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Gentoo's Bugzilla – Attachment 236437 Details for
Bug 325399
sci-chemistry/apbs-1.2.1b-r4: tests failed
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build.log
apbs-1.2.1b-r4:20100624-164306.log (text/plain), 232.22 KB, created by
Pacho Ramos
on 2010-06-24 20:16:41 UTC
(
hide
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Description:
build.log
Filename:
MIME Type:
Creator:
Pacho Ramos
Created:
2010-06-24 20:16:41 UTC
Size:
232.22 KB
patch
obsolete
> [32;01m*[0m CPV: sci-chemistry/apbs-1.2.1b-r4 > [32;01m*[0m REPO: gentoo > [32;01m*[0m USE: amd64 elibc_glibc kernel_linux multilib openmp python test userland_GNU > [32;01m*[0m You need one of these Fortran Compilers: g77 gfortran ifc > [32;01m*[0m Installed are: gfortran >>>> Unpacking source... >>>> Unpacking apbs-1.2.1b-source.tar.gz to /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work > [32;01m*[0m Applying patches for selected FORTRAN compiler: gfortran >>>> Source unpacked in /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work >>>> Preparing source in /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source ... > [32;01m*[0m Applying apbs-1.2.1b-openmp.patch ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Applying apbs-1.2.1b-install-fix.patch ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Applying apbs-1.2.0-contrib.patch ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Applying apbs-1.2.0-link.patch ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Applying apbs-1.2.1b-autoconf-2.64.patch ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Applying apbs-1.2.1b-shared.patch ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Applying apbs-1.2.1b-multilib.patch ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Applying apbs-1.2.1b-parallelbuild.patch ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Running eautoreconf in '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source' ... > [32;01m*[0m Running aclocal ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Running libtoolize --copy --force --install --automake ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Running aclocal ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Running autoconf ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Running autoheader ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Running automake --add-missing --copy ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m > [32;01m*[0m Running elibtoolize in: apbs-1.2.1-source/contrib/maloc/tools/config > [32;01m*[0m Applying install-sh-1.5.patch ... > [32;01m*[0m Applying portage-1.5.10.patch ... > [32;01m*[0m Applying max_cmd_len-1.5.20.patch ... > [32;01m*[0m Applying sed-1.5.6.patch ... > [32;01m*[0m Applying as-needed-1.5.patch ... > [32;01m*[0m Applying uclibc-ltconf-1.3.0.patch ... > [32;01m*[0m Running elibtoolize in: apbs-1.2.1-source/contrib/maloc/config > [32;01m*[0m Applying install-sh-1.5.patch ... > [32;01m*[0m Applying portage-1.5.10.patch ... > [32;01m*[0m Applying max_cmd_len-1.5.20.patch ... > [32;01m*[0m Applying sed-1.5.6.patch ... > [32;01m*[0m Applying as-needed-1.5.patch ... > [32;01m*[0m Applying uclibc-ltconf-1.3.0.patch ... > [32;01m*[0m Running elibtoolize in: apbs-1.2.1-source/config > [32;01m*[0m Applying portage-2.2.patch ... > [32;01m*[0m Applying sed-1.5.6.patch ... > [32;01m*[0m Applying as-needed-2.2.6.patch ... > [32;01m*[0m Applying uclibc-ltconf-1.3.0.patch ... >>>> Source prepared. >>>> Configuring source in /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source ... > * econf: updating apbs-1.2.1-source/contrib/maloc/tools/config/config.guess with /usr/share/gnuconfig/config.guess > * econf: updating apbs-1.2.1-source/contrib/maloc/tools/config/config.sub with /usr/share/gnuconfig/config.sub > * econf: updating apbs-1.2.1-source/contrib/maloc/config/config.guess with /usr/share/gnuconfig/config.guess > * econf: updating apbs-1.2.1-source/contrib/maloc/config/config.sub with /usr/share/gnuconfig/config.sub > * econf: updating apbs-1.2.1-source/config/config.guess with /usr/share/gnuconfig/config.guess > * econf: updating apbs-1.2.1-source/config/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 --libdir=/usr/lib64 --disable-maloc-rebuild --enable-shared --with-blas=-lblas --enable-openmp --enable-python --disable-tinker --disable-tools --docdir=/usr/share/doc/apbs-1.2.1b-r4 --enable-tools >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 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 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-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/nm -B >checking the name lister (/usr/bin/nm -B) interface... BSD nm >checking whether ln -s works... yes >checking the maximum length of command line arguments... 1572864 >checking whether the shell understands some XSI constructs... yes >checking whether the shell understands "+="... yes >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-ar... x86_64-pc-linux-gnu-ar >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/nm -B output from x86_64-pc-linux-gnu-gcc object... ok >checking how to run the C preprocessor... x86_64-pc-linux-gnu-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-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 for x86_64-pc-linux-gnu-g77... no >checking for x86_64-pc-linux-gnu-xlf... no >checking for x86_64-pc-linux-gnu-f77... no >checking for x86_64-pc-linux-gnu-frt... no >checking for x86_64-pc-linux-gnu-pgf77... no >checking for x86_64-pc-linux-gnu-cf77... no >checking for x86_64-pc-linux-gnu-fort77... no >checking for x86_64-pc-linux-gnu-fl32... no >checking for x86_64-pc-linux-gnu-af77... no >checking for x86_64-pc-linux-gnu-xlf90... no >checking for x86_64-pc-linux-gnu-f90... no >checking for x86_64-pc-linux-gnu-pgf90... no >checking for x86_64-pc-linux-gnu-pghpf... no >checking for x86_64-pc-linux-gnu-epcf90... no >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 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... GNU/Linux ld.so >checking how to hardcode library paths into programs... immediate >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/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm >checking for dummy main to link with Fortran 77 libraries... none >checking how to get verbose linking output from x86_64-pc-linux-gnu-gfortran... (cached) -v >checking for Fortran 77 libraries of x86_64-pc-linux-gnu-gfortran... (cached) -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm >checking for a BSD-compatible install... /usr/bin/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 for style of include used by make... GNU >checking dependency style of x86_64-pc-linux-gnu-gcc... none >checking for --enable-fast option... no >checking for --enable-python... yes >configure: Python linkage requires GNU compilers >checking for x86_64-pc-linux-gnu-gcc... (cached) x86_64-pc-linux-gnu-gcc >checking whether we are using the GNU C compiler... (cached) yes >checking whether x86_64-pc-linux-gnu-gcc accepts -g... (cached) yes >checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... (cached) none needed >checking for x86_64-pc-linux-gnu-gcc... (cached) x86_64-pc-linux-gnu-gcc >checking whether we are using the GNU C compiler... (cached) yes >checking whether x86_64-pc-linux-gnu-gcc accepts -g... (cached) yes >checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... (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 whether we are using the GNU C++ compiler... (cached) yes >checking whether x86_64-pc-linux-gnu-g++ accepts -g... (cached) yes >checking dependency style of x86_64-pc-linux-gnu-g++... none >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... GNU/Linux ld.so >checking how to hardcode library paths into programs... immediate >checking dependency style of x86_64-pc-linux-gnu-g++... (cached) none >checking for x86_64-pc-linux-gnu-gfortran... (cached) x86_64-pc-linux-gnu-gfortran >checking whether we are using the GNU Fortran 77 compiler... (cached) yes >checking whether x86_64-pc-linux-gnu-gfortran accepts -g... (cached) yes >checking if Fortran 77 compiler accepts -nofor_main... no >checking how f77 mangles function names... lowercase-underscore >checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E >checking for pow in -lm... yes >checking for strerrno in -liberty... yes >checking for gethostbyname... yes >checking for connect... yes >checking for thr_create... no >checking for thr_create in -lthread... no >checking for time... yes >checking for rand... yes >checking for srand... yes >checking the machine epsilon for VFLOOR... yes >The machine epsilon for this system is: 1.19209E-07 >configure: ----------------------------------------------------------- >configure: ---------- begin configuring for MALOC linkage ------------ >configure: ----------------------------------------------------------- >checking for --with-fetk-include option... no >checking for --with-fetk-library option... no >configure: Using MALOC headers in /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include >configure: Using MALOC libraries in /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib >checking for --with-mpich option... no >checking for --with-mpich2 option... no >checking for --with-lam option... no >checking for --with-openmpi option... no >configure: --------------------------------------------------------------- >configure: ---------- begin configuring for Python wrappers -------------- >configure: --------------------------------------------------------------- >checking for --enable-python... yes >checking for python... /usr/bin/python >configure: Python wrappers enabled >checking for python... (cached) /usr/bin/python >checking for --disable-maloc-rebuild... yes >configure: Will not rebuild MALOC...skipping >checking for maloc_needs_rl in -lmaloc... no >configure: ------------------------------------------------------------ >configure: ---------- begin configuring for FEtk linkage -------------- >configure: ------------------------------------------------------------ >checking for --disable-fetk... no >checking for user-specified FEtk include path... no >checking for user-specified FEtk library path... no >checking mc/mc.h usability... no >checking mc/mc.h presence... no >checking for mc/mc.h... no >checking for mc_link in -lmc... no >checking mcx/mcx.h usability... no >checking mcx/mcx.h presence... no >checking for mcx/mcx.h... no >checking for mcx_link in -lmcx... no >configure: WARNING: FEtk component MC not found: finite element solver disabled. >configure: WARNING: FEtk component MCX not found: hierarchical basis methods disabled. >configure: --------------------------------------------------------------- >configure: ------------ begin processing APBS configure options ---------- >configure: --------------------------------------------------------------- >checking for EMBED macro can be used... yes >checking --enable-pansi... no >checking for strcasecmp... yes >checking for --disable-tools... no >configure: tools will be compiled >checking for --with-blas... -lblas >configure: checking blas using -lblas >checking for dscal in -lblas... yes >checking for --with-arpack... no >checking for --disable-inline... no >configure: inline functions will be used >checking for --enable-tinker... no >checking for --enable-abps-quiet... no >checking for --disable-openmp... no >configure: pkgconfig directory is ${libdir}/pkgconfig >configure: creating ./config.status >config.status: creating Makefile >config.status: creating contrib/Makefile >config.status: creating contrib/blas/Makefile >config.status: creating contrib/pmgZ/Makefile >config.status: creating contrib/aqua/Makefile >config.status: creating contrib/opal/Makefile >config.status: creating contrib/opal/ZSI/Makefile >config.status: creating tools/Makefile >config.status: creating tools/mesh/Makefile >config.status: creating tools/manip/Makefile >config.status: creating tools/python/Makefile >config.status: creating tools/arpack/Makefile >config.status: creating tools/python/vgrid/Makefile >config.status: creating src/Makefile >config.status: creating src/generic/Makefile >config.status: creating src/mg/Makefile >config.status: creating src/fem/Makefile >config.status: creating src/aaa_inc/Makefile >config.status: creating src/aaa_inc/apbs/Makefile >config.status: creating src/aaa_lib/Makefile >config.status: creating examples/Makefile >config.status: creating examples/actin-dimer/Makefile >config.status: creating examples/alkanes/Makefile >config.status: creating examples/born/Makefile >config.status: creating examples/FKBP/Makefile >config.status: creating examples/hca-bind/Makefile >config.status: creating examples/ion-pmf/Makefile >config.status: creating examples/ion-protein/Makefile >config.status: creating examples/ionize/Makefile >config.status: creating examples/pka-lig/Makefile >config.status: creating examples/point-pmf/Makefile >config.status: creating examples/protein-rna/Makefile >config.status: creating examples/smpbe/Makefile >config.status: creating examples/solv/Makefile >config.status: creating examples/opal/Makefile >config.status: creating bin/Makefile >config.status: creating apbs.pc >config.status: creating src/aaa_inc/apbscfg.h >config.status: executing libtool commands >config.status: executing depfiles commands >configure: > >APBS to be compiled with following settings: x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp >APBS to be compiled with following settings: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp >APBS to be linked with following libraries : -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >APBS to be compiled with following includes: -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include > >Please type "make; make install" > >>>> Source configured. >>>> Compiling source in /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source ... >make -j3 >Making all in contrib >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >Making all in pmgZ >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >Making all in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o buildAd.lo buildAd.f >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o buildBd.lo buildBd.f >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o buildGd.lo buildGd.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c buildBd.f -fPIC -o .libs/buildBd.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c buildGd.f -fPIC -o .libs/buildGd.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c buildAd.f -fPIC -o .libs/buildAd.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 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-lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o buildPd.lo buildPd.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c buildPd.f -fPIC -o .libs/buildPd.o >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o cgd.lo cgd.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c cgd.f -fPIC -o .libs/cgd.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c cgd.f -o cgd.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o cgmgd.lo cgmgd.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c cgmgd.f -fPIC -o .libs/cgmgd.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c cgmgd.f -o cgmgd.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran 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-fopenmp -c dlphsubd.f -fPIC -o .libs/dlphsubd.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c dlphsubd.f -o dlphsubd.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o gsd.lo gsd.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c gsd.f -fPIC -o .libs/gsd.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c buildPd.f -o buildPd.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c gsd.f -o gsd.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o mainsubd.lo mainsubd.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c mainsubd.f -fPIC -o .libs/mainsubd.o >libtool: compile: 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>/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c ninterpd.f -o ninterpd.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o nrchdrvd.lo nrchdrvd.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 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>/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o smoothd.lo smoothd.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c smoothd.f -fPIC -o .libs/smoothd.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 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-lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c wjd.f -o wjd.o >/dev/null 2>&1 >cp -p ../../src/mg/apbs/*.h ../../src/aaa_inc/apbs/. >/bin/sh ../../libtool --tag=F77 --mode=link x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -Wl,-O1 -o libapbspmgz.la buildAd.lo buildBd.lo buildGd.lo buildPd.lo cgd.lo cgmgd.lo cgmgdrvd.lo dlphsubd.lo gsd.lo mainsubd.lo matvecd.lo mgcsd.lo mgdrvd.lo mgfasd.lo mgsubd.lo mikpckd.lo mlinpckd.lo ncgd.lo ncgdrvd.lo newdrvd.lo newtond.lo ngsd.lo ngsdrvd.lo ninterpd.lo nrchd.lo nrchdrvd.lo nsmoothd.lo nsord.lo nsordrvd.lo nwjd.lo nwjdrvd.lo powerd.lo rchd.lo smoothd.lo sord.lo wjd.lo gsdc.lo >libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libapbspmgz.a .libs/buildAd.o .libs/buildBd.o .libs/buildGd.o .libs/buildPd.o .libs/cgd.o .libs/cgmgd.o .libs/cgmgdrvd.o .libs/dlphsubd.o .libs/gsd.o .libs/mainsubd.o .libs/matvecd.o .libs/mgcsd.o .libs/mgdrvd.o .libs/mgfasd.o .libs/mgsubd.o .libs/mikpckd.o .libs/mlinpckd.o .libs/ncgd.o .libs/ncgdrvd.o .libs/newdrvd.o .libs/newtond.o .libs/ngsd.o .libs/ngsdrvd.o .libs/ninterpd.o .libs/nrchd.o .libs/nrchdrvd.o .libs/nsmoothd.o .libs/nsord.o .libs/nsordrvd.o .libs/nwjd.o .libs/nwjdrvd.o .libs/powerd.o .libs/rchd.o .libs/smoothd.o .libs/sord.o .libs/wjd.o .libs/gsdc.o >libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libapbspmgz.a >libtool: link: ( cd ".libs" && rm -f "libapbspmgz.la" && ln -s "../libapbspmgz.la" "libapbspmgz.la" ) >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >Making all in aqua >make[2]: Entering directory 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x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o PrintInfo.lo PrintInfo.f >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c Smoothing.f -o Smoothing.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c PrintInfo.f -fPIC -o .libs/PrintInfo.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c PrintInfo.f -o PrintInfo.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=F77 --mode=link x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -Wl,-O1 -o libapbsaqua.la Blaswrapper.lo Cartesian_grid.lo CGMG_Solver.lo Galerkin.lo LinMG.lo MatVect.lo Newton_Solver_pbe.lo Smoothing.lo PrintInfo.lo >libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libapbsaqua.a .libs/Blaswrapper.o .libs/Cartesian_grid.o .libs/CGMG_Solver.o .libs/Galerkin.o .libs/LinMG.o .libs/MatVect.o .libs/Newton_Solver_pbe.o .libs/Smoothing.o .libs/PrintInfo.o >libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libapbsaqua.a >libtool: link: ( cd ".libs" && rm -f "libapbsaqua.la" && ln -s "../libapbsaqua.la" "libapbsaqua.la" ) >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/aqua' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/aqua' >Making all in . >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >make[2]: Nothing to be done for `all-am'. >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >Making all in src >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >Making all in generic >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >Making all in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o nosh.lo nosh.