* Package: sci-biology/gibbs-3.1 * Repository: gentoo * Maintainer: sci-biology@gentoo.org * USE: abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox >>> Unpacking source... >>> Unpacking gibbs-3.1.tar.gz to /var/tmp/portage/sci-biology/gibbs-3.1/work >>> Source unpacked in /var/tmp/portage/sci-biology/gibbs-3.1/work >>> Preparing source in /var/tmp/portage/sci-biology/gibbs-3.1/work/gibbs-3.1 ... * Applying gibbs-3.1-fix-CFLAGS.patch ... [ ok ] * Running eautoreconf in '/var/tmp/portage/sci-biology/gibbs-3.1/work/gibbs-3.1' ... * Running aclocal ... [ ok ] * Running autoconf --force ... [ ok ] * Running automake --add-missing --copy --foreign --force-missing ... [ ok ] * Running elibtoolize in: gibbs-3.1/ >>> Source prepared. >>> Configuring source in /var/tmp/portage/sci-biology/gibbs-3.1/work/gibbs-3.1 ... * econf: updating gibbs-3.1/config.sub with /usr/share/gnuconfig/config.sub * econf: updating gibbs-3.1/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/gibbs-3.1 --htmldir=/usr/share/doc/gibbs-3.1/html --libdir=/usr/lib64 --disable-mpi checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking target system type... x86_64-pc-linux-gnu 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 the include directive... yes (GNU style) 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 dependency style of x86_64-pc-linux-gnu-gcc... none checking for expl in -lsunmath... no checking whether to enable debugging/mpi... checking for x86_64-pc-linux-gnu-gcc... (cached) x86_64-pc-linux-gnu-gcc checking whether we are using the GNU C compiler... (cached) yes checking whether x86_64-pc-linux-gnu-gcc accepts -g... (cached) yes checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... (cached) none needed checking whether x86_64-pc-linux-gnu-gcc understands -c and -o together... (cached) yes checking dependency style of x86_64-pc-linux-gnu-gcc... (cached) none checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: executing depfiles commands >>> Source configured. >>> Compiling source in /var/tmp/portage/sci-biology/gibbs-3.1/work/gibbs-3.1 ... make -j1 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-Gibbs.o `test -f 'Gibbs.c' || echo './'`Gibbs.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-Gibbs_NON_GUI.o `test -f 'Gibbs_NON_GUI.c' || echo './'`Gibbs_NON_GUI.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-calcstats.o `test -f 'calcstats.c' || echo './'`calcstats.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-centroid.o `test -f 'centroid.c' || echo './'`centroid.c centroid.c: In function ‘AlignCentroidModel’: centroid.c:432:14: warning: variable ‘RP’ set but not used [-Wunused-but-set-variable] 432 | RPType RP; | ^~ centroid.c: In function ‘WritePriorFile’: centroid.c:505:14: warning: variable ‘RP’ set but not used [-Wunused-but-set-variable] 505 | RPType RP; | ^~ centroid.c:504:14: warning: variable ‘IP’ set but not used [-Wunused-but-set-variable] 504 | IPtype IP; | ^~ centroid.c: In function ‘SortFastaFile’: centroid.c:564:14: warning: variable ‘tokenCnt’ set but not used [-Wunused-but-set-variable] 564 | int tokenCnt; | ^~~~~~~~ centroid.c: In function ‘WriteCentroidWilcoxon’: centroid.c:1177:3: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] 1177 | system( comStr ); | ^~~~~~~~~~~~~~~~ x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-column.o `test -f 'column.c' || echo './'`column.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-common.o `test -f 'common.c' || echo './'`common.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-counts.o `test -f 'counts.c' || echo './'`counts.c counts.c: In function ‘adjust_counts’: counts.c:507:10: warning: variable ‘compindex2’ set but not used [-Wunused-but-set-variable] 507 | int compindex2; | ^~~~~~~~~~ counts.c:504:46: warning: variable ‘last_back’ set but not used [-Wunused-but-set-variable] 504 | int curr_fwd, curr_back, last_fwd = -1, last_back; | ^~~~~~~~~ counts.c:502:16: warning: variable ‘compindex’ set but not used [-Wunused-but-set-variable] 502 | int n, J, compindex, orig_index; | ^~~~~~~~~ counts.c:500:23: warning: variable ‘mid’ set but not used [-Wunused-but-set-variable] 500 | int i, j, index, mid; | ^~~ x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-expectmax.o `test -f 'expectmax.c' || echo './'`expectmax.c expectmax.c: In function ‘print_EM_results’: