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Gentoo's Bugzilla – Attachment 758999 Details for
Bug 829197
sci-libs/matio-1.5.23 - getopt_long.c: fatal error: sys/cdefs.h: No such file or directory
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sci-libs:matio-1.5.21:20211214-183853.log
sci-libs:matio-1.5.21:20211214-183853.log (text/plain), 15.61 KB, created by
Toralf Förster
on 2021-12-14 18:54:23 UTC
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Description:
sci-libs:matio-1.5.21:20211214-183853.log
Filename:
MIME Type:
Creator:
Toralf Förster
Created:
2021-12-14 18:54:23 UTC
Size:
15.61 KB
patch
obsolete
> * Package: sci-libs/matio-1.5.21 > * Repository: gentoo > * Maintainer: sci@gentoo.org > * USE: abi_x86_64 amd64 elibc_musl kernel_linux userland_GNU > * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox > >>>> Unpacking source... >>>> Unpacking matio-1.5.21.tar.gz to /var/tmp/portage/sci-libs/matio-1.5.21/work >>>> Source unpacked in /var/tmp/portage/sci-libs/matio-1.5.21/work >>>> Preparing source in /var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21 ... >>>> Source prepared. >>>> Configuring source in /var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21 ... > * econf: updating matio-1.5.21/config/config.sub with /usr/share/gnuconfig/config.sub > * econf: updating matio-1.5.21/config/config.guess with /usr/share/gnuconfig/config.guess >./configure --prefix=/usr --build=x86_64-gentoo-linux-musl --host=x86_64-gentoo-linux-musl --mandir=/usr/share/man --infodir=/usr/share/info --datadir=/usr/share --sysconfdir=/etc --localstatedir=/var/lib --disable-silent-rules --docdir=/usr/share/doc/matio-1.5.21 --htmldir=/usr/share/doc/matio-1.5.21/html --with-sysroot=/ --libdir=/usr/lib --disable-static --disable-mat73 --disable-extended-sparse >checking for a BSD-compatible install... /usr/lib/portage/python3.9/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 whether to enable maintainer-specific portions of Makefiles... no >checking build system type... x86_64-gentoo-linux-musl >checking host system type... x86_64-gentoo-linux-musl >checking for x86_64-gentoo-linux-musl-pgcc... no >checking for x86_64-gentoo-linux-musl-icc... no >checking for x86_64-gentoo-linux-musl-gcc... x86_64-gentoo-linux-musl-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-gentoo-linux-musl-gcc accepts -g... yes >checking for x86_64-gentoo-linux-musl-gcc option to accept ISO C89... none needed >checking whether x86_64-gentoo-linux-musl-gcc understands -c and -o together... yes >checking debug mode... no >checking profile mode... no >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-gentoo-linux-musl-gcc... /usr/x86_64-gentoo-linux-musl/bin/ld >checking if the linker (/usr/x86_64-gentoo-linux-musl/bin/ld) is GNU ld... yes >checking for BSD- or MS-compatible name lister (nm)... /usr/bin/x86_64-gentoo-linux-musl-nm -B >checking the name lister (/usr/bin/x86_64-gentoo-linux-musl-nm -B) interface... BSD nm >checking whether ln -s works... yes >checking the maximum length of command line arguments... 98304 >checking how to convert x86_64-gentoo-linux-musl file names to x86_64-gentoo-linux-musl format... func_convert_file_noop >checking how to convert x86_64-gentoo-linux-musl file names to toolchain format... func_convert_file_noop >checking for /usr/x86_64-gentoo-linux-musl/bin/ld option to reload object files... -r >checking for x86_64-gentoo-linux-musl-objdump... x86_64-gentoo-linux-musl-objdump >checking how to recognize dependent libraries... pass_all >checking for x86_64-gentoo-linux-musl-dlltool... no >checking for dlltool... no >checking how to associate runtime and link libraries... printf %s\n >checking for x86_64-gentoo-linux-musl-ar... x86_64-gentoo-linux-musl-ar >checking for archiver @FILE support... @ >checking for x86_64-gentoo-linux-musl-strip... x86_64-gentoo-linux-musl-strip >checking for x86_64-gentoo-linux-musl-ranlib... x86_64-gentoo-linux-musl-ranlib >checking command to parse /usr/bin/x86_64-gentoo-linux-musl-nm -B output from x86_64-gentoo-linux-musl-gcc object... ok >checking for sysroot... / >checking for a working dd... /bin/dd >checking how to truncate binary pipes... /bin/dd bs=4096 count=1 >checking for x86_64-gentoo-linux-musl-mt... no >checking for mt... mt >checking if mt is a manifest tool... no >checking how to run the C preprocessor... x86_64-gentoo-linux-musl-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-gentoo-linux-musl-gcc supports -fno-rtti -fno-exceptions... no >checking for x86_64-gentoo-linux-musl-gcc option to produce PIC... -fPIC -DPIC >checking if x86_64-gentoo-linux-musl-gcc PIC flag -fPIC -DPIC works... yes >checking if x86_64-gentoo-linux-musl-gcc static flag -static works... yes >checking if x86_64-gentoo-linux-musl-gcc supports -c -o file.o... yes >checking if x86_64-gentoo-linux-musl-gcc supports -c -o file.o... (cached) yes >checking whether the x86_64-gentoo-linux-musl-gcc linker (/usr/x86_64-gentoo-linux-musl/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 whether make sets $(MAKE)... (cached) yes >checking for grep that handles long lines and -e... (cached) /bin/grep >checking for pow in -lm... yes >checking for ANSI C header files... (cached) yes >checking for stdarg.h... yes >checking for varargs.h... no >checking for inttypes.h... (cached) yes >checking for stdint.h... (cached) yes >checking intsafe.h usability... no >checking intsafe.h presence... no >checking for intsafe.h... no >checking for strings.h... (cached) yes >checking for unistd.h... (cached) yes >checking locale.h usability... yes >checking locale.h presence... yes >checking for locale.h... yes >checking stddef.h usability... yes >checking stddef.h presence... yes >checking for stddef.h... yes >checking for struct lconv.decimal_point... yes >checking for struct lconv.thousands_sep... yes >checking for ptrdiff_t... yes >checking for localeconv... yes >checking for getopt_long... internal >checking size of double... 8 >checking size of float... 4 >checking size of long long... 8 >checking size of long... 8 >checking size of int... 4 >checking size of short... 2 >checking size of char... 1 >checking size of void *... 8 >checking size of size_t... 8 >checking for mat_int64_t... int64_t >checking for mat_uint64_t... uint64_t >checking for mat_int32_t... int32_t >checking for mat_uint32_t... uint32_t >checking for mat_int16_t... int16_t >checking for mat_uint16_t... uint16_t >checking for mat_int8_t... int8_t >checking for mat_uint8_t... uint8_t >checking for long double... yes >checking for unsigned long long int... yes >checking for long long int... yes >checking for unsigned long long int... (cached) yes >checking for size_t... yes >checking for intmax_t... yes >checking for uintmax_t... yes >checking for uintptr_t... yes >checking for va_copy() function... yes >checking for vsnprintf()... yes >checking for snprintf()... yes >checking for vasprintf()... yes >checking for asprintf()... yes >checking for matlab... no >checking for zlib Library... -lz >checking for HDF5 software... no >checking enable MAT v7.3 file support... no >checking for default MAT file version... MAT_FT_MAT5 >checking enable extended sparse types... no >checking that generated files are newer than configure... done >configure: creating ./config.status >config.status: creating Makefile >config.status: creating matio.pc >config.status: creating src/Makefile >config.status: creating getopt/Makefile >config.status: creating tools/Makefile >config.status: creating test/Makefile >config.status: creating documentation/Makefile >config.status: creating src/matioConfig.h >config.status: creating src/matio_pubconf.h >config.status: executing libtool commands >config.status: executing test/atconfig commands > > MATIO Configuration Summary >============================================================== > C Compiler: x86_64-gentoo-linux-musl-gcc > CFLAGS: -pipe -march=native -fno-diagnostics-color -O2 > Shared Libraries: yes > Static Libraries: no > default MAT version: MAT_FT_MAT5 > >Features -------------------------------------------- > MAT v7.3 file support: no >Extended sparse support: no > >Packages -------------------------------------------- > zlib: -lz > hdf5: > MATLAB: > > >>>> Source configured. >>>> Compiling source in /var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21 ... >make -j4 >Making all in src >make[1]: Entering directory '/var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21/src' >make all-am >make[2]: Entering directory '/var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21/src' >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o snprintf.lo snprintf.c >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o endian.lo endian.c >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o io.lo io.c >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o inflate.lo inflate.c >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c snprintf.c -fPIC -DPIC -o .libs/snprintf.o >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c io.c -fPIC -DPIC -o .libs/io.o >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c inflate.c -fPIC -DPIC -o .libs/inflate.o >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c endian.c -fPIC -DPIC -o .libs/endian.o >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o read_data.lo read_data.c >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c read_data.c -fPIC -DPIC -o .libs/read_data.o >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o mat5.lo mat5.c >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o mat4.lo mat4.c >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o mat.lo mat.c >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c mat5.c -fPIC -DPIC -o .libs/mat5.o >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c mat4.c -fPIC -DPIC -o .libs/mat4.o >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c mat.c -fPIC -DPIC -o .libs/mat.o >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o matvar_cell.lo matvar_cell.c >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c matvar_cell.c -fPIC -DPIC -o .libs/matvar_cell.o >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c -o matvar_struct.lo matvar_struct.c >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -pipe -march=native -fno-diagnostics-color -O2 -c matvar_struct.c -fPIC -DPIC -o .libs/matvar_struct.o >/bin/sh ../libtool --tag=CC --mode=link x86_64-gentoo-linux-musl-gcc -I. -pipe -march=native -fno-diagnostics-color -O2 -no-undefined -export-symbols ./matio.sym -version-info 11:3:0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o libmatio.la -rpath /usr/lib snprintf.lo endian.lo io.lo inflate.lo read_data.lo mat5.lo mat4.lo mat.lo matvar_cell.lo matvar_struct.lo -lz -lm >libtool: link: echo "{ global:" > .libs/libmatio.ver >libtool: link: cat ./matio.sym | sed -e "s/\(.*\)/\1;/" >> .libs/libmatio.ver >libtool: link: echo "local: *; };" >> .libs/libmatio.ver >libtool: link: x86_64-gentoo-linux-musl-gcc -shared -fPIC -DPIC .libs/snprintf.o .libs/endian.o .libs/io.o .libs/inflate.o .libs/read_data.o .libs/mat5.o .libs/mat4.o .libs/mat.o .libs/matvar_cell.o .libs/matvar_struct.o -lz -lm -march=native -O2 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -Wl,-soname -Wl,libmatio.so.11 -Wl,-version-script -Wl,.libs/libmatio.ver -o .libs/libmatio.so.11.0.3 >libtool: link: (cd ".libs" && rm -f "libmatio.so.11" && ln -s "libmatio.so.11.0.3" "libmatio.so.11") >libtool: link: (cd ".libs" && rm -f "libmatio.so" && ln -s "libmatio.so.11.0.3" "libmatio.so") >libtool: link: ( cd ".libs" && rm -f "libmatio.la" && ln -s "../libmatio.la" "libmatio.la" ) >make[2]: Leaving directory '/var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21/src' >make[1]: Leaving directory '/var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21/src' >Making all in getopt >make[1]: Entering directory '/var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21/getopt' >/bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I../src -DREPLACE_GETOPT=1 -pipe -march=native -fno-diagnostics-color -O2 -c -o libgetopt_la-getopt_long.lo `test -f 'getopt_long.c' || echo './'`getopt_long.c >libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I../src -DREPLACE_GETOPT=1 -pipe -march=native -fno-diagnostics-color -O2 -c getopt_long.c -fPIC -DPIC -o .libs/libgetopt_la-getopt_long.o >getopt_long.c:60:13: fatal error: sys/cdefs.h: No such file or directory > 60 | # include <sys/cdefs.h> > | ^~~~~~~~~~~~~ >compilation terminated. >make[1]: *** [Makefile:393: libgetopt_la-getopt_long.lo] Error 1 >make[1]: Leaving directory '/var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21/getopt' >make: *** [Makefile:517: all-recursive] Error 1 > * ERROR: sci-libs/matio-1.5.21::gentoo failed (compile phase): > * emake failed > * > * If you need support, post the output of `emerge --info '=sci-libs/matio-1.5.21::gentoo'`, > * the complete build log and the output of `emerge -pqv '=sci-libs/matio-1.5.21::gentoo'`. > * The complete build log is located at '/var/log/portage/sci-libs:matio-1.5.21:20211214-183853.log'. > * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-libs/matio-1.5.21/temp/build.log'. > * The ebuild environment file is located at '/var/tmp/portage/sci-libs/matio-1.5.21/temp/environment'. > * Working directory: '/var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21' > * S: '/var/tmp/portage/sci-libs/matio-1.5.21/work/matio-1.5.21' >
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