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o mgparm.lo mgparm.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o femparm.lo femparm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c nosh.c -fPIC -DPIC -o .libs/nosh.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c mgparm.c -fPIC -DPIC -o .libs/mgparm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c femparm.c -fPIC -DPIC -o .libs/femparm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c femparm.c -o femparm.o >/dev/null 2>&1 >mgparm.c: In function 'MGparm_parseCHGM': >mgparm.c:450: warning: format '%d' expects type 'int *', but argument 3 has type 'enum Vchrg_Meth *' >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c mgparm.c -o mgparm.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o pbeparm.lo pbeparm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c pbeparm.c -fPIC -DPIC -o .libs/pbeparm.o >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o apolparm.lo apolparm.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c apolparm.c -fPIC -DPIC -o .libs/apolparm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c nosh.c -o nosh.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c pbeparm.c -o pbeparm.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c apolparm.c -o apolparm.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vacc.lo vacc.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vacc.c -fPIC -DPIC -o .libs/vacc.o >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o valist.lo valist.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c valist.c -fPIC -DPIC -o .libs/valist.o >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vatom.lo vatom.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vatom.c -fPIC -DPIC -o .libs/vatom.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c valist.c -o valist.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vacc.c -o vacc.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vatom.c -o vatom.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vgreen.lo vgreen.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vpbe.lo vpbe.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vgreen.c -fPIC -DPIC -o .libs/vgreen.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vpbe.c -fPIC -DPIC -o .libs/vpbe.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vgreen.c -o vgreen.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vpbe.c -o vpbe.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vcap.lo vcap.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vcap.c -fPIC -DPIC -o .libs/vcap.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vcap.c -o vcap.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vclist.lo vclist.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vstring.lo vstring.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vparam.lo vparam.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vclist.c -fPIC -DPIC -o .libs/vclist.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vstring.c -fPIC -DPIC -o .libs/vstring.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vparam.c -fPIC -DPIC -o .libs/vparam.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vstring.c -o vstring.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vclist.c -o vclist.o >/dev/null 2>&1 >cp -p ../../src/generic/apbs/*.h ../../src/aaa_inc/apbs/. >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/fem -I../../src/mg -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vparam.c -o vparam.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -o libapbsgen.la nosh.lo mgparm.lo femparm.lo pbeparm.lo apolparm.lo vacc.lo valist.lo vatom.lo vgreen.lo vpbe.lo vcap.lo vclist.lo vstring.lo vparam.lo >libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libapbsgen.a .libs/nosh.o .libs/mgparm.o .libs/femparm.o .libs/pbeparm.o .libs/apolparm.o .libs/vacc.o .libs/valist.o .libs/vatom.o .libs/vgreen.o .libs/vpbe.o .libs/vcap.o .libs/vclist.o .libs/vstring.o .libs/vparam.o >libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libapbsgen.a >libtool: link: ( cd ".libs" && rm -f "libapbsgen.la" && ln -s "../libapbsgen.la" "libapbsgen.la" ) >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >Making all in mg >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >Making all in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vpmg.lo vpmg.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vpmgp.lo vpmgp.c >/bin/sh ../../libtool --tag=F77 --mode=compile x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o mypde.lo mypde.f >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vpmgp.c -fPIC -DPIC -o .libs/vpmgp.o >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c mypde.f -fPIC -o .libs/mypde.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vpmg.c -fPIC -DPIC -o .libs/vpmg.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vpmgp.c -o vpmgp.o >/dev/null 2>&1 >/bin/sh 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-L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c mypde.f -o mypde.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c vpmgf.f -o vpmgf.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vmgrid.lo vmgrid.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vgrid.lo vgrid.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vmgrid.c -fPIC -DPIC -o .libs/vmgrid.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vgrid.c -fPIC -DPIC -o .libs/vgrid.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vmgrid.c -o vmgrid.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vopot.lo vopot.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vopot.c -fPIC -DPIC -o .libs/vopot.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vopot.c -o vopot.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vgrid.c -o vgrid.o >/dev/null 2>&1 >cp -p ../../src/mg/apbs/*.h ../../src/aaa_inc/apbs/. >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vpmg.c -o vpmg.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=F77 --mode=link x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -Wl,-O1 -o libapbsmg.la vpmg.lo vpmgp.lo mypde.lo vpmgf.lo vmgrid.lo vgrid.lo vopot.lo >libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libapbsmg.a .libs/vpmg.o .libs/vpmgp.o .libs/mypde.o .libs/vpmgf.o .libs/vmgrid.o .libs/vgrid.o .libs/vopot.o >libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libapbsmg.a >libtool: link: ( cd ".libs" && rm -f "libapbsmg.la" && ln -s "../libapbsmg.la" "libapbsmg.la" ) >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >Making all in fem >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >Making all in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vfetk.lo vfetk.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vcsm.lo vcsm.c >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o vpee.lo vpee.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vpee.c -fPIC -DPIC -o .libs/vpee.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vcsm.c -fPIC -DPIC -o .libs/vcsm.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vfetk.c -fPIC -DPIC -o .libs/vfetk.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vcsm.c -o vcsm.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vfetk.c -o vfetk.o >/dev/null 2>&1 >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c vpee.c -o vpee.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c -o dummy.lo dummy.c >cp -p ../../src/fem/apbs/*.h ../../src/aaa_inc/apbs/. >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c dummy.c -fPIC -DPIC -o .libs/dummy.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c dummy.c -o dummy.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -o libapbsfem.la vfetk.lo vcsm.lo vpee.lo dummy.lo >libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libapbsfem.a .libs/vfetk.o .libs/vcsm.o .libs/vpee.o .libs/dummy.o >libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libapbsfem.a >libtool: link: ( cd ".libs" && rm -f "libapbsfem.la" && ln -s "../libapbsfem.la" "libapbsfem.la" ) >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >Making all in aaa_inc >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >make all-recursive >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >Making all in apbs >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >Making all in . >make[5]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >make[5]: Nothing to be done for `all-am'. >make[5]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >Making all in . >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >make[4]: Nothing to be done for `all-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >Making all in aaa_lib >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >Making all in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >/bin/sh ../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -c -o apbs_link.lo apbs_link.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -c apbs_link.c -fPIC -DPIC -o .libs/apbs_link.