expectmax.c:475:16: warning: variable ‘fpt’ set but not used [-Wunused-but-set-variable] 475 | FILE *fpt; | ^~~ expectmax.c:473:33: warning: variable ‘site_num’ set but not used [-Wunused-but-set-variable] 473 | int n, t=0, last_seq, site_num, i; | ^~~~~~~~ expectmax.c:473:23: warning: variable ‘last_seq’ set but not used [-Wunused-but-set-variable] 473 | int n, t=0, last_seq, site_num, i; | ^~~~~~~~ x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-fragadj.o `test -f 'fragadj.c' || echo './'`fragadj.c fragadj.c: In function ‘setFragCnts’: fragadj.c:465:9: warning: variable ‘bPrint’ set but not used [-Wunused-but-set-variable] 465 | int bPrint = FALSE; /* BT 3/31/97 - Debug */ | ^~~~~~ fragadj.c: In function ‘SetFragPos’: fragadj.c:682:10: warning: variable ‘IP’ set but not used [-Wunused-but-set-variable] 682 | IPtype IP; | ^~ x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-fragment.o `test -f 'fragment.c' || echo './'`fragment.c fragment.c: In function ‘LemonFModel’: fragment.c:943:18: warning: variable ‘start’ set but not used [-Wunused-but-set-variable] 943 | int colnum=0,start; | ^~~~~ fragment.c: In function ‘CheckRepeat’: fragment.c:1194:9: warning: variable ‘pos_comp’ set but not used [-Wunused-but-set-variable] 1194 | int pos_comp; | ^~~~~~~~ fragment.c:1190:9: warning: variable ‘end’ set but not used [-Wunused-but-set-variable] 1190 | int i,end; | ^~~ fragment.c:1189:7: warning: variable ‘oldstart’ set but not used [-Wunused-but-set-variable] 1189 | int oldstart=0; | ^~~~~~~~ fragment.c: In function ‘move_column_gibbs’: fragment.c:1678:11: warning: variable ‘frag_mid’ set but not used [-Wunused-but-set-variable] 1678 | int frag_mid; | ^~~~~~~~ fragment.c:1670:20: warning: variable ‘col_ref’ set but not used [-Wunused-but-set-variable] 1670 | int i=0,d,leng,col_ref,end; | ^~~~~~~ fragment.c:1670:15: warning: variable ‘leng’ set but not used [-Wunused-but-set-variable] 1670 | int i=0,d,leng,col_ref,end; | ^~~~ x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-freqbkgnd.o `test -f 'freqbkgnd.c' || echo './'`freqbkgnd.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-initseq.o `test -f 'initseq.c' || echo './'`initseq.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-karlin.o `test -f 'karlin.c' || echo './'`karlin.c karlin.c: In function ‘karlin’: karlin.c:151:2: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 151 | for (i=range=high-low;i> -low && !pr[i];--i); | ^~~ karlin.c:152:12: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 152 | printf("i = %ld range = %ld high = %ld low = %ld\n", | ^~~~~~ x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-maximize.o `test -f 'maximize.c' || echo './'`maximize.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-mem_mgmt.o `test -f 'mem_mgmt.c' || echo './'`mem_mgmt.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-motif.o `test -f 'motif.c' || echo './'`motif.c motif.c: In function ‘delete_motif’: motif.c:444:56: warning: ‘ model ’ directive writing 7 bytes into a region of size between 0 and 3 [-Wformat-overflow=] 444 | sprintf( msg, "Motif %d not found seq %d pos %d model %d\n", | ~~~^~~~ In file included from /usr/include/stdio.h:867, from common.h:77, from motif.h:77, from motif.c:75: /usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 39 and 79 bytes into a destination of size 32 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-motifsamp.o `test -f 'motifsamp.c' || echo './'`motifsamp.c motifsamp.c: In function ‘sample_motif’: motifsamp.c:94:7: warning: variable ‘count’ set but not used [-Wunused-but-set-variable] 94 | int count; | ^~~~~ x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-nearopt.o `test -f 'nearopt.c' || echo './'`nearopt.c x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"Gibbs\" -DPACKAGE_TARNAME=\"gibbs\" -DPACKAGE_VERSION=\"3.1\" -DPACKAGE_STRING=\"Gibbs\ 3.1\" -DPACKAGE_BUGREPORT=\"gibbs@brown.