mburhanpurkar octopus-7.2 $ bash configuration_script_octopus_7.1.sh
: command not foundt_octopus_7.1.sh: line 2:
: command not foundt_octopus_7.1.sh: line 13:
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... build-aux/install-sh -c -d
checking for gawk... no
checking for mawk... no
checking for nawk... no
checking for awk... awk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking build system type... x86_64-apple-darwin17.3.0
checking host system type... x86_64-apple-darwin17.3.0
checking whether ln -s works... yes
checking whether make sets $(MAKE)... (cached) yes
checking for ranlib... ranlib
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 gcc-mp-5 accepts -g... yes
checking for gcc-mp-5 option to accept ISO C89... none needed
checking whether gcc-mp-5 understands -c and -o together... yes
checking for style of include used by make... GNU
checking dependency style of gcc-mp-5... gcc3
checking for gcc-mp-5 option to accept ISO C99... none needed
checking whether we are using the GNU C++ compiler... no
 accepts -g... nog++-mp-5
... none dependency style of g++-mp-5
... configure: WARNING: compilation failed from g++-mp-5

checking for C++ libraries...
checking for inline... inline
checking for C/C++ restrict keyword... __restrict
checking for __builtin_prefetch... yes
checking for dirent.h that defines DIR... yes
checking for library containing opendir... none required
checking how to run the C preprocessor... cpp-mp-5
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking signal.h usability... yes
checking signal.h presence... yes
checking for signal.h... yes
checking errno.h usability... yes
checking errno.h presence... yes
checking for errno.h... yes
checking for size_t... yes
checking for working alloca.h... yes
checking for alloca... yes
checking for an ANSI C-conforming const... yes
checking for pid_t... yes
checking for size_t... (cached) yes
checking whether time.h and sys/time.h may both be included... yes
checking size of void*... 8
checking size of size_t... 8
checking for uint32_t... yes
checking for uint64_t... yes
checking size of unsigned int... 4
checking size of unsigned long... 8
checking size of unsigned long long... 8
checking for thread local storage specifier... __thread
checking whether gcc-mp-5 needs -traditional... no
checking whether lstat correctly handles trailing slash... no
checking whether stat accepts an empty string... no
checking for gettimeofday... yes
checking for nanosleep... yes
checking for sysconf... yes
checking for getpid... yes
checking for strndup... yes
checking for tcgetpgrp... yes
checking for scandir... yes
checking for alphasort... yes
checking for sigaction... yes
checking for readdir... yes
checking for closedir... yes
checking for strchr... yes
checking for strtod... yes
checking for perror... yes
checking for strcasestr... yes
checking for sbrk... yes
checking for getopt_long... yes
checking for uname... yes
checking for ioctl... yes
checking for strsignal... yes
checking whether the compiler accepts the __m128d type... yes
checking whether SSE2 instructions can be used... yes
checking whether FMA4 instructions can be used... no
checking whether the compiler accepts the __m256d type... yes
checking whether AVX instructions can be used... no
configure: Architecture-specific code:
***************************
This is a x86_64 processor:
vectorial code: yes (sse2)
***************************
checking for perl... /usr/bin/perl
checking whether we are using the GNU Fortran compiler... yes
checking whether gfortran-mp-5 accepts -g... yes
checking for Fortran flag to compile .f90 files... none
configure: Using FCFLAGS="-pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none"
 is usable for Fortran preprocessing... preprocessor cannot be run
checking whether /lib/cpp is usable for Fortran preprocessing... preprocessor cannot be run
checking whether cpp-mp-5 is usable for Fortran preprocessing... preprocessor mangles C++ style comment
checking whether cpp-mp-5 -ansi is usable for Fortran preprocessing... preprocessor mangles C++ style comment
preprocessor mangles C++ style comment