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I../../src/generic -I../../src/mg -I../../src/fem -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -c apbs_link.c -o apbs_link.o >/dev/null 2>&1 >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -version-info 1:2:1 -Wl,-O1 -o libapbs.la -rpath /usr/lib64 apbs_link.lo ../../src/generic/libapbsgen.la ../../src/fem/libapbsfem.la ../../src/mg/libapbsmg.la ../../contrib/pmgZ/libapbspmgz.la ../../contrib/aqua/libapbsaqua.la -lblas -lgomp -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc >libtool: link: x86_64-pc-linux-gnu-gcc -shared .libs/apbs_link.o -Wl,--whole-archive ../../src/generic/.libs/libapbsgen.a ../../src/fem/.libs/libapbsfem.a ../../src/mg/.libs/libapbsmg.a ../../contrib/pmgZ/.libs/libapbspmgz.a ../../contrib/aqua/.libs/libapbsaqua.a -Wl,--no-whole-archive -Wl,-rpath -Wl,/usr/lib64/ -Wl,-rpath -Wl,/usr/lib64/ -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lblas /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib /usr/lib64//libmaloc.so -lreadline -lm -march=native -Wl,-O1 -Wl,-soname -Wl,libapbs.so.0 -o .libs/libapbs.so.0.1.2 >libtool: link: (cd ".libs" && rm -f "libapbs.so.0" && ln -s "libapbs.so.0.1.2" "libapbs.so.0") >libtool: link: (cd ".libs" && rm -f "libapbs.so" && ln -s "libapbs.so.0.1.2" "libapbs.so") >libtool: link: (cd .libs/libapbs.lax/libapbsgen.a && x86_64-pc-linux-gnu-ar x "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/../../src/generic/.libs/libapbsgen.a") >libtool: link: (cd .libs/libapbs.lax/libapbsfem.a && x86_64-pc-linux-gnu-ar x "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/../../src/fem/.libs/libapbsfem.a") >libtool: link: (cd .libs/libapbs.lax/libapbsmg.a && x86_64-pc-linux-gnu-ar x "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/../../src/mg/.libs/libapbsmg.a") >libtool: link: (cd .libs/libapbs.lax/libapbspmgz.a && x86_64-pc-linux-gnu-ar x "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/../../contrib/pmgZ/.libs/libapbspmgz.a") >libtool: link: (cd .libs/libapbs.lax/libapbsaqua.a && x86_64-pc-linux-gnu-ar x "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/../../contrib/aqua/.libs/libapbsaqua.a") >libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libapbs.a apbs_link.o .libs/libapbs.lax/libapbsgen.a/apolparm.o .libs/libapbs.lax/libapbsgen.a/vclist.o .libs/libapbs.lax/libapbsgen.a/mgparm.o .libs/libapbs.lax/libapbsgen.a/nosh.o .libs/libapbs.lax/libapbsgen.a/vatom.o .libs/libapbs.lax/libapbsgen.a/vstring.o .libs/libapbs.lax/libapbsgen.a/vacc.o .libs/libapbs.lax/libapbsgen.a/vcap.o .libs/libapbs.lax/libapbsgen.a/vpbe.o .libs/libapbs.lax/libapbsgen.a/pbeparm.o .libs/libapbs.lax/libapbsgen.a/vgreen.o .libs/libapbs.lax/libapbsgen.a/valist.o .libs/libapbs.lax/libapbsgen.a/vparam.o .libs/libapbs.lax/libapbsgen.a/femparm.o .libs/libapbs.lax/libapbsfem.a/dummy.o .libs/libapbs.lax/libapbsfem.a/vfetk.o .libs/libapbs.lax/libapbsfem.a/vcsm.o .libs/libapbs.lax/libapbsfem.a/vpee.o .libs/libapbs.lax/libapbsmg.a/vmgrid.o .libs/libapbs.lax/libapbsmg.a/mypde.o .libs/libapbs.lax/libapbsmg.a/vgrid.o .libs/libapbs.lax/libapbsmg.a/vpmg.o .libs/libapbs.lax/libapbsmg.a/vopot.o .libs/libapbs.lax/libapbsmg.a/vpmgf.o .libs/libapbs.lax/libapbsmg.a/vpmgp.o .libs/libapbs.lax/libapbspmgz.a/newtond.o .libs/libapbs.lax/libapbspmgz.a/mikpckd.o .libs/libapbs.lax/libapbspmgz.a/cgd.o .libs/libapbs.lax/libapbspmgz.a/gsd.o .libs/libapbs.lax/libapbspmgz.a/wjd.o .libs/libapbs.lax/libapbspmgz.a/mgdrvd.o .libs/libapbs.lax/libapbspmgz.a/mgfasd.o .libs/libapbs.lax/libapbspmgz.a/ncgdrvd.o .libs/libapbs.lax/libapbspmgz.a/mainsubd.o .libs/libapbs.lax/libapbspmgz.a/nsmoothd.o .libs/libapbs.lax/libapbspmgz.a/mgsubd.o .libs/libapbs.lax/libapbspmgz.a/cgmgdrvd.o .libs/libapbs.lax/libapbspmgz.a/mgcsd.o .libs/libapbs.lax/libapbspmgz.a/ngsdrvd.o .libs/libapbs.lax/libapbspmgz.a/powerd.o .libs/libapbs.lax/libapbspmgz.a/mlinpckd.o .libs/libapbs.lax/libapbspmgz.a/smoothd.o .libs/libapbs.lax/libapbspmgz.a/gsdc.o .libs/libapbs.lax/libapbspmgz.a/ncgd.o .libs/libapbs.lax/libapbspmgz.a/ngsd.o .libs/libapbs.lax/libapbspmgz.a/nwjd.o .libs/libapbs.lax/libapbspmgz.a/matvecd.o .libs/libapbs.lax/libapbspmgz.a/nrchdrvd.o .libs/libapbs.lax/libapbspmgz.a/rchd.o .libs/libapbs.lax/libapbspmgz.a/nrchd.o .libs/libapbs.lax/libapbspmgz.a/sord.o .libs/libapbs.lax/libapbspmgz.a/buildAd.o .libs/libapbs.lax/libapbspmgz.a/buildBd.o .libs/libapbs.lax/libapbspmgz.a/buildGd.o .libs/libapbs.lax/libapbspmgz.a/buildPd.o .libs/libapbs.lax/libapbspmgz.a/nsord.o .libs/libapbs.lax/libapbspmgz.a/dlphsubd.o .libs/libapbs.lax/libapbspmgz.a/nwjdrvd.o .libs/libapbs.lax/libapbspmgz.a/ninterpd.o .libs/libapbs.lax/libapbspmgz.a/newdrvd.o .libs/libapbs.lax/libapbspmgz.a/nsordrvd.o .libs/libapbs.lax/libapbspmgz.a/cgmgd.o .libs/libapbs.lax/libapbsaqua.a/Smoothing.o .libs/libapbs.lax/libapbsaqua.a/Galerkin.o .libs/libapbs.lax/libapbsaqua.a/Cartesian_grid.o .libs/libapbs.lax/libapbsaqua.a/CGMG_Solver.o .libs/libapbs.lax/libapbsaqua.a/LinMG.o .libs/libapbs.lax/libapbsaqua.a/Blaswrapper.o .libs/libapbs.lax/libapbsaqua.a/PrintInfo.o .libs/libapbs.lax/libapbsaqua.a/MatVect.o .libs/libapbs.lax/libapbsaqua.a/Newton_Solver_pbe.o >libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libapbs.a >libtool: link: rm -fr .libs/libapbs.lax >libtool: link: ( cd ".libs" && rm -f "libapbs.la" && ln -s "../libapbs.la" "libapbs.la" ) >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >Making all in . >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >make[2]: Nothing to be done for `all-am'. >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >Making all in bin >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >rm -f apbs >make all-am >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >/bin/sh ../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -c -o routines.lo routines.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -c main.c >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -c routines.c -fPIC -DPIC -o .libs/routines.o >libtool: compile: x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -c routines.c -o routines.o >/dev/null 2>&1 >/bin/sh ../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -O2 -pipe -march=native -fopenmp -version-info 1:2:1 -Wl,-O1 -o libapbsmainroutines.la -rpath /usr/lib64 routines.lo >libtool: link: x86_64-pc-linux-gnu-gcc -shared .libs/routines.o -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -march=native -Wl,-O1 -Wl,-soname -Wl,libapbsmainroutines.so.0 -o .libs/libapbsmainroutines.so.0.1.2 >libtool: link: (cd ".libs" && rm -f "libapbsmainroutines.so.0" && ln -s "libapbsmainroutines.so.0.1.2" "libapbsmainroutines.so.0") >libtool: link: (cd ".libs" && rm -f "libapbsmainroutines.so" && ln -s "libapbsmainroutines.so.0.1.2" "libapbsmainroutines.so") >libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libapbsmainroutines.a routines.o >libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libapbsmainroutines.a >libtool: link: ( cd ".libs" && rm -f "libapbsmainroutines.la" && ln -s "../libapbsmainroutines.la" "libapbsmainroutines.la" ) >/bin/sh ../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -Wl,-O1 -o apbs main.o /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas libapbsmainroutines.la >libtool: link: x86_64-pc-linux-gnu-gfortran -fPIC -g -O2 -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -g -O2 -fopenmp -Wl,-O1 -o .libs/apbs main.o -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/.libs/libapbsmainroutines.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/.libs/libapbs.so -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt /usr/lib64//libmaloc.so -lreadline /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a -lblas ./.libs/libapbsmainroutines.so /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -Wl,-rpath -Wl,/usr/lib64/ >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >Making all in tools >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >Making all in mesh >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/mesh' >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c mgmesh.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c dxmath.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c mergedx.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c mergedx2.c >x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -c -o uhbd_asc2bin.o uhbd_asc2bin.f >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c smooth.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c value.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c dx2mol.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c dx2uhbd.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c benchmark.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c similarity.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c analysis.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c multivalue.c >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas -Wl,-O1 -o mgmesh mgmesh.o ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o dxmath dxmath.o ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas -Wl,-O1 -o mergedx mergedx.o ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >libtool: link: x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -o .libs/mgmesh mgmesh.o -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib ../../src/aaa_lib/.libs/libapbs.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/.libs/libapbsmainroutines.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/.libs/libapbs.so /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt /usr/lib64//libmaloc.so -lreadline /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -lblas -Wl,-rpath -Wl,/usr/lib64/ >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib 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-Wl,-O1 -o analysis analysis.o ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o multivalue multivalue.o ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >libtool: link: x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o .libs/similarity similarity.o ../../src/aaa_lib/.libs/libapbs.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/.libs/libapbsmainroutines.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/.libs/libapbs.so /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt /usr/lib64//libmaloc.so -lreadline /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -lblas -Wl,-rpath -Wl,/usr/lib64/ >libtool: link: x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o .libs/analysis analysis.o ../../src/aaa_lib/.libs/libapbs.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/.libs/libapbsmainroutines.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/.libs/libapbs.so /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt /usr/lib64//libmaloc.so -lreadline /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -lblas -Wl,-rpath -Wl,/usr/lib64/ >libtool: link: x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o .libs/multivalue multivalue.o ../../src/aaa_lib/.libs/libapbs.