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Gentoo's Bugzilla – Attachment 100468 Details for
Bug 141230
sci-libs/hdf5-1.6.5-r1 emerge fails on finding fortran compiler
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Log of second attempt, after applying recommended USE flags, which brought in "mpich"
attempt2 (text/plain), 15.81 KB, created by
M. Edward Borasky
on 2006-10-25 09:27:28 UTC
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Description:
Log of second attempt, after applying recommended USE flags, which brought in "mpich"
Filename:
MIME Type:
Creator:
M. Edward Borasky
Created:
2006-10-25 09:27:28 UTC
Size:
15.81 KB
patch
obsolete
>Calculating dependencies ... done! > >>>> Emerging (1 of 1) sci-libs/hdf5-1.6.5-r1 to / > * hdf5-1.6.5.tar.gz MD5 ;-) ... [ ok ] > * hdf5-1.6.5.tar.gz RMD160 ;-) ... [ ok ] > * hdf5-1.6.5.tar.gz SHA1 ;-) ... [ ok ] > * hdf5-1.6.5.tar.gz SHA256 ;-) ... [ ok ] > * hdf5-1.6.5.tar.gz size ;-) ... [ ok ] > * checking ebuild checksums ;-) ... [ ok ] > * checking auxfile checksums ;-) ... [ ok ] > * checking miscfile checksums ;-) ... [ ok ] > * checking hdf5-1.6.5.tar.gz ;-) ... [ ok ] > [32;01m*[0m You need one of these Fortran Compilers: gfortran > [32;01m*[0m Installed are: gfortran > [32;01m*[0m Using gfortran > [32;01m*[0m Configuring for GNU fortran... >>>> Unpacking source... >>>> Unpacking hdf5-1.6.5.tar.gz to /var/tmp/portage/sci-libs/hdf5-1.6.5-r1/work > [32;01m*[0m Applying patches for selected FORTRAN compiler: gfortran >>>> Source unpacked. >>>> Compiling source in /var/tmp/portage/sci-libs/hdf5-1.6.5-r1/work/hdf5-1.6.5 ... > [33;01m*[0m Requires Fortran 90 support in your mpi library... >checking build system type... i686-pc-linux-gnu >checking host system type... i686-pc-linux-gnu >checking shell variables initial values... done >checking if tr works... yes >checking if basename works... yes >checking if xargs works... yes >checking for cached host... none >checking for sizeof hsize_t and hssize_t... large >checking for config i686-pc-linux-gnu... no >checking for config i686-pc-linux-gnu... no >checking for config pc-linux-gnu... no >checking for config pc-linux-gnu... no >checking for config i686-linux-gnu... no >checking for config i686-linux-gnu... no >checking for config i686-pc... no >checking for config linux-gnu... found >compiler '/usr/bin/mpicc' is GNU gcc-4.1.1 >checking for config ./config/site-specific/host-DreamSong... no >checking for gcc... /usr/bin/mpicc >checking for C compiler default output file name... a.out >checking whether the C compiler works... yes >checking whether we are cross compiling... no >checking for suffix of executables... >checking for suffix of object files... o >checking whether we are using the GNU C compiler... yes >checking whether /usr/bin/mpicc accepts -g... yes >checking for /usr/bin/mpicc option to accept ANSI C... none needed >checking if fortran interface enabled... yes >checking if c++ interface enabled... no >checking if should build only statically linked executables... no >checking for perl... perl >checking for ar... ar >checking whether make sets $(MAKE)... yes >checking for a BSD-compatible install... /bin/install -c >checking for ld used by GCC... /usr/i686-pc-linux-gnu/bin/ld >checking if the linker (/usr/i686-pc-linux-gnu/bin/ld) is GNU ld... yes >checking for /usr/i686-pc-linux-gnu/bin/ld option to reload object files... -r >checking for BSD-compatible nm... /usr/bin/nm -B >checking whether ln -s works... yes >checking how to recognise dependant libraries... pass_all >checking command to parse /usr/bin/nm -B output... ok >checking how to run the C preprocessor... /usr/bin/mpicc -E >checking for egrep... grep -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 dlfcn.h usability... yes >checking dlfcn.h presence... yes >checking for dlfcn.h... yes >checking for ranlib... ranlib >checking for strip... strip >checking for objdir... .libs >checking for /usr/bin/mpicc option to produce PIC... -fPIC >checking if /usr/bin/mpicc PIC flag -fPIC works... yes >checking if /usr/bin/mpicc static flag -static works... yes >checking if /usr/bin/mpicc supports -c -o