checking whether cpp-mp-5 -C -ffreestanding is usable for Fortran preprocessing... yes
checking how to get verbose linking output from gfortran-mp-5... -v
checking for Fortran libraries of gfortran-mp-5...  -L/opt/local/lib/gcc5/gcc/x86_64-apple-darwin17/5.5.0 -L/opt/local/lib/gcc5/gcc/x86_64-apple-darwin17/5.5.0/../../.. -lgfortran -lquadmath -lm
checking for dummy main to link with Fortran libraries... none
checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore
checking for the size of a Fortran integer... 4 bytes
checking for which C type corresponds to Fortran integer... int
checking for flush... yes
checking for Fortran sizeof intrinsic... yes
checking for loc... yes
checking whether the compiler accepts very long lines... yes
checking for Fortran compiler_version intrinsic... yes
checking whether the compiler accepts "line-number" lines cast by the preprocessor... yes
checking how to access command line arguments... Fortran 2003
checking for Fortran 2003 iso_c_binding... yes
checking fortran 90 modules inclusion flag... -I
checking for libxc... yes (-I /usr/local/lib/include /usr/local/lib/lib/libxcf90.a /usr/local/lib/lib/libxc.a)
checking whether libxc version is > 2.2... no
checking whether libxc has support for hybrid meta-GGAs (>= v 2.1)... yes
checking for sgemm in /usr/local/lib/blas_LINUX.a... yes (/usr/local/lib/blas_LINUX.a)
checking whether zdotc works... yes
checking for cheev in ... no
checking for cheev in -lmkl_lapack... no
checking for cheev in -llapack... yes
checking for gsl-config... /opt/local/bin/gsl-config
checking for GSL - version >= 1.9... 2.4.0
checking whether GSL can be linked... yes
checking for gdlib-config... no
checking for fftw... yes (-I/usr/local/lib/include -L/usr/local/lib/lib -lfftw3)
checking for fftw multithread support... no
configure: WARNING: Could not find PFFT library.
               *** Will compile without PFFT support
configure: WARNING: Could not find PNFFT library.
               *** Will compile without PNFFT support
checking for netcdf... no (-I /usr/include )
configure: WARNING: Could not find NetCDF library.
              *** Will compile without NetCDF and ETSF I/O support
checking for etsf_io... disabled (-I  /usr/include )
configure: WARNING: Could not find etsf_io library.
           *** Will compile without ETSF I/O support
checking for BerkeleyGW... no (-I /include -L/lib -lBGW_wfn)
configure: WARNING: Could not find BerkeleyGW library.
           *** Will compile without BerkeleyGW support
checking for SPARSKIT library... no
checking for SPARSKIT library with -lskit... no
configure: WARNING: Could not find SPARSKIT library.
                *** Will compile without SPARSKIT support
checking for NLOPT... no (-I /include -L/lib64 -lnlopt)
configure: WARNING: Could not find NLOPT library.
           *** Will compile without NLOPT support
checking for elpa... no (-I/usr/include -lelpa)
configure: WARNING: Could not find the elpa library
checking for arpack library... no
checking for arpack library with -larpack... no
configure: WARNING: Could not find ARPACK library.
               *** Will compile without ARPACK support
configure: WARNING: PARPACK requires ARPACK.
configure: WARNING: Could not find PARPACK library.
              *** Will compile without PARPACK support
checking for FEAST... no ()
configure: WARNING: Could not find FEAST library.
              *** Will compile without FEAST support
configure: WARNING: Could not find Libfm library.
               *** Will compile without Libfm support
configure: WARNING: Could not find ISF library.
               *** Will compile internal ISF taken from BigDFT 1.7.6
checking for pspio... no (-L/usr/lib -lfpspio -lpspio)
checking for poke... no (-I/usr/include -lpoke)
configure: WARNING: Could not find the poke library
checking for external METIS library... not used without MPI
checking for ParMETIS library... requires MPI
configure: WARNING: Octopus will be compiled without PARMETIS support
checking for yaml_parser_parse in -lyaml... no
configure: WARNING: libyaml is not available, building internal one.
configure: collecting compilation info...
