la-dp.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c dp.c -o libcommon_la-dp.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-dreme-sax.lo `test -f 'dreme-sax.c' || echo './'`dreme-sax.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c dreme-sax.c -fPIC -DPIC -o .libs/libcommon_la-dreme-sax.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c dreme-sax.c -o libcommon_la-dreme-sax.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-eps2png.lo `test -f 'eps2png.c' || echo './'`eps2png.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c eps2png.c -fPIC -DPIC -o .libs/libcommon_la-eps2png.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c eps2png.c -o libcommon_la-eps2png.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-empirical-qvalue.lo `test -f 'empirical-qvalue.c' || echo './'`empirical-qvalue.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c empirical-qvalue.c -fPIC -DPIC -o .libs/libcommon_la-empirical-qvalue.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c empirical-qvalue.c -o libcommon_la-empirical-qvalue.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-evomodel.lo `test -f 'evomodel.c' || echo './'`evomodel.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c evomodel.c -fPIC -DPIC -o .libs/libcommon_la-evomodel.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c evomodel.c -o libcommon_la-evomodel.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-fasta-io.lo `test -f 'fasta-io.c' || echo './'`fasta-io.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c fasta-io.c -fPIC -DPIC -o .libs/libcommon_la-fasta-io.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c fasta-io.c -o libcommon_la-fasta-io.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-fitevd.lo `test -f 'fitevd.c' || echo './'`fitevd.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c fitevd.c -fPIC -DPIC -o .libs/libcommon_la-fitevd.o >fitevd.c: In function âfit_score_distributionâ: >fitevd.c:867:14: warning: â%.2fâ directive writing between 3 and 313 bytes into a region of size between 0 and 4 [-Wformat-overflow=] > 867 | "Unable to estimate E-values because they don't follow " > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >fitevd.c:868:58: note: format string is defined here > 868 | "an exponential distribution (mu1 %.2f, mu2 %.2f).", > | ^~~~ >fitevd.c:867:14: note: assuming directive output of 4 bytes > 867 | "Unable to estimate E-values because they don't follow " > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >In file included from /usr/include/stdio.h:867, > from fitevd.h:3, > from fitevd.c:70: >/usr/include/bits/stdio2.h:36:10: note: â__builtin___sprintf_chkâ output between 102 and 722 bytes into a destination of size 100 > 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 37 | __bos (__s), __fmt, __va_arg_pack ()); > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c fitevd.c -o libcommon_la-fitevd.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-gendb.lo `test -f 'gendb.c' || echo './'`gendb.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c gendb.c -fPIC -DPIC -o .libs/libcommon_la-gendb.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c gendb.c -o libcommon_la-gendb.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-hash_table.lo `test -f 'hash_table.c' || echo './'`hash_table.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c hash_table.c -fPIC -DPIC -o .libs/libcommon_la-hash_table.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c hash_table.c -o libcommon_la-hash_table.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-heap.lo `test -f 'heap.c' || echo './'`heap.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c heap.c -fPIC -DPIC -o .libs/libcommon_la-heap.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c heap.c -o libcommon_la-heap.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-html-data.lo `test -f 'html-data.c' || echo './'`html-data.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c html-data.c -fPIC -DPIC -o .libs/libcommon_la-html-data.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c html-data.c -o libcommon_la-html-data.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-html-monolith.lo `test -f 'html-monolith.c' || echo './'`html-monolith.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c html-monolith.c -fPIC -DPIC -o .libs/libcommon_la-html-monolith.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c html-monolith.c -o libcommon_la-html-monolith.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-io.lo `test -f 'io.c' || echo './'`io.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c io.c -fPIC -DPIC -o .libs/libcommon_la-io.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c io.c -o libcommon_la-io.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-json-checker.lo `test -f 'json-checker.c' || echo './'`json-checker.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c json-checker.c -fPIC -DPIC -o .libs/libcommon_la-json-checker.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c json-checker.c -o libcommon_la-json-checker.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-json-reader.lo `test -f 'json-reader.c' || echo './'`json-reader.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c json-reader.c -fPIC -DPIC -o .libs/libcommon_la-json-reader.o >In file included from json-reader.c:2: >json-reader.c: In function ânext_tokenâ: >json-reader.c:596:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] > 596 | assert(jsonrd->token.state = TS_IN_PROGRESS); > | ^~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c json-reader.c -o libcommon_la-json-reader.