sci-biology:yass-1.14-r3:20231204-101733.log

sci-biology:yass-1.14-r3:20231204-101733.log (text/plain), 8.81 KB, created by Toralf Förster on 2023-12-04 20:12:55 UTC

 * Package:    sci-biology/yass-1.14-r3:0
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_64 amd64 dmalloc elibc_glibc kernel_linux lowmem
 * FEATURES:   network-sandbox preserve-libs sandbox userpriv usersandbox

>>> Unpacking source...
>>> Unpacking yass-1.14.tar.gz to /var/tmp/portage/sci-biology/yass-1.14-r3/work
>>> Source unpacked in /var/tmp/portage/sci-biology/yass-1.14-r3/work
>>> Preparing source in /var/tmp/portage/sci-biology/yass-1.14-r3/work/yass-1.14 ...
 * Applying 1.14-as-needed.patch ...
 [ ok ]
 * Running eautoreconf in '/var/tmp/portage/sci-biology/yass-1.14-r3/work/yass-1.14' ...
 * Running 'aclocal --system-acdir=/var/tmp/portage/sci-biology/yass-1.14-r3/temp/aclocal' ...
 [ ok ]
 * Running 'autoconf --force' ...
 [ ok ]
 * Running 'automake --add-missing --copy --force-missing' ...
 [ ok ]
 * Running elibtoolize in: yass-1.14/
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/yass-1.14-r3/work/yass-1.14 ...
 * econf: updating yass-1.14/build/config.guess with /usr/share/gnuconfig/config.guess
 * econf: updating yass-1.14/build/config.sub with /usr/share/gnuconfig/config.sub
 * econf: updating yass-1.14/config.guess with /usr/share/gnuconfig/config.guess
 * econf: updating yass-1.14/config.sub with /usr/share/gnuconfig/config.sub
./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 --datarootdir=/usr/share --disable-dependency-tracking --disable-silent-rules --docdir=/usr/share/doc/yass-1.14-r3 --htmldir=/usr/share/doc/yass-1.14-r3/html --libdir=/usr/lib64 --disable-threads --enable-lowmemory --with-dmalloc
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 whether make sets $(MAKE)... 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 the compiler supports GNU C... yes
checking whether x86_64-pc-linux-gnu-gcc accepts -g... yes
checking for x86_64-pc-linux-gnu-gcc option to enable C11 features... none needed
checking whether x86_64-pc-linux-gnu-gcc understands -c and -o together... yes
checking for a BSD-compatible install... /usr/lib/portage/python3.11/ebuild-helpers/xattr/install -c
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for sys/time.h... yes
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for assert.h... yes
checking for math.h... yes
checking for errno.h... yes
checking for inline... inline
checking for error_at_line... yes
checking for GNU libc compatible malloc... yes
checking for working strtod... yes
checking for floor... no
checking for memset... yes
checking for clock... yes
checking for pow... no
checking for sqrt... no
checking for strchr... yes
checking for strdup... yes
checking for strtol... yes
checking for strtoul... yes
detected memory parameter: low memory
checking if malloc debugging is wanted... yes
checking whether build environment is sane... yes
checking for a race-free mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking whether make supports the include directive... yes (GNU style)
checking whether make supports nested variables... yes
checking dependency style of x86_64-pc-linux-gnu-gcc... none
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 src/Makefile
config.status: executing depfiles commands
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/yass-1.14-r3/work/yass-1.14 ...
make -j4 
Making all in src
make[1]: Entering directory '/var/tmp/portage/sci-biology/yass-1.14-r3/work/yass-1.14/src'
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DHAVE_SYS_TIME_H=1 -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DWITH_DMALLOC=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O3 -pipe -march=native -fno-diagnostics-color -DLOW_MEMORY  -c -o align.o align.c
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DHAVE_SYS_TIME_H=1 -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DWITH_DMALLOC=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O3 -pipe -march=native -fno-diagnostics-color -DLOW_MEMORY  -c -o assemble.o assemble.c
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DHAVE_SYS_TIME_H=1 -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DWITH_DMALLOC=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O3 -pipe -march=native -fno-diagnostics-color -DLOW_MEMORY  -c -o avl.o avl.c
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DHAVE_SYS_TIME_H=1 -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DWITH_DMALLOC=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O3 -pipe -march=native -fno-diagnostics-color -DLOW_MEMORY  -c -o display.o display.c
assemble.c: In function ‘Assemble_Single’:
assemble.c:116:94: error: implicit declaration of function ‘hashVerifie’ [-Wimplicit-function-declaration]
  116 | )        putHashOneDiagValue (&table,index,(long int)value);hashVerifie(&table,"here",index);
      |                                                             ^~~~~~~~~~~

assemble.c:305:19: note: in expansion of macro ‘PUT_TAB’
  305 |                   PUT_TAB(last_tuple_ptr_with_diag,observed_diagonal,t);
      |                   ^~~~~~~
make[1]: *** [Makefile:399: assemble.o] Error 1
make[1]: *** Waiting for unfinished jobs....
make[1]: Leaving directory '/var/tmp/portage/sci-biology/yass-1.14-r3/work/yass-1.14/src'
make: *** [Makefile:358: all-recursive] Error 1
 * ERROR: sci-biology/yass-1.14-r3::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-biology/yass-1.14-r3::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-biology/yass-1.14-r3::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-biology:yass-1.14-r3:20231204-101733.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/yass-1.14-r3/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-biology/yass-1.14-r3/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-biology/yass-1.14-r3/work/yass-1.14'
 * S: '/var/tmp/portage/sci-biology/yass-1.14-r3/work/yass-1.14'