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"gibbs\" -DVERSION=\"3.1\" -I. -O2 -pipe -march=native -falign-functions=32:25:16 -fno-common -Wformat -Werror=format-security -O3 -Wall -c -o Gibbs-parameters.o `test -f 'parameters.c' || echo './'`parameters.c parameters.c: In function ‘strip_exchange’: parameters.c:1243:10: warning: variable ‘temp’ set but not used [-Wunused-but-set-variable] 1243 | int temp; | ^~~~ parameters.c: In function ‘strip_hierarchical’: parameters.c:1464:11: warning: variable ‘temp’ set but not used [-Wunused-but-set-variable] 1464 | int temp; | ^~~~ parameters.c: In function ‘stripargs’: parameters.c:1950:4: error: format not a string literal and no format arguments [-Werror=format-security] 1950 | printf( tmpstr ); | ^~~~~~ parameters.c:1545:17: warning: variable ‘temp’ set but not used [-Wunused-but-set-variable] 1545 | int i, t, temp, *nval; | ^~~~ parameters.c: In function ‘print_options’: parameters.c:2075:3: warning: ignoring return value of ‘getcwd’, declared with attribute warn_unused_result [-Wunused-result] 2075 | getcwd( currDir, PATH_MAX * sizeof( char ) + 1 ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ parameters.c: In function ‘strip_samplefile’: parameters.c:1046:56: warning: ‘%s’ directive writing up to 4351 bytes into a region of size 4321 [-Wformat-overflow=] 1046 | sprintf(tmpstr, "Cannot open p(k|R) output file %s", tName); | ^~ ~~~~~ In file included from /usr/include/stdio.h:867, from common.h:77, from parameters.h:75, from parameters.c:77: /usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 32 and 4383 bytes into a destination of size 4352 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ parameters.c:1017:61: warning: ‘%s’ directive writing up to 4351 bytes into a region of size 4316 [-Wformat-overflow=] 1017 | sprintf(tmpstr, "Cannot open probability output file %s", tName); | ^~ ~~~~~ In file included from /usr/include/stdio.h:867, from common.h:77, from parameters.h:75, from parameters.c:77: /usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 37 and 4388 bytes into a destination of size 4352 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ parameters.c:989:61: warning: ‘%s’ directive writing up to 4351 bytes into a region of size 4316 [-Wformat-overflow=] 989 | sprintf(tmpstr, "Cannot open sites prior output file %s", tName); | ^~ ~~~~~ In file included from /usr/include/stdio.h:867, from common.h:77, from parameters.h:75, from parameters.c:77: /usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 37 and 4388 bytes into a destination of size 4352 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ parameters.c:962:55: warning: ‘%s’ directive writing up to 4351 bytes into a region of size 4322 [-Wformat-overflow=] 962 | sprintf(tmpstr, "Cannot open sites output file %s", tName); | ^~ ~~~~~ In file included from /usr/include/stdio.h:867, from common.h:77, from parameters.h:75, from parameters.c:77: /usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 31 and 4382 bytes into a destination of size 4352 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ parameters.c:936:72: warning: ‘%s’ directive writing up to 4351 bytes into a region of size 4305 [-Wformat-overflow=] 936 | sprintf(tmpstr, "Cannot open near optimal occurence output file %s", | ^~ 937 | tName); | ~~~~~ In file included from /usr/include/stdio.h:867, from common.h:77, from parameters.h:75, from parameters.c:77: /usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 48 and 4399 bytes into a destination of size 4352 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ parameters.c:909:59: warning: ‘%s’ directive writing up to 4351 bytes into a region of size 4318 [-Wformat-overflow=] 909 | sprintf(tmpstr, "Cannot open occurence output file %s", tName); | ^~ ~~~~~ In file included from /usr/include/stdio.h:867, from common.h:77, from parameters.h:75, from parameters.c:77: /usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 35 and 4386 bytes into a destination of size 4352 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc1: some warnings being treated as errors make: *** [Makefile:791: Gibbs-parameters.o] Error 1 * ERROR: sci-biology/gibbs-3.1::gentoo failed (compile phase): * emake failed * * If you need support, post the output of `emerge --info '=sci-biology/gibbs-3.1::gentoo'`, * the complete build log and the output of `emerge -pqv '=sci-biology/gibbs-3.1::gentoo'`. * The complete build log is located at '/var/log/portage/sci-biology:gibbs-3.1:20200325-063523.log'. * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/gibbs-3.1/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-biology/gibbs-3.1/temp/environment'. * Working directory: '/var/tmp/portage/sci-biology/gibbs-3.1/work/gibbs-3.1' * S: '/var/tmp/portage/sci-biology/gibbs-3.1/work/gibbs-3.1'