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating external_libs/Makefile
config.status: creating external_libs/metis-5.1/Makefile
config.status: creating external_libs/metis-5.1/include/Makefile
config.status: creating external_libs/metis-5.1/GKlib/Makefile
config.status: creating external_libs/metis-5.1/libmetis/Makefile
config.status: creating external_libs/qshep/Makefile
config.status: creating external_libs/spglib-1.5.2/Makefile
config.status: creating external_libs/spglib-1.5.2/src/Makefile
config.status: creating external_libs/fortrancl/Makefile
config.status: creating external_libs/bpdn/Makefile
config.status: creating external_libs/yaml-0.1.4/Makefile
config.status: creating external_libs/yaml-0.1.4/include/Makefile
config.status: creating external_libs/yaml-0.1.4/src/Makefile
config.status: creating liboct_parser/Makefile
config.status: creating src/Makefile
config.status: creating src/include/Makefile
config.status: creating src/basic/Makefile
config.status: creating src/math/Makefile
config.status: creating src/species/Makefile
config.status: creating src/ions/Makefile
config.status: creating src/grid/Makefile
config.status: creating src/poisson/Makefile
config.status: creating src/frozen/Makefile
config.status: creating src/states/Makefile
config.status: creating src/hamiltonian/Makefile
config.status: creating src/system/Makefile
config.status: creating src/scf/Makefile
config.status: creating src/td/Makefile
config.status: creating src/opt_control/Makefile
config.status: creating src/sternheimer/Makefile
config.status: creating src/main/Makefile
config.status: creating src/utils/Makefile
config.status: creating scripts/Makefile
config.status: creating doc/Makefile
config.status: creating doc/html/Makefile
config.status: creating doc/html/icons/Makefile
config.status: creating doc/html/js/Makefile
config.status: creating doc/html/vars/Makefile
config.status: creating share/Makefile
config.status: creating share/pseudopotentials/Makefile
config.status: creating share/pseudopotentials/PSF/Makefile
config.status: creating share/pseudopotentials/HGH/Makefile
config.status: creating share/pseudopotentials/extra/Makefile
config.status: creating share/pseudopotentials/sg15/Makefile
config.status: creating share/pseudopotentials/hscv/Makefile
config.status: creating share/pseudopotentials/hscv/lda/Makefile
config.status: creating share/pseudopotentials/hscv/pbe/Makefile
config.status: creating share/recipes/Makefile
config.status: creating share/recipes/da/Makefile
config.status: creating share/recipes/de/Makefile
config.status: creating share/recipes/en/Makefile
config.status: creating share/recipes/es/Makefile
config.status: creating share/recipes/it/Makefile
config.status: creating share/recipes/eu/Makefile
config.status: creating share/util/Makefile
config.status: creating share/opencl/Makefile
config.status: creating share/quadrature/Makefile
config.status: creating build/Makefile
config.status: creating build/octopus.spec
config.status: creating testsuite/Makefile
config.status: creating testsuite/components/Makefile
config.status: creating testsuite/finite_systems_1d/Makefile
config.status: creating testsuite/finite_systems_2d/Makefile
config.status: creating testsuite/finite_systems_3d/Makefile
config.status: creating testsuite/functionals/Makefile
config.status: creating testsuite/real_time/Makefile
config.status: creating testsuite/linear_response/Makefile
config.status: creating testsuite/optimal_control/Makefile
config.status: creating testsuite/periodic_systems/Makefile
config.status: creating testsuite/photo_electron/Makefile
config.status: creating testsuite/pseudopotentials/Makefile
config.status: creating testsuite/complex_scaling/Makefile
config.status: creating testsuite/frozen/Makefile
config.status: creating testsuite/oct-run_testsuite.sh
config.status: creating doc/html/varsRightFrame.html
config.status: creating config.h
config.status: executing depfiles commands
: command not foundt_octopus_7.1.sh: line 15:
/Applications/Xcode.app/Contents/Developer/usr/bin/make  all-recursive
Making all in build
make[2]: Nothing to be done for `all'.
Making all in external_libs
Making all in metis-5.1
Making all in include
make[4]: Nothing to be done for `all'.
Making all in GKlib
make[4]: Nothing to be done for `all'.
Making all in libmetis
make[4]: Nothing to be done for `all'.
make[4]: Nothing to be done for `all-am'.
Making all in qshep
make[3]: Nothing to be done for `all'.
Making all in spglib-1.5.2
Making all in src
make[4]: Nothing to be done for `all'.
make[4]: Nothing to be done for `all-am'.
Making all in fortrancl
make[3]: Nothing to be done for `all'.
Making all in bpdn
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..     -g -O2 -MT spgl1_projector.o -MD -MP -MF .deps/spgl1_projector.Tpo -c -o spgl1_projector.o spgl1_projector.c
mv -f .deps/spgl1_projector.Tpo .deps/spgl1_projector.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..     -g -O2 -MT expmm.o -MD -MP -MF .deps/expmm.Tpo -c -o expmm.o expmm.c
mv -f .deps/expmm.Tpo .deps/expmm.Po
rm -f libbpdn.a
ar cru libbpdn.a heap.o oneProjectorCore.o spgl1_projector.o bpdn.o expmm.o
ranlib libbpdn.a
Making all in yaml-0.1.4
Making all in include
make[4]: Nothing to be done for `all'.