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/.libs/libapbsmainroutines.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/.libs/libapbs.so /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt /usr/lib64//libmaloc.so -lreadline /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -lblas -Wl,-rpath -Wl,/usr/lib64/ >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/mesh' >Making all in manip >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/manip' >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c coulomb.c >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -c born.c >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o born born.o ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >/bin/sh ../../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o coulomb coulomb.o ../../src/aaa_lib/libapbs.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >libtool: link: x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o .libs/born born.o ../../src/aaa_lib/.libs/libapbs.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/.libs/libapbsmainroutines.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/.libs/libapbs.so /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt /usr/lib64//libmaloc.so -lreadline /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -lblas -Wl,-rpath -Wl,/usr/lib64/ >libtool: link: x86_64-pc-linux-gnu-gcc -fPIC -O2 -pipe -march=native -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -Wl,-O1 -o .libs/coulomb coulomb.o ../../src/aaa_lib/.libs/libapbs.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/.libs/libapbsmainroutines.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/.libs/libapbs.so /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt /usr/lib64//libmaloc.so -lreadline /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -lblas -Wl,-rpath -Wl,/usr/lib64/ >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/manip' >Making all in python >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >Making all in vgrid >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python/vgrid' >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -I/usr/include/python2.6 -I/usr/include/python2.6 -I../../../bin -O2 -pipe -march=native -fopenmp -c vgridlib.c >vgridlib.c: In function 'SWIG_Python_ConvertPtr': >vgridlib.c:1192: warning: initialization discards qualifiers from pointer target type >vgridlib.c: In function 'SWIG_Python_FixMethods': >vgridlib.c:3127: warning: initialization discards qualifiers from pointer target type >x86_64-pc-linux-gnu-gfortran -fPIC -O2 -pipe -march=native -Wl,-O1 -o _vgrid.so -shared vgridlib.o ../../../bin/.libs/libapbsmainroutines.a ../../../src/aaa_lib/.libs/libapbs.a -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python/vgrid' >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >x86_64-pc-linux-gnu-gcc -fPIC -DHAVE_CONFIG_H -I. -I../../src/aaa_inc -I. -I/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/include -I/usr/include/python2.6 -I/usr/include/python2.6 -I../../bin -O2 -pipe -march=native -fopenmp -c apbslib.c >apbslib.c: In function 'SWIG_Python_AddErrorMsg': >apbslib.c:853: warning: format not a string literal and no format arguments >x86_64-pc-linux-gnu-gfortran -fPIC -O2 -pipe -march=native -Wl,-O1 -o _apbslib.so -shared apbslib.o ../../bin/.libs/libapbsmainroutines.a ../../src/aaa_lib/.libs/libapbs.a >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >make[2]: Nothing to be done for `all-am'. >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source' >make[1]: Nothing to be done for `all-am'. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source' >>>> Source compiled. >rm -f TESTRESULTS.log >touch TESTRESULTS.log >cd actin-dimer; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/actin-dimer' >./test.sh ../../bin//apbs ../../tools/manip/inputgen.py noocd >---------------------------------------- >Testing input file apbs-mol-auto.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Global net energy: 1.048670939396E+02 >*** PASSED *** >Total elapsed time: 215 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol-auto.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Global net energy: 1.095828952935E+02 >*** PASSED *** >Total elapsed time: 163 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-mol-parallel.in > >Splitting the input file into 8 separate files using the >inputgen.py utility... > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 0 result: 8.343966082219E+00 >./test.sh: line 60: printf: 8.343966082219E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Processor 1 result: -9.012299006860E-01 >./test.sh: line 60: printf: -9.012299006860E-01: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 2 result: 3.002008945980E+01 >./test.sh: line 60: printf: 3.002008945980E+01: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Processor 3 result: 8.710172318902E+00 >./test.sh: line 60: printf: 8.710172318902E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 4 result: 2.108404711596E+01 >./test.sh: line 60: printf: 2.108404711596E+01: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 5 result: 2.371727067153E+00 >./test.sh: line 60: printf: 2.371727067153E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Processor 6 result: -1.893013044057E+00 >./test.sh: line 60: printf: -1.893013044057E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 7 result: 3.043757537386E+01 >./test.sh: line 60: printf: 3.043757537386E+01: número inválido >(standard_in) 1: syntax error > >Global net energy: 0,000000000000E+00 >*** FAILED *** > APBS returned 0,000000000000E+00 > Expected result is 9.817333448193E+01 (-100% error) >Total elapsed time: 528 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol-parallel.in > >Splitting the input file into 8 separate files using the >inputgen.py utility... > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 0 result: 8.731753125605E+00 >./test.sh: line 60: printf: 8.731753125605E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Processor 1 result: -1.155350081004E+00 >./test.sh: line 60: printf: -1.155350081004E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Processor 2 result: 3.228470337268E+01 >./test.sh: line 60: printf: 3.228470337268E+01: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Processor 3 result: 9.405123682311E+00 >./test.sh: line 60: printf: 9.405123682311E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Processor 4 result: 3.637557621581E+01 >./test.sh: line 60: printf: 3.637557621581E+01: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 5 result: 1.004583866192E+00 >./test.sh: line 60: printf: 1.004583866192E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >% MVCS: iters on coarse grid: 100 >Processor 6 result: -1.699514947191E+00 >./test.sh: line 60: printf: -1.699514947191E+00: número inválido >(standard_in) 1: syntax error > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 7 result: 3.059404655199E+01 >./test.sh: line 60: printf: 3.059404655199E+01: número inválido >(standard_in) 1: syntax error > >Global net energy: 0,000000000000E+00 >*** FAILED *** > APBS returned 0,000000000000E+00 > Expected result is 1.155409217896E+02 (-100% error) >Total elapsed time: 384 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 1290 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/actin-dimer' >cd alkanes; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/alkanes' >./test.sh ../../bin//apbs ../../tools/manip/inputgen.py noocd >---------------------------------------- >Testing input PDB file 2-methylbutane.pdb > >Calculating for 2-methylbutane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.439739455792E+01 >*** PASSED *** >Total elapsed time: 4 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file butane.pdb > >Calculating for butane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.208346456826E+01 >*** PASSED *** >Total elapsed time: 4 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file cyclohexane.pdb > >Calculating for cyclohexane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.354016672221E+01 >*** PASSED *** >Total elapsed time: 4 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file cyclopentane.pdb > >Calculating for cyclopentane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 9.363673200142E+00 >*** PASSED *** >Total elapsed time: 3 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file ethane.pdb > >Calculating for ethane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 9.422717598546E+00 >*** PASSED *** >Total elapsed time: 2 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file hexane.pdb > >Calculating for hexane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.640068943201E+01 >*** PASSED *** >Total elapsed time: 5 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file isobutane.pdb > >Calculating for isobutane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.323144287435E+01 >*** PASSED *** >Total elapsed time: 3 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file methane.pdb > >Calculating for methane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 7.894367190329E+00 >*** PASSED *** >Total elapsed time: 2 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file neopentane.pdb > >Calculating for neopentane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.449633815052E+01 >*** PASSED *** >Total elapsed time: 4 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file pentane.pdb > >Calculating for pentane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.447900211546E+01 >*** PASSED *** >Total elapsed time: 4 seconds >---------------------------------------- >---------------------------------------- >Testing input PDB file propane.pdb > >Calculating for