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-json-writer.lo `test -f 'json-writer.c' || echo './'`json-writer.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c json-writer.c -fPIC -DPIC -o .libs/libcommon_la-json-writer.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c json-writer.c -o libcommon_la-json-writer.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-karlin.lo `test -f 'karlin.c' || echo './'`karlin.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c karlin.c -fPIC -DPIC -o .libs/libcommon_la-karlin.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c karlin.c -o libcommon_la-karlin.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-linked-list.lo `test -f 'linked-list.c' || echo './'`linked-list.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c linked-list.c -fPIC -DPIC -o .libs/libcommon_la-linked-list.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c linked-list.c -o libcommon_la-linked-list.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-log-hmm.lo `test -f 'log-hmm.c' || echo './'`log-hmm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c log-hmm.c -fPIC -DPIC -o .libs/libcommon_la-log-hmm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c log-hmm.c -o libcommon_la-log-hmm.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-logodds.lo `test -f 'logodds.c' || echo './'`logodds.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c logodds.c -fPIC -DPIC -o .libs/libcommon_la-logodds.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c logodds.c -o libcommon_la-logodds.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-mast-util.lo `test -f 'mast-util.c' || echo './'`mast-util.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mast-util.c -fPIC -DPIC -o .libs/libcommon_la-mast-util.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mast-util.c -o libcommon_la-mast-util.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-match.lo `test -f 'match.c' || echo './'`match.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c match.c -fPIC -DPIC -o .libs/libcommon_la-match.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c match.c -o libcommon_la-match.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-matrix.lo `test -f 'matrix.c' || echo './'`matrix.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c matrix.c -fPIC -DPIC -o .libs/libcommon_la-matrix.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c matrix.c -o libcommon_la-matrix.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-mcast-match.lo `test -f 'mcast-match.c' || echo './'`mcast-match.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mcast-match.c -fPIC -DPIC -o .libs/libcommon_la-mcast-match.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mcast-match.c -o libcommon_la-mcast-match.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-meme-sax.lo `test -f 'meme-sax.c' || echo './'`meme-sax.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c meme-sax.c -fPIC -DPIC -o .libs/libcommon_la-meme-sax.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c meme-sax.c -o libcommon_la-meme-sax.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-metameme.lo `test -f 'metameme.c' || echo './'`metameme.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c metameme.c -fPIC -DPIC -o .libs/libcommon_la-metameme.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c metameme.c -o libcommon_la-metameme.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-mhmm.lo `test -f 'mhmm.c' || echo './'`mhmm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mhmm.c -fPIC -DPIC -o .libs/libcommon_la-mhmm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mhmm.c -o libcommon_la-mhmm.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-mhmms.lo `test -f 'mhmms.c' || echo './'`mhmms.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mhmms.c -fPIC -DPIC -o .libs/libcommon_la-mhmms.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mhmms.c -o libcommon_la-mhmms.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-mhmmscan.lo `test -f 'mhmmscan.c' || echo './'`mhmmscan.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mhmmscan.c -fPIC -DPIC -o .libs/libcommon_la-mhmmscan.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mhmmscan.c -o libcommon_la-mhmmscan.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-mhmm-state.lo `test -f 'mhmm-state.c' || echo './'`mhmm-state.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mhmm-state.c -fPIC -DPIC -o .libs/libcommon_la-mhmm-state.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mhmm-state.c -o libcommon_la-mhmm-state.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif-in.lo `test -f 'motif-in.c' || echo './'`motif-in.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in.c -fPIC -DPIC -o .libs/libcommon_la-motif-in.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in.c -o libcommon_la-motif-in.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif-in-common.lo `test -f 'motif-in-common.c' || echo './'`motif-in-common.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-common.c -fPIC -DPIC -o .libs/libcommon_la-motif-in-common.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-common.c -o libcommon_la-motif-in-common.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif-in-dreme-xml.lo `test -f 'motif-in-dreme-xml.c' || echo './'`motif-in-dreme-xml.