Making all in src
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../../..  -I../../../external_libs/yaml-0.1.4/include   -g -O2 -MT api.o -MD -MP -MF .deps/api.Tpo -c -o api.o api.c
mv -f .deps/api.Tpo .deps/api.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../../..  -I../../../external_libs/yaml-0.1.4/include   -g -O2 -MT reader.o -MD -MP -MF .deps/reader.Tpo -c -o reader.o reader.c
mv -f .deps/reader.Tpo .deps/reader.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../../..  -I../../../external_libs/yaml-0.1.4/include   -g -O2 -MT scanner.o -MD -MP -MF .deps/scanner.Tpo -c -o scanner.o scanner.c
mv -f .deps/scanner.Tpo .deps/scanner.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../../..  -I../../../external_libs/yaml-0.1.4/include   -g -O2 -MT parser.o -MD -MP -MF .deps/parser.Tpo -c -o parser.o parser.c
mv -f .deps/parser.Tpo .deps/parser.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../../..  -I../../../external_libs/yaml-0.1.4/include   -g -O2 -MT loader.o -MD -MP -MF .deps/loader.Tpo -c -o loader.o loader.c
mv -f .deps/loader.Tpo .deps/loader.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../../..  -I../../../external_libs/yaml-0.1.4/include   -g -O2 -MT writer.o -MD -MP -MF .deps/writer.Tpo -c -o writer.o writer.c
mv -f .deps/writer.Tpo .deps/writer.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../../..  -I../../../external_libs/yaml-0.1.4/include   -g -O2 -MT emitter.o -MD -MP -MF .deps/emitter.Tpo -c -o emitter.o emitter.c
mv -f .deps/emitter.Tpo .deps/emitter.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../../..  -I../../../external_libs/yaml-0.1.4/include   -g -O2 -MT dumper.o -MD -MP -MF .deps/dumper.Tpo -c -o dumper.o dumper.c
mv -f .deps/dumper.Tpo .deps/dumper.Po
rm -f libyaml.a
ar cru libyaml.a api.o reader.o scanner.o parser.o loader.o writer.o emitter.o dumper.o
ranlib libyaml.a
Making all in .
make[4]: Nothing to be done for `all-am'.
make[3]: Nothing to be done for `all-am'.
Making all in liboct_parser
gcc-mp-5 -DHAVE_CONFIG_H -I. -I..  -I/opt/local/include   -g -O2 -MT parser_f.o -MD -MP -MF .deps/parser_f.Tpo -c -o parser_f.o parser_f.c
mv -f .deps/parser_f.Tpo .deps/parser_f.Po
rm -f liboct_parser.a
ar cru liboct_parser.a symbols.o parse.o parse_exp.o parser_f.o gsl_userdef.o
ranlib liboct_parser.a
Making all in src
Making all in include
grep '^#define' ../../config.h > config_F90.h
../../build/mk_varinfo.pl -s ../.. -b ../..