propane... >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.192358496286E+01 >*** PASSED *** >Total elapsed time: 3 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 38 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/alkanes' >cd born; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/born' >./test.sh ../../bin//apbs ../../tools/manip/inputgen.py noocd >---------------------------------------- >Testing input file apbs-mol-auto.in > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: -2.297735432277E+02 >*** PASSED *** >Total elapsed time: 4 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol-auto.in > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: -2.290124171992E+02 >*** PASSED *** >Total elapsed time: 4 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-mol-parallel.in > >Splitting the input file into 4 separate files using the >inputgen.py utility... > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 0 result: -5.761863262106E+01 >./test.sh: line 60: printf: -5.761863262106E+01: número inválido >(standard_in) 1: syntax error > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 1 result: -5.762727259095E+01 >./test.sh: line 60: printf: -5.762727259095E+01: número inválido >(standard_in) 1: syntax error > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 2 result: -5.761863175078E+01 >./test.sh: line 60: printf: -5.761863175078E+01: número inválido >(standard_in) 1: syntax error > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 3 result: -5.762727170069E+01 >./test.sh: line 60: printf: -5.762727170069E+01: número inválido >(standard_in) 1: syntax error > >Global net energy: 0,000000000000E+00 >*** FAILED *** > APBS returned 0,000000000000E+00 > Expected result is -2.304918086635E+02 (-100% error) >Total elapsed time: 20 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol-parallel.in > >Splitting the input file into 4 separate files using the >inputgen.py utility... > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 0 result: -5.734894917426E+01 >./test.sh: line 60: printf: -5.734894917426E+01: número inválido >(standard_in) 1: syntax error > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 1 result: -5.734461859704E+01 >./test.sh: line 60: printf: -5.734461859704E+01: número inválido >(standard_in) 1: syntax error > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 2 result: -5.734894914962E+01 >./test.sh: line 60: printf: -5.734894914962E+01: número inválido >(standard_in) 1: syntax error > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Processor 3 result: -5.734461855615E+01 >./test.sh: line 60: printf: -5.734461855615E+01: número inválido >(standard_in) 1: syntax error > >Global net energy: 0,000000000000E+00 >*** FAILED *** > APBS returned 0,000000000000E+00 > Expected result is -2.293871354771E+02 (-100% error) >Total elapsed time: 20 seconds >---------------------------------------- >---------------------------------------- >Testing input file .in > >grep: .in: No existe el fichero o el directorio >Vio_ctor2: some error occurred. >Vio_ctor: Vio_ctor2() failed. >Error while opening input file .in! >Global net energy: >awk: (FILENAME=- FNR=1) fatal: se intentó una división por cero >*** PASSED *** >../scripts/checkresults.sh: line 37: $logfile: redireccionamiento ambiguo >Total elapsed time: 0 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 48 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/born' >cd FKBP; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/FKBP' >./test.sh ../../bin//apbs noocd >---------------------------------------- >Testing input file 1d7h-dmso/apbs-mol.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: 1.500769108269E+01 >*** PASSED *** >Total elapsed time: 23 seconds >---------------------------------------- >---------------------------------------- >Testing input file 1d7h-dmso/apbs-smol.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: 1.624455262584E+01 >*** PASSED *** >Total elapsed time: 21 seconds >---------------------------------------- >---------------------------------------- >Testing input file 1d7i-dss/apbs-mol.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: 1.442500529301E+01 >*** PASSED *** >Total elapsed time: 24 seconds >---------------------------------------- >---------------------------------------- >Testing input file 1d7i-dss/apbs-smol.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: 1.545150009785E+01 >*** PASSED *** >Total elapsed time: 21 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 89 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/FKBP' >cd hca-bind; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/hca-bind' >./test.sh ../../bin//apbs noocd >---------------------------------------- >Testing input file apbs-mol.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: -5.246467966601E+01 >*** PASSED *** >Total elapsed time: 20 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: -5.405977880079E+01 >*** PASSED *** >Total elapsed time: 15 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 35 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/hca-bind' >cd ion-protein; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/ion-protein' >./test.sh ../../bin//apbs noocd >---------------------------------------- >Testing input file apbs-mol-pdiel2.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.558193146994E+01 >*** PASSED *** >Total elapsed time: 41 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol-pdiel2.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 2.354575739890E+01 >*** PASSED *** >Total elapsed time: 36 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-mol-pdiel12.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.801756256435E+01 >*** PASSED *** >Total elapsed time: 31 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol-pdiel12.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >Global net energy: 1.927278633151E+01 >*** PASSED *** >Total elapsed time: 33 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 141 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/ion-protein' >cd ionize; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/ionize' >./test.sh ../../bin//apbs noocd >---------------------------------------- >Testing input file apbs-mol.in > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Acetic Acid Energy: -2.267881997628E+01 >*** PASSED *** >Acetate Energy : -1.997462580204E+02 >*** PASSED *** >Proton Energy : -2.974598331751E+02 >*** PASSED *** >Ionization Energy : -4.745272712192E+02 >*** PASSED *** >Total elapsed time: 9 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol.in > > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Acetic Acid Energy: -2.233050451128E+01 >*** PASSED *** >Acetate Energy : -1.984883191396E+02 >*** PASSED *** >Proton Energy : -2.959668653531E+02 >*** PASSED *** >Ionization Energy : -4.721246799814E+02 >*** PASSED *** >Total elapsed time: 8 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 17 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/ionize' >cd pka-lig; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/pka-lig' >./test.sh ../../bin//apbs noocd >---------------------------------------- >Testing input file apbs-mol-vdw.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: 8.083540155843E+00 >*** PASSED *** >Total elapsed time: 29 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol-vdw.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: 2.096296139207E+01 >*** PASSED *** >Total elapsed time: 23 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-mol-surf.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: 1.192608095265E+02 >*** PASSED *** >Total elapsed time: 25 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol-surf.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! > >focusFillBound: WARNING! Unusually large potential values detected on the focusing boundary! Convergence not guaranteed! >Global net energy: 1.088748102540E+02 >*** PASSED *** >Total elapsed time: 22 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 99 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/pka-lig' >cd point-pmf; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/point-pmf' >./test.sh ../../bin//apbs noocd >---------------------------------------- >Testing input file apbs.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >*** PASSED *** > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >*** PASSED *** > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >*** PASSED *** > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >*** PASSED *** >Total elapsed time: 8 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 8 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/point-pmf' >cd protein-rna; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/protein-rna' >./test.sh ../../bin//apbs noocd >---------------------------------------- >Testing input file apbs-0.050.in > >Vio_ctor2: some error occurred. >Vio_ctor: Vio_ctor2() failed. >Error while opening input file apbs-0.050.in! >awk: (FILENAME=- FNR=1) fatal: se intentó una división por cero >*** PASSED (with rounding error - see log) *** >Total elapsed time: 0 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 0 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/protein-rna' >cd smpbe; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/smpbe' >./test.sh ../../bin//apbs ../../tools/manip/inputgen.py noocd >---------------------------------------- >Testing input file apbs-smpbe-24dup.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > cgmg = [ > cgmg = [ >Global net energy: 8.404388887565E+03 >*** PASSED *** >Total elapsed time: 44 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smpbe-ion.