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-dreme-xml.c -fPIC -DPIC -o .libs/libcommon_la-motif-in-dreme-xml.o >motif-in-dreme-xml.c: In function âlocal_warning.constpropâ: >motif-in-dreme-xml.c:105:13: warning: âAlphabet warning: â directive output truncated writing 18 bytes into a region of size 1 [-Wformat-truncation=] > 105 | static void local_warning(CTX_T *data, char *format, ...) { > | ^~~~~~~~~~~~~ >In file included from /usr/include/stdio.h:867, > from motif-in-dreme-xml.c:3: >/usr/include/bits/stdio2.h:80:10: note: â__builtin___vsnprintf_chkâ output 21 or more bytes into a destination of size 1 > 80 | return __builtin___vsnprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 81 | __bos (__s), __fmt, __ap); > | ~~~~~~~~~~~~~~~~~~~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-dreme-xml.c -o libcommon_la-motif-in-dreme-xml.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif-in-meme-html.lo `test -f 'motif-in-meme-html.c' || echo './'`motif-in-meme-html.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-meme-html.c -fPIC -DPIC -o .libs/libcommon_la-motif-in-meme-html.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-meme-html.c -o libcommon_la-motif-in-meme-html.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif-in-meme-json.lo `test -f 'motif-in-meme-json.c' || echo './'`motif-in-meme-json.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-meme-json.c -fPIC -DPIC -o .libs/libcommon_la-motif-in-meme-json.o >motif-in-meme-json.c: In function âwarning.constpropâ: >motif-in-meme-json.c:71:13: warning: âAlphabet warning: â directive output truncated writing 18 bytes into a region of size 1 [-Wformat-truncation=] > 71 | static void warning(void *user_data, char *format, ...) { > | ^~~~~~~ >In file included from /usr/include/stdio.h:867, > from array.h:12, > from alphabet.h:12, > from alph-in.h:7, > from motif-in-meme-json.c:4: >/usr/include/bits/stdio2.h:80:10: note: â__builtin___vsnprintf_chkâ output 20 or more bytes into a destination of size 1 > 80 | return __builtin___vsnprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 81 | __bos (__s), __fmt, __ap); > | ~~~~~~~~~~~~~~~~~~~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-meme-json.c -o libcommon_la-motif-in-meme-json.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif-in-meme-text.lo `test -f 'motif-in-meme-text.c' || echo './'`motif-in-meme-text.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-meme-text.c -fPIC -DPIC -o .libs/libcommon_la-motif-in-meme-text.o >motif-in-meme-text.c: In function âwarning.constpropâ: >motif-in-meme-text.c:356:13: warning: âAlphabet warning: â directive output truncated writing 18 bytes into a region of size 1 [-Wformat-truncation=] > 356 | static void warning(MTEXT_T *parser, const char *format, ...) { > | ^~~~~~~ >In file included from /usr/include/stdio.h:867, > from motif-in-meme-text.c:5: >/usr/include/bits/stdio2.h:80:10: note: â__builtin___vsnprintf_chkâ output 21 or more bytes into a destination of size 1 > 80 | return __builtin___vsnprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 81 | __bos (__s), __fmt, __ap); > | ~~~~~~~~~~~~~~~~~~~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-meme-text.c -o libcommon_la-motif-in-meme-text.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif-in-meme-xml.lo `test -f 'motif-in-meme-xml.c' || echo './'`motif-in-meme-xml.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-meme-xml.c -fPIC -DPIC -o .libs/libcommon_la-motif-in-meme-xml.o >motif-in-meme-xml.c: In function âlocal_warning.constpropâ: >motif-in-meme-xml.c:175:13: warning: âAlphabet warning: â directive output truncated writing 18 bytes into a region of size 1 [-Wformat-truncation=] > 175 | static void local_warning(CTX_T *data, char *format, ...) { > | ^~~~~~~~~~~~~ >In file included from /usr/include/stdio.h:867, > from array.h:12, > from alphabet.h:12, > from alph-in.h:7, > from motif-in-meme-xml.c:7: >/usr/include/bits/stdio2.h:80:10: note: â__builtin___vsnprintf_chkâ output 21 or more bytes into a destination of size 1 > 80 | return __builtin___vsnprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 81 | __bos (__s), __fmt, __ap); > | ~~~~~~~~~~~~~~~~~~~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif-in-meme-xml.c -o libcommon_la-motif-in-meme-xml.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif.lo `test -f 'motif.c' || echo './'`motif.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif.c -fPIC -DPIC -o .libs/libcommon_la-motif.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif.c -o libcommon_la-motif.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motif_regexp.lo `test -f 'motif_regexp.c' || echo './'`motif_regexp.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif_regexp.c -fPIC -DPIC -o .libs/libcommon_la-motif_regexp.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motif_regexp.c -o libcommon_la-motif_regexp.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motifs.lo `test -f 'motifs.c' || echo './'`motifs.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motifs.c -fPIC -DPIC -o .libs/libcommon_la-motifs.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motifs.c -o libcommon_la-motifs.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-motiph-scoring.lo `test -f 'motiph-scoring.c' || echo './'`motiph-scoring.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motiph-scoring.c -fPIC -DPIC -o .libs/libcommon_la-motiph-scoring.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c motiph-scoring.c -o libcommon_la-motiph-scoring.