Making all in basic
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT getopt_f.o -MD -MP -MF .deps/getopt_f.Tpo -c -o getopt_f.o getopt_f.c
mv -f .deps/getopt_f.Tpo .deps/getopt_f.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT io_binary.o -MD -MP -MF .deps/io_binary.Tpo -c -o io_binary.o io_binary.c
mv -f .deps/io_binary.Tpo .deps/io_binary.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT io_csv.o -MD -MP -MF .deps/io_csv.Tpo -c -o io_csv.o io_csv.c
mv -f .deps/io_csv.Tpo .deps/io_csv.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT oct_f.o -MD -MP -MF .deps/oct_f.Tpo -c -o oct_f.o oct_f.c
mv -f .deps/oct_f.Tpo .deps/oct_f.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT oct_gdlib_f.o -MD -MP -MF .deps/oct_gdlib_f.Tpo -c -o oct_gdlib_f.o oct_gdlib_f.c
mv -f .deps/oct_gdlib_f.Tpo .deps/oct_gdlib_f.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT recipes.o -MD -MP -MF .deps/recipes.Tpo -c -o recipes.o recipes.c
mv -f .deps/recipes.Tpo .deps/recipes.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT signals.o -MD -MP -MF .deps/signals.Tpo -c -o signals.o signals.c
mv -f .deps/signals.Tpo .deps/signals.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT varia.o -MD -MP -MF .deps/varia.Tpo -c -o varia.o varia.c
mv -f .deps/varia.Tpo .deps/varia.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT varinfo_low.o -MD -MP -MF .deps/varinfo_low.Tpo -c -o varinfo_low.o varinfo_low.c
mv -f .deps/varinfo_low.Tpo .deps/varinfo_low.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT xml_low.o -MD -MP -MF .deps/xml_low.Tpo -c -o xml_low.o xml_low.c
mv -f .deps/xml_low.Tpo .deps/xml_low.Po
rm -f libbasic.a
ar cru libbasic.a cublas.o cuda.o getopt_f.o io_binary.o io_csv.o oct_f.o oct_gdlib_f.o recipes.o signals.o sort_low.o varia.o varinfo_low.o write_iter_low.o xml_low.o accel.o blacs.o blacs_proc_grid.o calc_mode_par.o command_line.o comm.o debug.o distributed.o global.o hardware.o ialist.o iihash.o io_binary_f.o io_csv_f.o io.o json.o json_parser.o kinds.o loct.o loct_pointer.o lookup.o messages.o mpi_debug.o mpi.o mpi_lib.o multicomm.o openscad.o parser.o path.o polyhedron.o profiling.o sort.o space.o string.o test_parameters.o topology.o types.o unit.o unit_system.o utils.o varinfo.o write_iter.o xml.o
/opt/local/bin/ranlib: file: libbasic.a(blacs.o) has no symbols
/opt/local/bin/ranlib: file: libbasic.a(test_parameters.o) has no symbols
/opt/local/bin/ranlib: file: libbasic.a(write_iter.o) has no symbols
ranlib libbasic.a
ranlib: file: libbasic.a(blacs.o) has no symbols
ranlib: file: libbasic.a(test_parameters.o) has no symbols
ranlib: file: libbasic.a(write_iter.o) has no symbols
Making all in math
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT checksum.o -MD -MP -MF .deps/checksum.Tpo -c -o checksum.o checksum.c
mv -f .deps/checksum.Tpo .deps/checksum.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT dablas.o -MD -MP -MF .deps/dablas.Tpo -c -o dablas.o dablas.c
mv -f .deps/dablas.Tpo .deps/dablas.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT fftw_low.o -MD -MP -MF .deps/fftw_low.Tpo -c -o fftw_low.o fftw_low.c
mv -f .deps/fftw_low.Tpo .deps/fftw_low.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT metis_f.o -MD -MP -MF .deps/metis_f.Tpo -c -o metis_f.o metis_f.c
mv -f .deps/metis_f.Tpo .deps/metis_f.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT minimizer_low.o -MD -MP -MF .deps/minimizer_low.Tpo -c -o minimizer_low.o minimizer_low.c
mv -f .deps/minimizer_low.Tpo .deps/minimizer_low.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT nfft_f.o -MD -MP -MF .deps/nfft_f.Tpo -c -o nfft_f.o nfft_f.c
mv -f .deps/nfft_f.Tpo .deps/nfft_f.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT oct_gsl_f.o -MD -MP -MF .deps/oct_gsl_f.Tpo -c -o oct_gsl_f.o oct_gsl_f.c
mv -f .deps/oct_gsl_f.Tpo .deps/oct_gsl_f.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT ylm.o -MD -MP -MF .deps/ylm.Tpo -c -o ylm.o ylm.c
mv -f .deps/ylm.Tpo .deps/ylm.Po
rm -f libmath.a
ar cru libmath.a checksum.o cufft.o dablas.o fftw_low.o metis_f.o minimizer_low.o nfft_f.o oct_gsl_f.o spline_low.o ylm.o accel_blas.o blas.o checksum_interface.o compressed_sensing.o fft.o fftw.o gauss_legendre.o lalg_adv.o lalg_basic.o lapack.o loct_math.o math.o matrix.o matrix_ops.o metis.o minimizer.o nfft.o ode_solver.o pblas.o permutations.o pfft.o pnfft.o qshep.o quickrnd.o root_solver.o scalapack.o sgfft.o solvers.o sparskit.o spline_filter.o splines.o symm_op.o tdfunction.o young.o
/opt/local/bin/ranlib: file: libmath.a(metis_f.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(nfft_f.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(blas.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(checksum_interface.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(lapack.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(metis.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(pblas.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(pfft.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(pnfft.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(scalapack.o) has no symbols
/opt/local/bin/ranlib: file: libmath.a(sparskit.o) has no symbols
ranlib libmath.a
ranlib: file: libmath.a(metis_f.o) has no symbols
ranlib: file: libmath.a(nfft_f.o) has no symbols
ranlib: file: libmath.a(blas.o) has no symbols
ranlib: file: libmath.a(checksum_interface.o) has no symbols
ranlib: file: libmath.a(lapack.o) has no symbols
ranlib: file: libmath.a(metis.o) has no symbols
ranlib: file: libmath.a(pblas.o) has no symbols
ranlib: file: libmath.a(pfft.o) has no symbols
ranlib: file: libmath.a(pnfft.o) has no symbols
ranlib: file: libmath.a(scalapack.o) has no symbols
ranlib: file: libmath.a(sparskit.o) has no symbols
Making all in species
make[3]: Nothing to be done for `all'.