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. > cgmg = [ > cgmg = [ >Global net energy: 8.141539945670E+02 >*** PASSED *** >Total elapsed time: 3 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 47 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/smpbe' >cd solv; make test; cat TESTRESULTS.log >> ../TESTRESULTS.log >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/solv' >./test.sh ../../bin//apbs noocd >---------------------------------------- >Testing input file apbs-mol.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >*** PASSED *** >*** PASSED *** >*** PASSED *** >Total elapsed time: 2 seconds >---------------------------------------- >---------------------------------------- >Testing input file apbs-smol.in > >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >asc_getToken: Error occurred (bailing out). >Vio_scanf: Format problem with input. >*** PASSED *** >*** PASSED *** >*** PASSED *** >Total elapsed time: 3 seconds >---------------------------------------- >Test results have been logged to TESTRESULTS.log. >Total time for this directory: 5 seconds. >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/examples/solv' > [31;01m*[0m ERROR: sci-chemistry/apbs-1.2.1b-r4 failed: > [31;01m*[0m Tests failed > [31;01m*[0m > [31;01m*[0m Call stack: > [31;01m*[0m ebuild.sh, line 54: Called src_test > [31;01m*[0m environment, line 5844: Called die > [31;01m*[0m The specific snippet of code: > [31;01m*[0m grep -q 'FAILED' "${S}"/examples/TESTRESULTS.log && die "Tests failed"; > [31;01m*[0m > [31;01m*[0m If you need support, post the output of 'emerge --info =sci-chemistry/apbs-1.2.1b-r4', > [31;01m*[0m the complete build log and the output of 'emerge -pqv =sci-chemistry/apbs-1.2.1b-r4'. > [31;01m*[0m The complete build log is located at '/var/log/portage/build/sci-chemistry/apbs-1.2.1b-r4:20100624-164306.log'. > [31;01m*[0m The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/temp/environment'. > [31;01m*[0m S: '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source' > >>>> Install apbs-1.2.1b-r4 into /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image/ category sci-chemistry >make -j3 -j1 DESTDIR=/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image/ install >Making install in contrib >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >Making install in pmgZ >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >Making install in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >cp -p ../../src/mg/apbs/*.h ../../src/aaa_inc/apbs/. >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >make[4]: Nothing to be done for `install-exec-am'. >make[4]: Nothing to be done for `install-data-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/pmgZ' >Making install in aqua >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/aqua' >Making install in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/aqua' >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/aqua' >make[4]: Nothing to be done for `install-exec-am'. >make[4]: Nothing to be done for `install-data-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/aqua' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/aqua' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/aqua' >Making install in . >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >make[3]: Nothing to be done for `install-exec-am'. >make[3]: Nothing to be done for `install-data-am'. >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib' >Making install in src >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >Making install in generic >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >Making install in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >cp -p ../../src/generic/apbs/*.h ../../src/aaa_inc/apbs/. >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >make[4]: Nothing to be done for `install-exec-am'. >make[4]: Nothing to be done for `install-data-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/generic' >Making install in mg >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >Making install in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >cp -p ../../src/mg/apbs/*.h ../../src/aaa_inc/apbs/. >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >make[4]: Nothing to be done for `install-exec-am'. >make[4]: Nothing to be done for `install-data-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/mg' >Making install in fem >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >Making install in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >cp -p ../../src/fem/apbs/*.h ../../src/aaa_inc/apbs/. >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >make[4]: Nothing to be done for `install-exec-am'. >make[4]: Nothing to be done for `install-data-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/fem' >Making install in aaa_inc >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >Making install in apbs >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >Making install in . >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >make[5]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >make[5]: Nothing to be done for `install-exec-am'. >test -z "/usr/include/apbs" || /bin/mkdir -p "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs" > /usr/bin/install -c -m 644 'apbs.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/apbs.h' > /usr/bin/install -c -m 644 'apolparm.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/apolparm.h' > /usr/bin/install -c -m 644 'femparm.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/femparm.h' > /usr/bin/install -c -m 644 'mgparm.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/mgparm.h' > /usr/bin/install -c -m 644 'nosh.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/nosh.h' > /usr/bin/install -c -m 644 'pbeparm.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/pbeparm.h' > /usr/bin/install -c -m 644 'vacc.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vacc.h' > /usr/bin/install -c -m 644 'valist.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/valist.h' > /usr/bin/install -c -m 644 'vatom.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vatom.h' > /usr/bin/install -c -m 644 'vcap.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vcap.h' > /usr/bin/install -c -m 644 'vgreen.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vgreen.h' > /usr/bin/install -c -m 644 'vhal.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vhal.h' > /usr/bin/install -c -m 644 'vpbe.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vpbe.h' > /usr/bin/install -c -m 644 'vunit.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vunit.h' > /usr/bin/install -c -m 644 'vstring.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vstring.h' > /usr/bin/install -c -m 644 'vparam.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vparam.h' > /usr/bin/install -c -m 644 'vclist.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vclist.h' > /usr/bin/install -c -m 644 'vpmg.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vpmg.h' > /usr/bin/install -c -m 644 'vpmgp.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vpmgp.h' > /usr/bin/install -c -m 644 'vgrid.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vgrid.h' > /usr/bin/install -c -m 644 'vmgrid.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vmgrid.h' > /usr/bin/install -c -m 644 'vopot.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vopot.h' > /usr/bin/install -c -m 644 'vfetk.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vfetk.h' > /usr/bin/install -c -m 644 'vcsm.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vcsm.h' > /usr/bin/install -c -m 644 'vpee.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/vpee.h' >make[5]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc/apbs' >Making install in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >make[4]: Nothing to be done for `install-exec-am'. >test -z "/usr/include/apbs" || /bin/mkdir -p "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs" > /usr/bin/install -c -m 644 'apbscfg.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/apbscfg.h' >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_inc' >Making install in aaa_lib >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >Making install in . >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >test -z "/usr/lib64" || /bin/mkdir -p "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64" > /bin/sh ../../libtool --mode=install /usr/bin/install -c 'libapbs.la' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbs.la' >libtool: install: /usr/bin/install -c .libs/libapbs.so.0.1.2 /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbs.so.0.1.2 >libtool: install: (cd /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64 && { ln -s -f libapbs.so.0.1.2 libapbs.so.0 || { rm -f libapbs.so.0 && ln -s libapbs.so.0.1.2 libapbs.so.0; }; }) >libtool: install: (cd /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64 && { ln -s -f libapbs.so.0.1.2 libapbs.so || { rm -f libapbs.so && ln -s libapbs.so.0.1.2 libapbs.so; }; }) >libtool: install: /usr/bin/install -c .libs/libapbs.lai /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbs.la >libtool: install: /usr/bin/install -c .libs/libapbs.a /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbs.a >libtool: install: chmod 644 /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbs.a >libtool: install: x86_64-pc-linux-gnu-ranlib /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbs.a >libtool: install: warning: remember to run `libtool --finish /usr/lib64' >make[4]: Nothing to be done for `install-data-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib' >Making install in . >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >make[3]: Nothing to be done for `install-exec-am'. >make[3]: Nothing to be done for `install-data-am'. >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src' >Making install in bin >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >rm -f apbs >make install-am >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >/bin/sh ../libtool --tag=CC --mode=link x86_64-pc-linux-gnu-gfortran -fPIC -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -g -O2 -fopenmp -Wl,-O1 -o apbs main.o /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib -lmaloc -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. -lgfortranbegin -lgfortran -lm -lm -lblas libapbsmainroutines.la >libtool: link: x86_64-pc-linux-gnu-gfortran -fPIC -g -O2 -fopenmp -O2 -pipe -march=native -fopenmp -Wl,-O1 -g -O2 -fopenmp -Wl,-O1 -o .libs/apbs main.o -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../.. /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/.libs/libapbsmainroutines.so /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/.libs/libapbs.so -L/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/contrib/lib /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgomp.so -lrt /usr/lib64//libmaloc.so -lreadline /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortranbegin.a -lblas ./.libs/libapbsmainroutines.so /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/libgfortran.so -lm -Wl,-rpath -Wl,/usr/lib64/ >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >test -z "/usr/lib64" || /bin/mkdir -p "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64" > /bin/sh ../libtool --mode=install /usr/bin/install -c 'libapbsmainroutines.la' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbsmainroutines.la' >libtool: install: /usr/bin/install -c .libs/libapbsmainroutines.so.0.1.2 /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbsmainroutines.so.0.1.2 >libtool: install: (cd /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64 && { ln -s -f libapbsmainroutines.so.0.1.2 libapbsmainroutines.so.0 || { rm -f libapbsmainroutines.so.0 && ln -s libapbsmainroutines.so.0.1.2 libapbsmainroutines.so.0; }; }) >libtool: install: (cd /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64 && { ln -s -f libapbsmainroutines.so.0.1.2 libapbsmainroutines.so || { rm -f libapbsmainroutines.so && ln -s libapbsmainroutines.so.0.1.2 libapbsmainroutines.so; }; }) >libtool: install: /usr/bin/install -c .libs/libapbsmainroutines.lai /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbsmainroutines.la >libtool: install: /usr/bin/install -c .libs/libapbsmainroutines.a /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbsmainroutines.a >libtool: install: chmod 644 /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbsmainroutines.a >libtool: install: x86_64-pc-linux-gnu-ranlib /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/libapbsmainroutines.a >libtool: install: warning: remember to run `libtool --finish /usr/lib64' >test -z "/usr/bin" || /bin/mkdir -p "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/bin" > /bin/sh ../libtool --mode=install /usr/bin/install -c 'apbs' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/bin/apbs' >libtool: install: warning: `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin/libapbsmainroutines.la' has not been installed in `/usr/lib64' >libtool: install: warning: `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/src/aaa_lib/libapbs.la' has not been installed in `/usr/lib64' >libtool: install: warning: `libapbsmainroutines.la' has not been installed in `/usr/lib64' >libtool: install: /usr/bin/install -c .libs/apbs /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/bin/apbs >rm -f /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/bin/wsdl2py >test -z "/usr/include/apbs" || /bin/mkdir -p "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs" > /usr/bin/install -c -m 644 'routines.h' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/include/apbs/routines.h' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/bin' >Making install in tools >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >Making install in mesh >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/mesh' >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/mesh' >make[3]: Nothing to be done for `install-exec-am'. >make[3]: Nothing to be done for `install-data-am'. >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/mesh' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/mesh' >Making install in manip >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/manip' >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/manip' >make[3]: Nothing to be done for `install-exec-am'. >make[3]: Nothing to be done for `install-data-am'. >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/manip' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/manip' >Making install in python >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >Making install in vgrid >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python/vgrid' >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python/vgrid' >make[4]: Nothing to be done for `install-exec-am'. >make[4]: Nothing to be done for `install-data-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python/vgrid' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python/vgrid' >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >make[4]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >make[4]: Nothing to be done for `install-exec-am'. >make[4]: Nothing to be done for `install-data-am'. >make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools/python' >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >make[3]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >make[3]: Nothing to be done for `install-exec-am'. >make[3]: Nothing to be done for `install-data-am'. >make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source/tools' >make[1]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source' >make[2]: Entering directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source' >rm -f ./bin/apbs >rm -f tools/manip/*.pyc >rm -f tools/**/*.o >rm -f tools/**/*.c >rm -f tools/**/*.f >rm -f tools/**/*Makefile* >rm -f tools/**/**/*.o >rm -f tools/**/**/*.c >rm -f tools/**/**/*.f >rm -f tools/**/**/*Makefile* >rm -f tools/*Makefile* >rm -f examples/*Makefile* >rm -f examples/**/*Makefile* >rm -f doc/LICENSE.txt >test -z "/usr/lib64/pkgconfig" || /bin/mkdir -p "/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/pkgconfig" > /usr/bin/install -c -m 644 'apbs.pc' '/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image//usr/lib64/pkgconfig/apbs.pc' >make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source' >make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/work/apbs-1.2.1-source' >>>> Completed installing apbs-1.2.1b-r4 into /var/tmp/portage/sci-chemistry/apbs-1.2.1b-r4/image/ > >strip: x86_64-pc-linux-gnu-strip --strip-unneeded -R .comment > usr/bin/apbs > usr/lib64/libapbs.so.0.1.2 > usr/lib64/libapbsmainroutines.so.0.1.2 > usr/lib64/python2.6/site-packages/apbs/_vgrid.so > usr/lib64/python2.6/site-packages/apbs/_apbslib.so > usr/lib64/libapbsmainroutines.a > usr/lib64/libapbs.a >removing executable bit: usr/lib64/libapbs.la >removing executable bit: usr/lib64/libapbsmainroutines.la > [32;01m*[39;49;00m checking 58 files for package collisions >--- /usr/ >--- /usr/bin/ >>>> /usr/bin/apbs >--- /usr/lib64/ >>>> /usr/lib64/libapbs.so.0.1.2 >>>> /usr/lib64/libapbsmainroutines.so.0.1.2 >--- /usr/lib64/pkgconfig/ >>>> /usr/lib64/pkgconfig/apbs.pc >>>> /usr/lib64/libapbsmainroutines.la >>>> /usr/lib64/libapbsmainroutines.so -> libapbsmainroutines.so.0.1.2 >>>> /usr/lib64/libapbs.la >>>> /usr/lib64/libapbs.so -> libapbs.so.0.1.2 >>>> /usr/lib64/libapbs.so.0 -> libapbs.so.0.1.2 >--- /usr/lib64/python2.6/ >--- /usr/lib64/python2.6/site-packages/ >>>> /usr/lib64/python2.6/site-packages/apbs/ >>>> /usr/lib64/python2.6/site-packages/apbs/read.py >>>> /usr/lib64/python2.6/site-packages/apbs/average.py >>>> /usr/lib64/python2.6/site-packages/apbs/_vgrid.so >>>> /usr/lib64/python2.6/site-packages/apbs/main.py >>>> /usr/lib64/python2.6/site-packages/apbs/apbslib.py >>>> /usr/lib64/python2.6/site-packages/apbs/runGB.py >>>> /usr/lib64/python2.6/site-packages/apbs/noinput.py >>>> /usr/lib64/python2.6/site-packages/apbs/inputgen.py >>>> /usr/lib64/python2.6/site-packages/apbs/_apbslib.so >>>> /usr/lib64/python2.6/site-packages/apbs/mergedx.py >>>> /usr/lib64/python2.6/site-packages/apbs/vgrid.py >>>> /usr/lib64/python2.6/site-packages/apbs/psize.py >>>> /usr/lib64/python2.6/site-packages/apbs/ion.pqr >>>> /usr/lib64/python2.6/site-packages/apbs/readGB.py >>>> /usr/lib64/libapbsmainroutines.a >>>> /usr/lib64/libapbs.a >--- /usr/share/ >--- /usr/share/doc/ >>>> /usr/share/doc/apbs-1.2.1b-r4/ >>>> /usr/share/doc/apbs-1.2.1b-r4/AUTHORS.bz2 >>>> /usr/share/doc/apbs-1.2.1b-r4/NEWS.bz2 >>>> /usr/share/doc/apbs-1.2.1b-r4/README.bz2 >>>> /usr/share/doc/apbs-1.2.1b-r4/INSTALL.bz2 >>>> /usr/share/doc/apbs-1.2.1b-r4/ChangeLog.bz2 >--- /usr/include/ >>>> /usr/include/apbs/ >>>> /usr/include/apbs/apolparm.h >>>> /usr/include/apbs/vclist.h >>>> /usr/include/apbs/apbscfg.h >>>> /usr/include/apbs/mgparm.h >>>> /usr/include/apbs/apbs.h >>>> /usr/include/apbs/vmgrid.h >>>> /usr/include/apbs/routines.h >>>> /usr/include/apbs/nosh.h >>>> /usr/include/apbs/vatom.h >>>> /usr/include/apbs/vstring.h >>>> /usr/include/apbs/vfetk.h >>>> /usr/include/apbs/vacc.h >>>> /usr/include/apbs/vcap.h >>>> /usr/include/apbs/vcsm.h >>>> /usr/include/apbs/vhal.h >>>> /usr/include/apbs/vpbe.h >>>> /usr/include/apbs/vpee.h >>>> /usr/include/apbs/vgrid.h >>>> /usr/include/apbs/vpmg.h >>>> /usr/include/apbs/pbeparm.h >>>> /usr/include/apbs/vgreen.h >>>> /usr/include/apbs/vopot.h >>>> /usr/include/apbs/vpmgp.h >>>> /usr/include/apbs/valist.h >>>> /usr/include/apbs/vunit.h >>>> /usr/include/apbs/vparam.h >>>> /usr/include/apbs/femparm.h >>>> /usr/lib64/libapbsmainroutines.so.0 -> libapbsmainroutines.so.0.1.2 > [32;01m*[0m Compilation and optimization of Python modules for CPython 2.6 ... >[A[149C [34;01m[ [32;01mok[34;01m ][0m >>>> Regenerating /etc/ld.so.cache...
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