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-mtwist.lo `test -f 'mtwist.c' || echo './'`mtwist.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mtwist.c -fPIC -DPIC -o .libs/libcommon_la-mtwist.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c mtwist.c -o libcommon_la-mtwist.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-object-list.lo `test -f 'object-list.c' || echo './'`object-list.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c object-list.c -fPIC -DPIC -o .libs/libcommon_la-object-list.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c object-list.c -o libcommon_la-object-list.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-order.lo `test -f 'order.c' || echo './'`order.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c order.c -fPIC -DPIC -o .libs/libcommon_la-order.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c order.c -o libcommon_la-order.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-data-block.lo `test -f 'data-block.c' || echo './'`data-block.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c data-block.c -fPIC -DPIC -o .libs/libcommon_la-data-block.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c data-block.c -o libcommon_la-data-block.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-data-block-reader.lo `test -f 'data-block-reader.c' || echo './'`data-block-reader.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c data-block-reader.c -fPIC -DPIC -o .libs/libcommon_la-data-block-reader.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c data-block-reader.c -o libcommon_la-data-block-reader.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-parser-message.lo `test -f 'parser-message.c' || echo './'`parser-message.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c parser-message.c -fPIC -DPIC -o .libs/libcommon_la-parser-message.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c parser-message.c -o libcommon_la-parser-message.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-prior-reader-from-psp.lo `test -f 'prior-reader-from-psp.c' || echo './'`prior-reader-from-psp.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c prior-reader-from-psp.c -fPIC -DPIC -o .libs/libcommon_la-prior-reader-from-psp.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c prior-reader-from-psp.c -o libcommon_la-prior-reader-from-psp.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-prior-reader-from-wig.lo `test -f 'prior-reader-from-wig.c' || echo './'`prior-reader-from-wig.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c prior-reader-from-wig.c -fPIC -DPIC -o .libs/libcommon_la-prior-reader-from-wig.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c prior-reader-from-wig.c -o libcommon_la-prior-reader-from-wig.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-prior-dist.lo `test -f 'prior-dist.c' || echo './'`prior-dist.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c prior-dist.c -fPIC -DPIC -o .libs/libcommon_la-prior-dist.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c prior-dist.c -o libcommon_la-prior-dist.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-pssm.lo `test -f 'pssm.c' || echo './'`pssm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c pssm.c -fPIC -DPIC -o .libs/libcommon_la-pssm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c pssm.c -o libcommon_la-pssm.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-pssm-distr.lo `test -f 'pssm-distr.c' || echo './'`pssm-distr.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c pssm-distr.c -fPIC -DPIC -o .libs/libcommon_la-pssm-distr.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c pssm-distr.c -o libcommon_la-pssm-distr.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-qvalue.lo `test -f 'qvalue.c' || echo './'`qvalue.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c qvalue.c -fPIC -DPIC -o .libs/libcommon_la-qvalue.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c qvalue.c -o libcommon_la-qvalue.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-ranksum_test.lo `test -f 'ranksum_test.c' || echo './'`ranksum_test.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c ranksum_test.c -fPIC -DPIC -o .libs/libcommon_la-ranksum_test.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c ranksum_test.c -o libcommon_la-ranksum_test.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-rdb-matrix.lo `test -f 'rdb-matrix.c' || echo './'`rdb-matrix.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c rdb-matrix.c -fPIC -DPIC -o .libs/libcommon_la-rdb-matrix.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c rdb-matrix.c -o libcommon_la-rdb-matrix.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-read-mhmm.lo `test -f 'read-mhmm.c' || echo './'`read-mhmm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c read-mhmm.c -fPIC -DPIC -o .libs/libcommon_la-read-mhmm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c read-mhmm.c -o libcommon_la-read-mhmm.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-read_sequence.lo `test -f 'read_sequence.c' || echo './'`read_sequence.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c read_sequence.c -fPIC -DPIC -o .libs/libcommon_la-read_sequence.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c read_sequence.c -o libcommon_la-read_sequence.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-red-black-tree.lo `test -f 'red-black-tree.c' || echo './'`red-black-tree.