* Package: sci-libs/matio-1.5.17 * 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-1.5.17.tar.gz to /var/tmp/portage/sci-libs/matio-1.5.17/work >>> Source unpacked in /var/tmp/portage/sci-libs/matio-1.5.17/work >>> Preparing source in /var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17 ... >>> Source prepared. >>> Configuring source in /var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17 ... * econf: updating matio-1.5.17/config/config.sub with /usr/share/gnuconfig/config.sub * econf: updating matio-1.5.17/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-1.5.17 --htmldir=/usr/share/doc/matio-1.5.17/html --with-sysroot=/ --libdir=/usr/lib --disable-static --disable-mat73 --disable-extended-sparse 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 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... 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(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 no checking for zlib Library... -lz checking for HDF5 software... -lhdf5 checking if HDF5 interface is >= v1.8... yes 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: -O2 -pipe -march=native 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: -lhdf5 MATLAB: >>> Source configured. >>> Compiling source in /var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17 ... make -j1 Making all in src make[1]: Entering directory '/var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17/src' make all-am make[2]: Entering directory '/var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17/src' /bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c -o snprintf.lo snprintf.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c snprintf.c -fPIC -DPIC -o .libs/snprintf.o /bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c -o endian.lo endian.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -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. -O2 -pipe -march=native -c -o io.lo io.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c io.c -fPIC -DPIC -o .libs/io.o /bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c -o inflate.lo inflate.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c inflate.c -fPIC -DPIC -o .libs/inflate.o /bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c -o read_data.lo read_data.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -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. -O2 -pipe -march=native -c -o mat5.lo mat5.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c mat5.c -fPIC -DPIC -o .libs/mat5.o /bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c -o mat4.lo mat4.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c mat4.c -fPIC -DPIC -o .libs/mat4.o /bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -c -o mat.lo mat.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -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. -O2 -pipe -march=native -c -o matvar_cell.lo matvar_cell.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -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. -O2 -pipe -march=native -c -o matvar_struct.lo matvar_struct.c libtool: compile: x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I. -O2 -pipe -march=native -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. -O2 -pipe -march=native -no-undefined -export-symbols ./matio.sym -version-info 10:2:1 -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 -lhdf5 -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 -lhdf5 -lz -lm -O2 -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -Wl,-soname -Wl,libmatio.so.9 -Wl,-version-script -Wl,.libs/libmatio.ver -o .libs/libmatio.so.9.1.2 libtool: link: (cd ".libs" && rm -f "libmatio.so.9" && ln -s "libmatio.so.9.1.2" "libmatio.so.9") libtool: link: (cd ".libs" && rm -f "libmatio.so" && ln -s "libmatio.so.9.1.2" "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-1.5.17/work/matio-1.5.17/src' make[1]: Leaving directory '/var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17/src' Making all in getopt make[1]: Entering directory '/var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17/getopt' /bin/sh ../libtool --tag=CC --mode=compile x86_64-gentoo-linux-musl-gcc -DHAVE_CONFIG_H -I. -I../src -DREPLACE_GETOPT=1 -O2 -pipe -march=native -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 -O2 -pipe -march=native -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 | ^~~~~~~~~~~~~ compilation terminated. make[1]: *** [Makefile:393: libgetopt_la-getopt_long.lo] Error 1 make[1]: Leaving directory '/var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17/getopt' make: *** [Makefile:492: all-recursive] Error 1 * ERROR: sci-libs/matio-1.5.17::gentoo failed (compile phase): * emake failed * * If you need support, post the output of `emerge --info '=sci-libs/matio-1.5.17::gentoo'`, * the complete build log and the output of `emerge -pqv '=sci-libs/matio-1.5.17::gentoo'`. * The complete build log is located at '/var/log/portage/sci-libs:matio-1.5.17:20200404-220251.log'. * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-libs/matio-1.5.17/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-libs/matio-1.5.17/temp/environment'. * Working directory: '/var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17' * S: '/var/tmp/portage/sci-libs/matio-1.5.17/work/matio-1.5.17'