sci-biology:newick-utils-1.6-r2:20241120-095516.log

sci-biology:newick-utils-1.6-r2:20241120-095516.log (text/plain), 10.63 KB, created by Toralf Förster on 2024-11-20 16:12:12 UTC

 * Package:    sci-biology/newick-utils-1.6-r2:0
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_64 amd64 elibc_glibc kernel_linux
 * FEATURES:   network-sandbox preserve-libs sandbox userpriv usersandbox

>>> Unpacking source...
>>> Unpacking newick-utils-1.6.tar.gz to /var/tmp/portage/sci-biology/newick-utils-1.6-r2/work
>>> Source unpacked in /var/tmp/portage/sci-biology/newick-utils-1.6-r2/work
>>> Preparing source in /var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6 ...
 * Applying newick-utils-1.6-deduplicate-libnw.patch ...
 [ ok ]
 * Applying newick-utils-1.6-fno-common.patch ...
 [ ok ]
 * Running eautoreconf in '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6' ...
 * Running 'libtoolize --install --copy --force --automake' ...
 [ ok ]
 * Running 'aclocal --system-acdir=/var/tmp/portage/sci-biology/newick-utils-1.6-r2/temp/aclocal' ...
 [ ok ]
 * Running 'autoconf --force' ...
 [ ok ]
 * Running 'autoheader --force' ...
 [ ok ]
 * Running 'automake --add-missing --copy --force-missing' ...
 [ ok ]
 * Running elibtoolize in: newick-utils-1.6/
 *   Applying portage/1.2.0 patch ...
 *   Applying sed/1.5.6 patch ...
 *   Applying verbose-pic/2.4.7 patch ...
 *   Applying clang-runtime-ltmain/2.4.7 patch ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6 ...
 * econf: updating newick-utils-1.6/config.guess with /usr/share/gnuconfig/config.guess
 * econf: updating newick-utils-1.6/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 --disable-static --docdir=/usr/share/doc/newick-utils-1.6-r2 --htmldir=/usr/share/doc/newick-utils-1.6-r2/html --with-sysroot=/ --libdir=/usr/lib64 --disable-static --without-guile --without-lua --without-libxml
configure: loading site script /usr/share/config.site
configure: loading site script /usr/share/config.site.d/80crossdev.conf
checking for a BSD-compatible install... /usr/lib/portage/python3.12/ebuild-helpers/xattr/install -c
checking whether sleep supports fractional seconds... yes
checking filesystem timestamp resolution... 0.01
checking whether build environment is sane... yes
checking for a race-free mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking xargs -n works... 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 whether make supports the include directive... yes (GNU style)
checking dependency style of x86_64-pc-linux-gnu-gcc... none
checking for bison... bison -y
checking for flex... flex
checking for lex output file root... lex.yy
checking for lex library... none needed
checking for library containing yywrap... -lfl
checking whether yytext is a pointer... 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... /usr/bin/sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/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 file... file
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... x86_64-pc-linux-gnu-dlltool
checking how to associate runtime and link libraries... printf %s\n
checking for x86_64-pc-linux-gnu-ranlib... x86_64-pc-linux-gnu-ranlib
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 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... /
checking for a working dd... /usr/bin/dd
checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
checking for x86_64-pc-linux-gnu-mt... no
checking for mt... mt
checking if mt is a manifest tool... no
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 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... no
checking for log in -lm... yes
checking for size_t... yes
checking for working alloca.h... yes
checking for alloca... yes
checking for egrep... (cached) /usr/bin/grep -E
checking for inttypes.h... (cached) yes
checking for libintl.h... yes
checking for malloc.h... yes
checking for stddef.h... yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for unistd.h... (cached) yes
configure: libXML disabled by user.
configure: Guile disabled by user.
configure: Lua disabled by user.
checking for an ANSI C-conforming const... yes
checking for GNU libc compatible malloc... yes
checking for GNU libc compatible realloc... yes
checking for working strtod... yes
checking for memset... yes
checking for rint... yes
checking for strdup... yes
checking for strpbrk... yes
checking for strspn... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating tests/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6 ...
make -O -j4 
make  all-recursive
Making all in src
make[2]: Entering directory '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6/src'
x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I..     -O2 -pipe -march=native -fno-diagnostics-color -c -o display.o display.c
display.c: In function ‘main’:
display.c:509:17: error: too many arguments to function ‘destroy_all_rnodes’
  509 |                 destroy_all_rnodes(node_destroyer);
      |                 ^~~~~~~~~~~~~~~~~~
In file included from display.c:42:
rnode.h:82:6: note: declared here
   82 | void destroy_all_rnodes();
      |      ^~~~~~~~~~~~~~~~~~
make[2]: *** [Makefile:784: display.o] Error 1
make[2]: Leaving directory '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6/src'
make[2]: *** Waiting for unfinished jobs....
make[2]: Entering directory '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6/src'
x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I..     -O2 -pipe -march=native -fno-diagnostics-color -c -o indent.o indent.c
make[2]: Leaving directory '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6/src'
make[2]: Entering directory '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6/src'
x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I..     -O2 -pipe -march=native -fno-diagnostics-color -c -o canvas.o canvas.c
make[2]: Leaving directory '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6/src'
make[2]: Entering directory '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6/src'
x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I..     -O2 -pipe -march=native -fno-diagnostics-color -c -o indent_lex.o indent_lex.c
make[2]: Leaving directory '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6/src'
make[1]: *** [Makefile:428: all-recursive] Error 1
make: *** [Makefile:360: all] Error 2
 * ERROR: sci-biology/newick-utils-1.6-r2::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-biology/newick-utils-1.6-r2::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-biology/newick-utils-1.6-r2::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-biology:newick-utils-1.6-r2:20241120-095516.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6'
 * S: '/var/tmp/portage/sci-biology/newick-utils-1.6-r2/work/newick-utils-1.6'