sci-chemistry:freeon-1.0.10:20170102-112454.log

sci-chemistry:freeon-1.0.10:20170102-112454.log (text/plain), 19.51 KB, created by Toralf Förster on 2017-01-02 11:55:53 UTC

 * Package:    sci-chemistry/freeon-1.0.10
 * Repository: gentoo
 * Maintainer: [e-mail] [e-mail]
 * USE:        abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU
 * FEATURES:   preserve-libs sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking freeon-1.0.10.tar.bz2 to /var/tmp/portage/sci-chemistry/freeon-1.0.10/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/freeon-1.0.10/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10 ...
 * Applying freeon-1.0.10-stop.patch ...
 [ ok ]
 * Running eautoreconf in '/var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10' ...
 * Running libtoolize --install --copy --force --automake ...
 [ ok ]
 * Running aclocal -I m4 ...
 [ ok ]
 * Running autoconf --force ...
 [ ok ]
 * Running autoheader ...
 [ ok ]
 * Running automake --add-missing --copy --force-missing ...
 [ ok ]
 * Running elibtoolize in: freeon-1.0.10/
 *   Applying portage/1.2.0 patch ...
 *   Applying sed/1.5.6 patch ...
 *   Applying as-needed/2.4.3 patch ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10 ...
 * econf: updating freeon-1.0.10/config.sub with /usr/share/gnuconfig/config.sub
 * econf: updating freeon-1.0.10/config.guess with /usr/share/gnuconfig/config.guess
./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 --disable-dependency-tracking --disable-silent-rules --docdir=/usr/share/doc/freeon-1.0.10 --htmldir=/usr/share/doc/freeon-1.0.10/html --libdir=/usr/lib64
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 for a BSD-compatible install... /usr/lib/portage/python3.4/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
configure: configuring local version master:release
checking whether to build fully parallel MPI version... no
checking whether to build MPI version, parallelized across clones only... no
checking for style of include used by make... GNU
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 we are using the GNU C compiler... yes
checking whether x86_64-pc-linux-gnu-gcc accepts -g... yes
checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... none needed
checking whether x86_64-pc-linux-gnu-gcc understands -c and -o together... yes
checking dependency style of x86_64-pc-linux-gnu-gcc... none
checking for x86_64-pc-linux-gnu-gcc option to accept ISO C99... none needed
checking for x86_64-pc-linux-gnu-gcc option to accept ISO Standard C... (cached) none needed
checking for x86_64-pc-linux-gnu-g++... x86_64-pc-linux-gnu-g++
checking whether we are using the GNU C++ compiler... yes
checking whether x86_64-pc-linux-gnu-g++ accepts -g... yes
checking dependency style of x86_64-pc-linux-gnu-g++... none
checking for x86_64-pc-linux-gnu-gfortran... x86_64-pc-linux-gnu-gfortran
checking whether we are using the GNU Fortran compiler... yes
checking whether x86_64-pc-linux-gnu-gfortran accepts -g... yes
checking for x86_64-pc-linux-gnu-gfortran... x86_64-pc-linux-gnu-gfortran
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether x86_64-pc-linux-gnu-gfortran accepts -g... yes
checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/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 minix/config.h usability... no
checking minix/config.h presence... no
checking for minix/config.h... no
checking whether it is safe to define __EXTENSIONS__... yes
configure: CC:  identified GNU gcc compiler
configure: CXX: identified GNU gcc compiler
configure: F77: identified GNU gcc compiler
configure: FC:  identified GNU gcc compiler
configure: C compiler version:   x86_64-pc-linux-gnu-gcc (Gentoo 5.4.0-r2 p1.2, pie-0.6.5) 5.4.0
configure: CXX compiler version: x86_64-pc-linux-gnu-g++ (Gentoo 5.4.0-r2 p1.2, pie-0.6.5) 5.4.0
configure: F77 compiler version: GNU Fortran (Gentoo 5.4.0-r2 p1.2, pie-0.6.5) 5.4.0
configure: FC compiler version:  GNU Fortran (Gentoo 5.4.0-r2 p1.2, pie-0.6.5) 5.4.0
checking how to get verbose linking output from x86_64-pc-linux-gnu-gfortran... -v
checking for Fortran 77 libraries of x86_64-pc-linux-gnu-gfortran...  -L/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0 -L/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../.. -lgfortran -lm -lquadmath
checking for dummy main to link with Fortran 77 libraries... none
checking for Fortran 77 name-mangling scheme... lower case, underscore, no extra underscore
checking how to get verbose linking output from x86_64-pc-linux-gnu-gfortran... -v
checking for Fortran libraries of x86_64-pc-linux-gnu-gfortran...  -L/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0 -L/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../.. -lgfortran -lm -lquadmath
checking for dummy main to link with Fortran libraries... none
checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore
checking for x86_64-pc-linux-gnu-gcc option to support OpenMP... -fopenmp
checking for x86_64-pc-linux-gnu-gfortran option to support OpenMP... -fopenmp
checking for Fortran flag to compile .F90 files... none
checking for Fortran flag needed to accept free-form source... none
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
checking for fgrep... /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 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... no
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
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 for x86_64-pc-linux-gnu-ranlib... x86_64-pc-linux-gnu-ranlib
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... no
checking for a working dd... /bin/dd
checking how to truncate binary pipes... /bin/dd bs=4096 count=1
checking for x86_64-pc-linux-gnu-mt... no
checking for mt... no
checking if : is a manifest tool... no
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... yes
checking how to run the C++ preprocessor... x86_64-pc-linux-gnu-g++ -E
checking for ld used by x86_64-pc-linux-gnu-g++... /usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64
checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) is GNU ld... yes
checking whether the x86_64-pc-linux-gnu-g++ linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes
checking for x86_64-pc-linux-gnu-g++ option to produce PIC... -fPIC -DPIC
checking if x86_64-pc-linux-gnu-g++ PIC flag -fPIC -DPIC works... yes
checking if x86_64-pc-linux-gnu-g++ static flag -static works... yes
checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o... yes
checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o... (cached) yes
checking whether the x86_64-pc-linux-gnu-g++ linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for x86_64-pc-linux-gnu-gfortran option to produce PIC... -fPIC
checking if x86_64-pc-linux-gnu-gfortran PIC flag -fPIC works... yes
checking if x86_64-pc-linux-gnu-gfortran static flag -static works... yes
checking if x86_64-pc-linux-gnu-gfortran supports -c -o file.o... yes
checking if x86_64-pc-linux-gnu-gfortran supports -c -o file.o... (cached) yes
checking whether the x86_64-pc-linux-gnu-gfortran linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for x86_64-pc-linux-gnu-gfortran option to produce PIC... -fPIC
checking if x86_64-pc-linux-gnu-gfortran PIC flag -fPIC works... yes
checking if x86_64-pc-linux-gnu-gfortran static flag -static works... yes
checking if x86_64-pc-linux-gnu-gfortran supports -c -o file.o... yes
checking if x86_64-pc-linux-gnu-gfortran supports -c -o file.o... (cached) yes
checking whether the x86_64-pc-linux-gnu-gfortran linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether make sets $(MAKE)... (cached) yes
checking whether to add compiler optimizations... no
checking whether to check for case differences in names... no
checking how to set line length limits of f90 compiler... gfortran detected, setting unlimited line-length limit (-ffree-line-length-none)
checking for ANSI C header files... (cached) 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/types.h... (cached) yes
checking math.h usability... yes
checking math.h presence... yes
checking for math.h... yes
checking sys/wait.h usability... yes
checking sys/wait.h presence... yes
checking for sys/wait.h... yes
checking for random number generator seed... use random seed
checking whether to use PHiPAC... no
checking whether to debug MD... no
checking for round in -lm... yes
checking for library containing clock_gettime... none required
checking for possible compiler problems... good, none found
checking for x86_64-pc-linux-gnu-pkg-config... /usr/bin/x86_64-pc-linux-gnu-pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for BLAS... yes
checking for LAPACK... yes
checking for hdf5 version... 1.8.18
checking for library containing ceil... none required
checking pthread.h usability... yes
checking pthread.h presence... yes
checking for pthread.h... yes
checking for library containing pthread_create... -lpthread
checking hdf5.h usability... yes
checking hdf5.h presence... yes
checking for hdf5.h... yes
checking for library containing H5get_libversion... -lhdf5
checking for ceil in -lm... yes
checking for pthread.h... (cached) yes
checking for pthread_create in -lpthread... yes
checking for hdf5.h... (cached) yes
checking for H5get_libversion in -lhdf5... yes
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 whether we have mkstemp()... yes
checking whether we have mkostemp()... yes
checking whether to link binaries statically... no
checking whether we should remove preprocessed files... no
checking whether to use the old DIIS (for debugging)... no
checking whether to use the really old DIIS (for debugging)... no
checking whether to print out some extra NEB debugging information... no
configure: ***   Summary   ***
configure: CC                       = x86_64-pc-linux-gnu-gcc