file.o... yes >checking if /usr/bin/mpicc supports -c -o file.lo... yes >checking if /usr/bin/mpicc supports -fno-rtti -fno-exceptions... no >checking whether the linker (/usr/i686-pc-linux-gnu/bin/ld) supports shared libraries... yes >checking how to hardcode library paths into programs... immediate >checking whether stripping libraries is possible... yes >checking dynamic linker characteristics... GNU/Linux ld.so >checking if libtool supports shared libraries... yes >checking whether to build shared libraries... yes >checking whether to build static libraries... yes >checking whether -lc should be explicitly linked in... no >creating libtool >checking make... GNU make >checking how make searches directories... VPATH=DIR1 DIR2 ... >checking for production mode... production >checking for ceil in -lm... yes >checking for ANSI C header files... (cached) yes >checking whether time.h and sys/time.h may both be included... yes >checking for difftime... yes >checking for gettimeofday... yes >checking sys/resource.h usability... yes >checking sys/resource.h presence... yes >checking for sys/resource.h... yes >checking sys/time.h usability... yes >checking sys/time.h presence... yes >checking for sys/time.h... yes >checking for unistd.h... (cached) yes >checking sys/ioctl.h usability... yes >checking sys/ioctl.h presence... yes >checking for sys/ioctl.h... yes >checking for sys/stat.h... (cached) yes >checking sys/socket.h usability... yes >checking sys/socket.h presence... yes >checking for sys/socket.h... yes >checking for sys/types.h... (cached) yes >checking stddef.h usability... yes >checking stddef.h presence... yes >checking for stddef.h... yes >checking setjmp.h usability... yes >checking setjmp.h presence... yes >checking for setjmp.h... yes >checking features.h usability... yes >checking features.h presence... yes >checking for features.h... yes >checking for stdint.h... (cached) yes >checking io.h usability... no >checking io.h presence... no >checking for io.h... no >checking winsock.h usability... no >checking winsock.h presence... no >checking for winsock.h... no >checking sys/timeb.h usability... yes >checking sys/timeb.h presence... yes >checking for sys/timeb.h... yes >checking for large file support mode on Linux... enabled >checking for lseek64... yes >checking for fseek64... no >checking for off_t... yes >checking for size_t... yes >checking for ssize_t... yes >checking whether byte ordering is bigendian... no >checking for char... yes >checking size of char... 1 >checking for short... yes >checking size of short... 2 >checking for int... yes >checking size of int... 4 >checking for long... yes >checking size of long... 4 >checking for long long... yes >checking size of long long... 8 >checking for __int64... no >checking size of __int64... 0 >checking for float... yes >checking size of float... 4 >checking for double... yes >checking size of double... 8 >checking for long double... yes >checking size of long double... 12 >checking for int8_t... yes >checking size of int8_t... 1 >checking for uint8_t... yes >checking size of uint8_t... 1 >checking for int_least8_t... yes >checking size of int_least8_t... 1 >checking for uint_least8_t... yes >checking size of uint_least8_t... 1 >checking for int_fast8_t... yes >checking size of int_fast8_t... 1 >checking for uint_fast8_t... yes >checking size of uint_fast8_t... 1 >checking for int16_t... yes >checking size of int16_t... 2 >checking for uint16_t... yes >checking size of uint16_t... 2 >checking for int_least16_t... yes >checking size of int_least16_t... 2 >checking for uint_least16_t... yes >checking size of uint_least16_t... 2 >checking for int_fast16_t... yes >checking size of int_fast16_t... 4 >checking for uint_fast16_t... yes >checking size of uint_fast16_t... 4 >checking for int32_t... yes >checking size of int32_t... 4 >checking for uint32_t... yes >checking size of uint32_t... 4 >checking for int_least32_t... yes >checking size of int_least32_t... 4 >checking for uint_least32_t... yes >checking size of uint_least32_t... 4 >checking for int_fast32_t... yes >checking size of int_fast32_t... 4 >checking for