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c red-black-tree.c -fPIC -DPIC -o .libs/libcommon_la-red-black-tree.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c red-black-tree.c -o libcommon_la-red-black-tree.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-regex-utils.lo `test -f 'regex-utils.c' || echo './'`regex-utils.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c regex-utils.c -fPIC -DPIC -o .libs/libcommon_la-regex-utils.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c regex-utils.c -o libcommon_la-regex-utils.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-regress.lo `test -f 'regress.c' || echo './'`regress.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c regress.c -fPIC -DPIC -o .libs/libcommon_la-regress.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c regress.c -o libcommon_la-regress.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-reservoir.lo `test -f 'reservoir.c' || echo './'`reservoir.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c reservoir.c -fPIC -DPIC -o .libs/libcommon_la-reservoir.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c reservoir.c -o libcommon_la-reservoir.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-sax-parser-utils.lo `test -f 'sax-parser-utils.c' || echo './'`sax-parser-utils.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c sax-parser-utils.c -fPIC -DPIC -o .libs/libcommon_la-sax-parser-utils.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c sax-parser-utils.c -o libcommon_la-sax-parser-utils.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-scanned-sequence.lo `test -f 'scanned-sequence.c' || echo './'`scanned-sequence.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c scanned-sequence.c -fPIC -DPIC -o .libs/libcommon_la-scanned-sequence.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c scanned-sequence.c -o libcommon_la-scanned-sequence.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-scored-sites.lo `test -f 'scored-sites.c' || echo './'`scored-sites.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c scored-sites.c -fPIC -DPIC -o .libs/libcommon_la-scored-sites.o >In file included from /usr/include/string.h:494, > from macros.h:57, > from utils.h:17, > from array.h:13, > from scored-sites.c:11: >In function âstrncpyâ, > inlined from ânew_scored_siteâ at scored-sites.c:79:3, > inlined from âadd_scored_siteâ at scored-sites.c:125:30: >/usr/include/bits/string_fortified.h:106:10: warning: â__builtin_strncpyâ specified bound 100 equals destination size [-Wstringop-truncation] > 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >In function âstrncpyâ, > inlined from ânew_scored_siteâ at scored-sites.c:80:3, > inlined from âadd_scored_siteâ at scored-sites.c:125:30: >/usr/include/bits/string_fortified.h:106:10: warning: â__builtin_strncpyâ specified bound 100 equals destination size [-Wstringop-truncation] > 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >In function âstrncpyâ, > inlined from ânew_scored_siteâ at scored-sites.c:88:3, > inlined from âadd_scored_siteâ at scored-sites.c:125:30: >/usr/include/bits/string_fortified.h:106:10: warning: â__builtin_strncpyâ specified bound 100 equals destination size [-Wstringop-truncation] > 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c scored-sites.c -o libcommon_la-scored-sites.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-seq.lo `test -f 'seq.c' || echo './'`seq.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c seq.c -fPIC -DPIC -o .libs/libcommon_la-seq.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c seq.c -o libcommon_la-seq.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-seq-reader-from-fasta.lo `test -f 'seq-reader-from-fasta.c' || echo './'`seq-reader-from-fasta.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c seq-reader-from-fasta.c -fPIC -DPIC -o .libs/libcommon_la-seq-reader-from-fasta.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c seq-reader-from-fasta.c -o libcommon_la-seq-reader-from-fasta.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-simple-getopt.lo `test -f 'simple-getopt.c' || echo './'`simple-getopt.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c simple-getopt.c -fPIC -DPIC -o .libs/libcommon_la-simple-getopt.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c simple-getopt.c -o libcommon_la-simple-getopt.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-spearman-rank-correlation.lo `test -f 'spearman-rank-correlation.c' || echo './'`spearman-rank-correlation.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c spearman-rank-correlation.c -fPIC -DPIC -o .libs/libcommon_la-spearman-rank-correlation.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c spearman-rank-correlation.c -o libcommon_la-spearman-rank-correlation.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-string-builder.lo `test -f 'string-builder.c' || echo './'`string-builder.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c string-builder.c -fPIC -DPIC -o .libs/libcommon_la-string-builder.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c string-builder.c -o libcommon_la-string-builder.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-string-list.lo `test -f 'string-list.c' || echo './'`string-list.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c string-list.c -fPIC -DPIC -o .libs/libcommon_la-string-list.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c string-list.c -o libcommon_la-string-list.