Making all in ions
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT spglib_f.o -MD -MP -MF .deps/spglib_f.Tpo -c -o spglib_f.o spglib_f.c
mv -f .deps/spglib_f.Tpo .deps/spglib_f.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT symmetries_finite.o -MD -MP -MF .deps/symmetries_finite.Tpo -c -o symmetries_finite.o symmetries_finite.c
mv -f .deps/symmetries_finite.Tpo .deps/symmetries_finite.Po
rm -f libions.a
ar cru libions.a spglib_f.o symmetries_finite.o atom.o box.o box_union.o geometry.o ion_dynamics.o kpoints.o periodic_copy.o read_coords.o simul_box.o symmetries.o vibrations.o xyz_adjust.o
ranlib libions.a
Making all in grid
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT hilbert.o -MD -MP -MF .deps/hilbert.Tpo -c -o hilbert.o hilbert.c
mv -f .deps/hilbert.Tpo .deps/hilbert.Po
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT operate.o -MD -MP -MF .deps/operate.Tpo -c -o operate.o operate.c
mv -f .deps/operate.Tpo .deps/operate.Po
rm -f libgrid.a
ar cru libgrid.a hilbert.o operate.o basins.o batch.o batch_ops.o boundaries.o cube.o cube_function.o curv_briggs.o curv_gygi.o curvilinear.o curv_modine.o derivatives.o double_grid.o fourier_shell.o fourier_space.o grid.o hypercube.o index.o io_function.o mesh_batch.o mesh_cube_map.o mesh_cube_parallel_map.o mesh.o mesh_function.o mesh_init.o mesh_interpolation.o mesh_partition.o modelmb_1part.o multigrid.o nl_operator.o operate_f.o partition.o partition_transfer.o par_vec.o restart.o sphericalmesh.o stencil_cube.o stencil.o stencil_star.o stencil_stargeneral.o stencil_starplus.o stencil_variational.o subarray.o submesh.o symmetrizer.o transfer_table.o volume.o vtk.o
/opt/local/bin/ranlib: file: libgrid.a(operate_f.o) has no symbols
ranlib libgrid.a
ranlib: file: libgrid.a(operate_f.o) has no symbols
Making all in poisson
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT poisson_cutoffs.o -MD -MP -MF .deps/poisson_cutoffs.Tpo -c -o poisson_cutoffs.o poisson_cutoffs.c
mv -f .deps/poisson_cutoffs.Tpo .deps/poisson_cutoffs.Po
rm -f libpoisson.a
ar cru libpoisson.a poisson_cutoffs.o poisson_cg.o poisson_corrections.o poisson_cutoff.o poisson.o poisson_fft.o poisson_fmm.o poisson_isf.o poisson_libisf.o poisson_multigrid.o poisson_no.o scaling_function.o
ranlib libpoisson.a
Making all in frozen
make[3]: Nothing to be done for `all'.
Making all in states
make[3]: Nothing to be done for `all'.
