sci-biology:gibbs-3.1:20200325-063523.log

sci-biology:gibbs-3.1:20200325-063523.log (text/plain), 23.09 KB, created by Toralf Förster on 2020-03-25 08:16:52 UTC

 * Package:    sci-biology/gibbs-3.1
 * Repository: gentoo
 * Maintainer: [e-mail]
 * 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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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=\"[e-mail]\" -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'