uint_fast32_t... yes >checking size of uint_fast32_t... 4 >checking for int64_t... yes >checking size of int64_t... 8 >checking for uint64_t... yes >checking size of uint64_t... 8 >checking for int_least64_t... yes >checking size of int_least64_t... 8 >checking for uint_least64_t... yes >checking size of uint_least64_t... 8 >checking for int_fast64_t... yes >checking size of int_fast64_t... 8 >checking for uint_fast64_t... yes >checking size of uint_fast64_t... 8 >checking for size_t... (cached) yes >checking size of size_t... 4 >checking for ssize_t... (cached) yes >checking size of ssize_t... 4 >checking for off_t... (cached) yes >checking size of off_t... 8 >checking if dev_t is scalar... yes >checking for dmalloc library... suppressed >checking zlib.h usability... yes >checking zlib.h presence... yes >checking for zlib.h... yes >checking for compress2 in -lz... yes >checking for compress2... yes >checking for szlib... suppressed >checking for main in -lcrypto... yes >checking for SSL_get_version in -lssl... yes >checking for GASS... suppressed >checking for SRB... suppressed >checking for pthread... suppressed >checking for thread safe support... no >checking whether HDF5 v1.4 compatibility functions enabled... no >checking for Stream Virtual File Driver support... yes >checking netinet/in.h usability... yes >checking netinet/in.h presence... yes >checking for netinet/in.h... yes >checking for netinet/tcp.h... yes >checking sys/filio.h usability... no >checking sys/filio.h presence... no >checking for sys/filio.h... no >checking if socklen_t is defined... yes >checking for tm_gmtoff in struct tm... yes >checking for __tm_gmtoff in struct tm... no >checking for global timezone variable... no >checking whether struct tm is in sys/time.h or time.h... time.h >checking for struct tm.tm_zone... yes >checking for struct timezone... yes >checking whether gettimeofday() gives timezone... yes >checking for st_blocks in struct stat... yes >checking for _getvideoconfig... no >checking for gettextinfo... no >checking for GetConsoleScreenBufferInfo... no >checking for _scrsize... no >checking for ioctl... yes >checking for struct videoconfig... no >checking for struct text_info... no >checking for TIOCGWINSZ... yes >checking for TIOCGETD... yes >checking for alarm... yes >checking for fork... yes >checking for frexpf... yes >checking for frexpl... yes >checking for gethostname... yes >checking for getpwuid... yes >checking for getrusage... yes >checking for BSDgettimeofday... no >checking for longjmp... yes >checking for setsysinfo... no >checking for sigaction... yes >checking for signal... yes >checking for snprintf... yes >checking for vsnprintf... yes >checking for strdup... yes >checking for system... yes >checking for waitpid... yes >checking for an ANSI C-conforming const... yes >checking for inline... inline >checking for __attribute__ extension... yes >checking for __FUNCTION__ extension... yes >checking how to print long long... %lld and %llu >checking Threads support system scope... yes >checking gpfs.h usability... no >checking gpfs.h presence... no >checking for gpfs.h... no >checking for debug flags... none >checking whether function stack tracking is enabled... no >checking for API tracing... no >checking for instrumented library... no >checking for mpirun... /usr/bin/mpirun >checking for parallel support files... provided by compiler >checking prefix for running on one processor... none >checking prefix for running in parallel... /usr/bin/mpirun -np $${NPROCS:=3} >checking whether a simple MPI-IO program can be linked... yes >checking for MPE... suppressed >checking if MPI_File_set_size works for files over 2GB... yes >checking if irregular hyperslab optimization code works inside MPI-IO... yes >checking for I/O filters... all (shuffle,fletcher32) >checking if converting denormalized floating-point values is possible... yes >checking if high level library is enabled... no >configure: creating ./config.status >configure: configuring in fortran >configure: running /bin/sh './configure' --prefix=/usr '--prefix=/usr' '--with-pic' '--disable-cxx' '--enable-fortran' '--enable-static' '--enable-parallel' '--enable-gpfs' '--disable-hl' '--enable-zlib' '--with-ssl' '--enable-linux-lfs' '--sysconfdir=/etc' '--infodir=/usr/share/info' '--libdir=/usr/lib' '--mandir=/usr/share/man' 'CC=/usr/bin/mpicc' 'CFLAGS=-O2 -march=pentium3 -pipe -fomit-frame-pointer' --cache-file=/dev/null --srcdir=. >checking build system type... i686-pc-linux-gnu >checking host system type... i686-pc-linux-gnu >checking shell variables initial values... done >checking for cached host... none >checking for config i686-pc-linux-gnu... no >checking for config i686-pc-linux-gnu... no >checking for config pc-linux-gnu... no >checking for config pc-linux-gnu... no >checking for config i686-linux-gnu... no >checking for config i686-linux-gnu... no >checking for config i686-pc... no >checking for config linux-gnu... found >compiler '/usr/bin/mpicc' is GNU gcc-4.1.1 >checking for gcc... /usr/bin/mpicc >checking for C compiler default output file name... a.out >checking whether the C compiler works... yes >checking whether we are cross compiling... no >checking for suffix of executables... >checking for suffix of object files... o >checking whether we are using the GNU C compiler... yes >checking whether /usr/bin/mpicc accepts -g... yes >checking for /usr/bin/mpicc option to accept ANSI C... none needed >checking how to run the C preprocessor... /usr/bin/mpicc -E >checking whether make sets $(MAKE)... yes >checking for a BSD-compatible install... /bin/install -c >checking for ld used by GCC... /usr/i686-pc-linux-gnu/bin/ld >checking if the linker (/usr/i686-pc-linux-gnu/bin/ld) is GNU ld... yes >checking for /usr/i686-pc-linux-gnu/bin/ld option to reload object files... -r >checking for BSD-compatible nm... /usr/bin/nm -B >checking whether ln -s works... yes >checking how to recognise dependant libraries... pass_all >checking command to parse /usr/bin/nm -B output... ok >checking for egrep... grep -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 dlfcn.h usability... yes >checking dlfcn.h presence... yes >checking for dlfcn.h... yes >checking for ranlib... ranlib >checking for strip... strip >checking for objdir... .libs >checking for /usr/bin/mpicc option to produce PIC... -fPIC >checking if /usr/bin/mpicc PIC flag -fPIC works... yes >checking if /usr/bin/mpicc static flag -static works... yes >checking if /usr/bin/mpicc supports -c -o file.o... yes >checking if /usr/bin/mpicc supports -c -o file.lo... yes >checking if /usr/bin/mpicc supports -fno-rtti -fno-exceptions... no >checking whether the linker (/usr/i686-pc-linux-gnu/bin/ld) supports shared libraries... yes >checking how to hardcode library paths into programs... immediate >checking whether stripping libraries is possible... yes >checking dynamic linker characteristics... GNU/Linux ld.so >checking if libtool supports shared libraries... yes >checking whether to build shared libraries... yes >checking whether to build static libraries... yes >checking whether -lc should be explicitly linked in... no >creating libtool >checking for perl... perl >checking for production mode... "production" >checking for ceil in -lm... yes >checking if should build only statically linked executables... no >checking for large file support mode on Linux... enabled >checking for f90... mpif90 >checking whether the Fortran 9X compiler (mpif90 -O2 -march=pentium3 -pipe -fomit-frame-pointer ) works... no >configure: error: installation or configuration problem: Fortran 9X compiler cannot create executables. >configure: error: /bin/sh './configure' failed for fortran > >!!! ERROR: sci-libs/hdf5-1.6.5-r1 failed. >Call stack: > ebuild.sh, line 1568: Called dyn_compile > ebuild.sh, line 937: Called src_compile > hdf5-1.6.5-r1.ebuild, line 125: Called die > >!!! configure failed >!!! If you need support, post the topmost build error, and the call stack if relevant. >
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bug 141230
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92359
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97396
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100466
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100467
| 100468