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-string-match.lo `test -f 'string-match.c' || echo './'`string-match.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c string-match.c -fPIC -DPIC -o .libs/libcommon_la-string-match.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c string-match.c -o libcommon_la-string-match.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-subst-matrix.lo `test -f 'subst-matrix.c' || echo './'`subst-matrix.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c subst-matrix.c -fPIC -DPIC -o .libs/libcommon_la-subst-matrix.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c subst-matrix.c -o libcommon_la-subst-matrix.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-substmatrix-table.lo `test -f 'substmatrix-table.c' || echo './'`substmatrix-table.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c substmatrix-table.c -fPIC -DPIC -o .libs/libcommon_la-substmatrix-table.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c substmatrix-table.c -o libcommon_la-substmatrix-table.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-transfac.lo `test -f 'transfac.c' || echo './'`transfac.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c transfac.c -fPIC -DPIC -o .libs/libcommon_la-transfac.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c transfac.c -o libcommon_la-transfac.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-tree.lo `test -f 'tree.c' || echo './'`tree.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c tree.c -fPIC -DPIC -o .libs/libcommon_la-tree.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c tree.c -o libcommon_la-tree.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-utils.lo `test -f 'utils.c' || echo './'`utils.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c utils.c -fPIC -DPIC -o .libs/libcommon_la-utils.o >In file included from /usr/include/string.h:494, > from utils.c:13: >In function âstrncpyâ, > inlined from âmake_path_to_fileâ at utils.c:104:5: >/usr/include/bits/string_fortified.h:106:10: warning: â__builtin_strncpyâ specified bound depends on the length of the source argument [-Wstringop-overflow=] > 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >utils.c: In function âmake_path_to_fileâ: >utils.c:100:31: note: length computed here > 100 | size_t directory_length = strlen(directory); > | ^~~~~~~~~~~~~~~~~ >In file included from /usr/include/string.h:494, > from utils.c:13: >In function âstrncpyâ, > inlined from âconcat_stringâ at utils.c:127:5: >/usr/include/bits/string_fortified.h:106:10: warning: â__builtin_strncpyâ specified bound depends on the length of the source argument [-Wstringop-overflow=] > 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >utils.c: In function âconcat_stringâ: >utils.c:123:26: note: length computed here > 123 | size_t string1_len = strlen(string1); > | ^~~~~~~~~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c utils.c -o libcommon_la-utils.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-wiggle-reader.lo `test -f 'wiggle-reader.c' || echo './'`wiggle-reader.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c wiggle-reader.c -fPIC -DPIC -o .libs/libcommon_la-wiggle-reader.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c wiggle-reader.c -o libcommon_la-wiggle-reader.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-write-mhmm.lo `test -f 'write-mhmm.c' || echo './'`write-mhmm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c write-mhmm.c -fPIC -DPIC -o .libs/libcommon_la-write-mhmm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c write-mhmm.c -o libcommon_la-write-mhmm.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-xlate-in.lo `test -f 'xlate-in.c' || echo './'`xlate-in.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c xlate-in.c -fPIC -DPIC -o .libs/libcommon_la-xlate-in.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c xlate-in.c -o libcommon_la-xlate-in.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-xml-out.lo `test -f 'xml-out.c' || echo './'`xml-out.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c xml-out.c -fPIC -DPIC -o .libs/libcommon_la-xml-out.o >xml-out.c: In function âxmlifyâ: >xml-out.c:123:9: warning: this âelseâ clause does not guard... [-Wmisleading-indentation] > 123 | else str_append(buffer, "	", 4); continue; > | ^~~~ >xml-out.c:123:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the âelseâ > 123 | else str_append(buffer, "	", 4); continue; > | ^~~~~~~~ >xml-out.c:126:9: warning: this âelseâ clause does not guard... [-Wmisleading-indentation] > 126 | else str_append(buffer, " ", 5); continue; > | ^~~~ >xml-out.c:126:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the âelseâ > 126 | else str_append(buffer, " ", 5); continue; > | ^~~~~~~~ >xml-out.c:129:9: warning: this âelseâ clause does not guard... [-Wmisleading-indentation] > 129 | else str_append(buffer, " ", 5); continue; > | ^~~~ >xml-out.c:129:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the âelseâ > 129 | else str_append(buffer, " ", 5); continue; > | ^~~~~~~~ >xml-out.c:132:9: warning: this âelseâ clause does not guard... [-Wmisleading-indentation] > 132 | else str_append(buffer, """, 6); continue; > | ^~~~ >xml-out.c:132:47: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the âelseâ > 132 | else str_append(buffer, """, 6); continue; > | ^~~~~~~~ >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c xml-out.c -o libcommon_la-xml-out.