configure: CXX                      = x86_64-pc-linux-gnu-g++
configure: FC                       = x86_64-pc-linux-gnu-gfortran
configure: F77                      = x86_64-pc-linux-gnu-gfortran
configure: CFLAGS                   = -O2 -pipe -march=native -Wall
configure: CXXFLAGS                 = -O2 -pipe -march=native
configure: FCFLAGS                  = -O2 -pipe -ffree-line-length-none
configure: FFLAGS                   = -O2 -pipe -ffixed-line-length-none
configure: LDFLAGS                  = -Wl,-O1 -Wl,--as-needed
configure: LIBS                     = -lz -lhdf5 -lpthread -lm -lhdf5 -lpthread -lm 
configure: CPPFLAGS                 = 
configure: FORTRAN_CPPFLAGS         = -P -C -xc -traditional -I$(srcdir) -I$(top_builddir)/Modules
configure: FORTRAN_DEFAULT_INCLUDES = -I$(srcdir) -I$(top_builddir)/Modules
configure: HDF5_CPPFLAGS            = 
configure: FREEON_SCRATCH           = /tmp
configure: 
configure: Using external lapack library
configure: Using external hdf5 library
configure: I disabled compiler optimization flags
configure: I will _not_ remove preprocessed files
configure: we are _not_ using phipac
configure: no extra TRBO MD debugging
configure: *** End Summary ***
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Doxyfile
config.status: creating config_localversion.h
config.status: creating Makefile
config.status: creating FreeON/Makefile
config.status: creating Modules/Makefile
config.status: creating SCFeqs/Makefile
config.status: creating OneE/Makefile
config.status: creating QCTC/Makefile
config.status: creating HiCu/Makefile
config.status: creating TwoE/Makefile
config.status: creating TwoE/GRD/Makefile
config.status: creating TwoE/HRR/Makefile
config.status: creating TwoE/INT/Makefile
config.status: creating TwoE/MSC/Makefile
config.status: creating TwoE/VRR/Makefile
config.status: creating ONX/Makefile
config.status: creating Validate/Makefile
config.status: creating Validate/SinglePoint/Makefile
config.status: creating Validate/SinglePoint/Restricted/Makefile
config.status: creating tools/Makefile
config.status: creating BasisSets/Makefile
config.status: creating tests/Makefile
config.status: creating config.h
config.status: executing default-1 commands
checking MondoConfig.h
MondoConfig.h did not exist
config.status: executing depfiles commands
config.status: executing libtool commands
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10 ...
make -j1 
(CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10/missing autoheader)
rm -f stamp-h1
touch config.h.in
cd . && /bin/sh ./config.status config.h
config.status: creating config.h
config.status: config.h is unchanged
make  all-recursive
make[1]: Entering directory '/var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10'
Making all in Modules
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10/Modules'
/bin/sh ../libtool  --tag=FC --silent  --mode=compile x86_64-pc-linux-gnu-gfortran -DHAVE_CONFIG_H -I. -I..    -O2 -pipe -ffree-line-length-none -I. -I../Modules -I. -I..  -I./MMA/LookUpTables -I./MMA/Functionals -I./MMA/PAC   -c -o GlobalScalars.lo GlobalScalars.F90
/bin/sh ../libtool  --tag=FC --silent  --mode=compile x86_64-pc-linux-gnu-gfortran -DHAVE_CONFIG_H -I. -I..    -O2 -pipe -ffree-line-length-none -I. -I../Modules -I. -I..  -I./MMA/LookUpTables -I./MMA/Functionals -I./MMA/PAC   -c -o GlobalCharacters.lo GlobalCharacters.F90
/bin/sh ../libtool  --tag=FC --silent  --mode=compile x86_64-pc-linux-gnu-gfortran -DHAVE_CONFIG_H -I. -I..    -O2 -pipe -ffree-line-length-none -I. -I../Modules -I. -I..  -I./MMA/LookUpTables -I./MMA/Functionals -I./MMA/PAC   -c -o DerivedTypes.lo DerivedTypes.F90
/bin/sh ../libtool  --tag=FC --silent  --mode=compile x86_64-pc-linux-gnu-gfortran -DHAVE_CONFIG_H -I. -I..    -O2 -pipe -ffree-line-length-none -I. -I../Modules -I. -I..  -I./MMA/LookUpTables -I./MMA/Functionals -I./MMA/PAC   -c -o GlobalObjects.lo GlobalObjects.F90
f951: Fatal Error: Reading module ‘derivedtypes’ at line 1531 column 8: Unexpected EOF
compilation terminated.
make[2]: *** [Makefile:809: GlobalObjects.lo] Error 1
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10/Modules'
make[1]: *** [Makefile:461: all-recursive] Error 1
make[1]: Leaving directory '/var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10'
make: *** [Makefile:389: all] Error 2
 * ERROR: sci-chemistry/freeon-1.0.10::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/freeon-1.0.10::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/freeon-1.0.10::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-chemistry:freeon-1.0.10:20170102-112454.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/freeon-1.0.10/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/freeon-1.0.10/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10'
 * S: '/var/tmp/portage/sci-chemistry/freeon-1.0.10/work/freeon-1.0.10'