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o libcommon_la-xml-util.lo `test -f 'xml-util.c' || echo './'`xml-util.c >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c xml-util.c -fPIC -DPIC -o .libs/libcommon_la-xml-util.o >libtool: compile: x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c xml-util.c -o libcommon_la-xml-util.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -Wl,--as-needed -o libcommon.la libcommon_la-alignment.lo libcommon_la-alph-in.lo libcommon_la-alphabet.lo libcommon_la-array.lo libcommon_la-array-list.lo libcommon_la-binary-search.lo libcommon_la-binomial.lo libcommon_la-build-hmm.lo libcommon_la-buffer.lo libcommon_la-ceqlogo.lo libcommon_la-cisml.lo libcommon_la-cisml-sax.lo libcommon_la-clustalw-io.lo libcommon_la-dp.lo libcommon_la-dreme-sax.lo libcommon_la-eps2png.lo libcommon_la-empirical-qvalue.lo libcommon_la-evomodel.lo libcommon_la-fasta-io.lo libcommon_la-fitevd.lo libcommon_la-gendb.lo libcommon_la-hash_table.lo libcommon_la-heap.lo libcommon_la-html-data.lo libcommon_la-html-monolith.lo libcommon_la-io.lo libcommon_la-json-checker.lo libcommon_la-json-reader.lo libcommon_la-json-writer.lo libcommon_la-karlin.lo libcommon_la-linked-list.lo libcommon_la-log-hmm.lo libcommon_la-logodds.lo libcommon_la-mast-util.lo libcommon_la-match.lo libcommon_la-matrix.lo libcommon_la-mcast-match.lo libcommon_la-meme-sax.lo libcommon_la-metameme.lo libcommon_la-mhmm.lo libcommon_la-mhmms.lo libcommon_la-mhmmscan.lo libcommon_la-mhmm-state.lo libcommon_la-motif-in.lo libcommon_la-motif-in-common.lo libcommon_la-motif-in-dreme-xml.lo libcommon_la-motif-in-meme-html.lo libcommon_la-motif-in-meme-json.lo libcommon_la-motif-in-meme-text.lo libcommon_la-motif-in-meme-xml.lo libcommon_la-motif.lo libcommon_la-motif_regexp.lo libcommon_la-motifs.lo libcommon_la-motiph-scoring.lo libcommon_la-mtwist.lo libcommon_la-object-list.lo libcommon_la-order.lo libcommon_la-data-block.lo libcommon_la-data-block-reader.lo libcommon_la-parser-message.lo libcommon_la-prior-reader-from-psp.lo libcommon_la-prior-reader-from-wig.lo libcommon_la-prior-dist.lo libcommon_la-pssm.lo libcommon_la-pssm-distr.lo libcommon_la-qvalue.lo libcommon_la-ranksum_test.lo libcommon_la-rdb-matrix.lo libcommon_la-read-mhmm.lo libcommon_la-read_sequence.lo libcommon_la-red-black-tree.lo libcommon_la-regex-utils.lo libcommon_la-regress.lo libcommon_la-reservoir.lo libcommon_la-sax-parser-utils.lo libcommon_la-scanned-sequence.lo libcommon_la-scored-sites.lo libcommon_la-seq.lo libcommon_la-seq-reader-from-fasta.lo libcommon_la-simple-getopt.lo libcommon_la-spearman-rank-correlation.lo libcommon_la-string-builder.lo libcommon_la-string-list.lo libcommon_la-string-match.lo libcommon_la-subst-matrix.lo libcommon_la-substmatrix-table.lo libcommon_la-transfac.lo libcommon_la-tree.lo libcommon_la-utils.lo libcommon_la-wiggle-reader.lo libcommon_la-write-mhmm.lo libcommon_la-xlate-in.lo libcommon_la-xml-out.lo libcommon_la-xml-util.lo -lxml2 -lxslt -lm -lxml2 -lexslt -lxslt -lm -lgcrypt -lgpg-error -lxml2 -lm -lmpi -lz -lm >libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcommon.a .libs/libcommon_la-alignment.o .libs/libcommon_la-alph-in.o .libs/libcommon_la-alphabet.o .libs/libcommon_la-array.o .libs/libcommon_la-array-list.o .libs/libcommon_la-binary-search.o .libs/libcommon_la-binomial.o .libs/libcommon_la-build-hmm.o .libs/libcommon_la-buffer.o .libs/libcommon_la-ceqlogo.o .libs/libcommon_la-cisml.o .libs/libcommon_la-cisml-sax.o .libs/libcommon_la-clustalw-io.o .libs/libcommon_la-dp.o .libs/libcommon_la-dreme-sax.o .libs/libcommon_la-eps2png.o .libs/libcommon_la-empirical-qvalue.o .libs/libcommon_la-evomodel.o .libs/libcommon_la-fasta-io.o .libs/libcommon_la-fitevd.o .libs/libcommon_la-gendb.o .libs/libcommon_la-hash_table.o .libs/libcommon_la-heap.o .libs/libcommon_la-html-data.o .libs/libcommon_la-html-monolith.o .libs/libcommon_la-io.o .libs/libcommon_la-json-checker.o .libs/libcommon_la-json-reader.o .libs/libcommon_la-json-writer.o .libs/libcommon_la-karlin.o .libs/libcommon_la-linked-list.o .libs/libcommon_la-log-hmm.o .libs/libcommon_la-logodds.o .libs/libcommon_la-mast-util.o .libs/libcommon_la-match.o .libs/libcommon_la-matrix.o .libs/libcommon_la-mcast-match.o .libs/libcommon_la-meme-sax.o .libs/libcommon_la-metameme.o .libs/libcommon_la-mhmm.o .libs/libcommon_la-mhmms.o .libs/libcommon_la-mhmmscan.o .libs/libcommon_la-mhmm-state.o .libs/libcommon_la-motif-in.o .libs/libcommon_la-motif-in-common.o .libs/libcommon_la-motif-in-dreme-xml.o .libs/libcommon_la-motif-in-meme-html.o .libs/libcommon_la-motif-in-meme-json.o .libs/libcommon_la-motif-in-meme-text.o .libs/libcommon_la-motif-in-meme-xml.o .libs/libcommon_la-motif.o .libs/libcommon_la-motif_regexp.o .libs/libcommon_la-motifs.o .libs/libcommon_la-motiph-scoring.o .libs/libcommon_la-mtwist.o .libs/libcommon_la-object-list.o .libs/libcommon_la-order.o .libs/libcommon_la-data-block.o .libs/libcommon_la-data-block-reader.o .libs/libcommon_la-parser-message.o .libs/libcommon_la-prior-reader-from-psp.o .libs/libcommon_la-prior-reader-from-wig.o .libs/libcommon_la-prior-dist.o .libs/libcommon_la-pssm.o .libs/libcommon_la-pssm-distr.o .libs/libcommon_la-qvalue.o .libs/libcommon_la-ranksum_test.o .libs/libcommon_la-rdb-matrix.o .libs/libcommon_la-read-mhmm.o .libs/libcommon_la-read_sequence.o .libs/libcommon_la-red-black-tree.o .libs/libcommon_la-regex-utils.o .libs/libcommon_la-regress.o .libs/libcommon_la-reservoir.o .libs/libcommon_la-sax-parser-utils.o .libs/libcommon_la-scanned-sequence.o .libs/libcommon_la-scored-sites.o .libs/libcommon_la-seq.o .libs/libcommon_la-seq-reader-from-fasta.o .libs/libcommon_la-simple-getopt.o .libs/libcommon_la-spearman-rank-correlation.o .libs/libcommon_la-string-builder.o .libs/libcommon_la-string-list.o .libs/libcommon_la-string-match.o .libs/libcommon_la-subst-matrix.o .libs/libcommon_la-substmatrix-table.o .libs/libcommon_la-transfac.o .libs/libcommon_la-tree.o .libs/libcommon_la-utils.o .libs/libcommon_la-wiggle-reader.o .libs/libcommon_la-write-mhmm.o .libs/libcommon_la-xlate-in.o .libs/libcommon_la-xml-out.o .libs/libcommon_la-xml-util.o >libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcommon.a >libtool: link: ( cd ".libs" && rm -f "libcommon.la" && ln -s "../libcommon.la" "libcommon.la" ) >/bin/sh ../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -Wl,--as-needed -o alphtype alphtype-alphtype.o libcommon.la -lmpi -lz -lm >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -o alphtype alphtype-alphtype.o -Wl,--as-needed ./.libs/libcommon.a -lexslt -lxslt -lgcrypt -lgpg-error -lxml2 -lmpi -lz -lm >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o ama-ama.o `test -f 'ama.c' || echo './'`ama.c >/bin/sh ../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -Wl,--as-needed -o ama ama-ama.o libcommon.la -lxml2 -lmpi -lz -lm >libtool: link: x86_64-pc-linux-gnu-gcc -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -o ama ama-ama.o -Wl,--as-needed ./.libs/libcommon.a -lexslt -lxslt -lgcrypt -lgpg-error -lxml2 -lmpi -lz -lm >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -DMAIN -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o ame-ame.o `test -f 'ame.c' || echo './'`ame.c >ame.c:82:12: warning: duplicate âconstâ declaration specifier [-Wduplicate-decl-specifier] > 82 | const char const *pvalue_method_names[] = {"Wilcoxon rank-sum test", "Fisher's exact test", "multihg", > | ^~~~~ >ame.c:84:12: warning: duplicate âconstâ declaration specifier [-Wduplicate-decl-specifier] > 84 | const char const *scoring_method_names[] = {"avg_odds", "max_odds", "sum_odds", > | ^~~~~ >ame.c:86:12: warning: duplicate âconstâ declaration specifier [-Wduplicate-decl-specifier] > 86 | const char const *bg_format_names[] = {"uniform", "motif", "file"}; > | ^~~~~ >ame.c: In function ârsc_getoptâ: >ame.c:532:30: warning: argument 1 range [18446744071562067970, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] > 532 | args.commandline = (char*) malloc(sizeof(char)*(line_length+argc)); > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >In file included from ame.c:18: >/usr/include/stdlib.h:539:14: note: in a call to allocation function âmallocâ declared here > 539 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ > | ^~~~~~ >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -DMAIN -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o ame-ramen_scan.o `test -f 'ramen_scan.c' || echo './'`ramen_scan.c >x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I.. -DUNIX -D__USE_FIXED_PROTOTYPES__ -DMAIN -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -c -o ame-fisher_exact.o `test -f 'fisher_exact.c' || echo './'`fisher_exact.c >/bin/sh ../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -DMAIN -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -Wl,--as-needed -o ame ame-ame.o ame-ramen_scan.o ame-fisher_exact.o libcommon.la -lxml2 -lm -lmpi -lz -lm >libtool: link: x86_64-pc-linux-gnu-gcc -DMAIN -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -O2 -pipe -march=native -fno-common -Wl,-O1 -o ame ame-ame.o ame-ramen_scan.o ame-fisher_exact.o -Wl,--as-needed ./.libs/libcommon.a -lexslt -lxslt -lgcrypt -lgpg-error -lxml2 -lmpi -lz -lm >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ame-fisher_exact.o:(.bss+0x20): multiple definition of `log_factorial'; ame-ame.o:(.bss+0x0): first defined here >collect2: error: ld returned 1 exit status >make[4]: *** [Makefile:1813: ame] Error 1 >make[4]: Leaving directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src' >make[3]: *** [Makefile:4386: all-recursive] Error 1 >make[3]: Leaving directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src' >make[2]: *** [Makefile:1702: all] Error 2 >make[2]: Leaving directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2/src' >make[1]: *** [Makefile:734: all-recursive] Error 1 >make[1]: Leaving directory '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2' >make: *** [Makefile:665: all] Error 2 > * ERROR: sci-biology/meme-4.11.2_p2::gentoo failed (compile phase): > * emake failed > * > * If you need support, post the output of `emerge --info '=sci-biology/meme-4.11.2_p2::gentoo'`, > * the complete build log and the output of `emerge -pqv '=sci-biology/meme-4.11.2_p2::gentoo'`. > * The complete build log is located at '/var/log/portage/sci-biology:meme-4.11.2_p2:20200129-020308.log'. > * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/meme-4.11.2_p2/temp/build.log'. > * The ebuild environment file is located at '/var/tmp/portage/sci-biology/meme-4.11.2_p2/temp/environment'. > * Working directory: '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2' > * S: '/var/tmp/portage/sci-biology/meme-4.11.2_p2/work/meme_4.11.2'
<b>You cannot view the attachment while viewing its details because your browser does not support IFRAMEs. <a href="attachment.cgi?id=607640">View the attachment on a separate page</a>.</b>
View Attachment As Raw
Actions:
View
Attachments on
bug 707166
:
607630
|
607632
|
607634
|
607636
|
607638
| 607640 |
607642