Making all in hamiltonian
gcc-mp-5 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib-1.5.2/src -I../../liboct_parser -I/opt/local/include  -I/usr/local/lib/include -DSHARE_OCTOPUS='"/opt/etsf/octopus/share/octopus"'    -g -O2 -MT vdw_ts_low.o -MD -MP -MF .deps/vdw_ts_low.Tpo -c -o vdw_ts_low.o vdw_ts_low.c
mv -f .deps/vdw_ts_low.Tpo .deps/vdw_ts_low.Po
rm -f libhamiltonian.a
ar cru libhamiltonian.a vdw_ts_low.o berry.o born_charges.o boundary_op.o energy.o epot.o functionals.o gauge_field.o hamiltonian_base.o hamiltonian.o hgh_projector.o hirshfeld.o ion_interaction.o kb_projector.o kick.o lasers.o libvdwxc.o oct_exchange.o pcm.o projector.o projector_matrix.o rkb_projector.o scdm.o scf_tol.o scissor.o species_pot.o vdw_ts.o xc.o
ranlib libhamiltonian.a
Making all in system
make[3]: Nothing to be done for `all'.
Making all in scf
make[3]: Nothing to be done for `all'.
Making all in td
make[3]: Nothing to be done for `all'.
Making all in opt_control
make[3]: Nothing to be done for `all'.
Making all in sternheimer
make[3]: Nothing to be done for `all'.
Making all in main
gfortran-mp-5  -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -o octopus invert_ks.o memory.o unocc.o static_pol.o geom_opt.o phonons_fd.o casida.o pulpo.o run.o main.o ../../src/sternheimer/libsternheimer.a ../../src/opt_control/libopt_control.a ../../src/td/libtd.a ../../src/scf/libscf.a ../../src/system/libsystem.a ../../src/hamiltonian/libhamiltonian.a ../../src/states/libstates.a ../../src/frozen/libfrozen.a ../../src/poisson/libpoisson.a ../../src/grid/libgrid.a ../../src/ions/libions.a ../../src/species/libspecies.a ../../src/math/libmath.a ../../src/basic/libbasic.a ../../external_libs/qshep/libqshep.a ../../external_libs/spglib-1.5.2/src/libspglib.a ../../external_libs/bpdn/libbpdn.a ../../external_libs/yaml-0.1.4/src/libyaml.a     -L/usr/local/lib/lib -lfftw3   -llapack /usr/local/lib/blas_LINUX.a ../../liboct_parser/liboct_parser.a -L/opt/local/lib -lgsl -lgslcblas /usr/local/lib/lib/libxcf90.a /usr/local/lib/lib/libxc.a
Undefined symbols for architecture x86_64:
  "std::basic_ostream<char, std::char_traits<char> >::operator<<(std::basic_ostream<char, std::char_traits<char> >& (*)(std::basic_ostream<char, std::char_traits<char> >&))", referenced from:
      splint(double const*, double const*, double const*, int, double, double*) in libmath.a(spline_low.o)
      _write_iter_clear_ in libbasic.a(write_iter_low.o)
      _write_iter_flush_ in libbasic.a(write_iter_low.o)
  "std::basic_ostream<char, std::char_traits<char> >::operator<<(int)", referenced from:
      splint(double const*, double const*, double const*, int, double, double*) in libmath.a(spline_low.o)
  "std::ios_base::Init::Init()", referenced from:
      __static_initialization_and_destruction_0(int, int) in libmath.a(spline_low.o)
      __static_initialization_and_destruction_0(int, int) in libbasic.a(write_iter_low.o)
  "std::ios_base::Init::~Init()", referenced from:
      __static_initialization_and_destruction_0(int, int) in libmath.a(spline_low.o)
      __static_initialization_and_destruction_0(int, int) in libbasic.a(write_iter_low.o)
  "std::__throw_bad_alloc()", referenced from:
      __gnu_cxx::new_allocator<double>::allocate(unsigned long, void const*) in libmath.a(spline_low.o)
  "std::__throw_length_error(char const*)", referenced from:
      std::vector<double, std::allocator<double> >::_M_check_len(unsigned long, char const*) const in libmath.a(spline_low.o)
  "std::cerr", referenced from:
      _write_iter_clear_ in libbasic.a(write_iter_low.o)
      _write_iter_flush_ in libbasic.a(write_iter_low.o)
  "std::cout", referenced from:
      splint(double const*, double const*, double const*, int, double, double*) in libmath.a(spline_low.o)
  "std::basic_ostream<char, std::char_traits<char> >& std::endl<char, std::char_traits<char> >(std::basic_ostream<char, std::char_traits<char> >&)", referenced from:
      splint(double const*, double const*, double const*, int, double, double*) in libmath.a(spline_low.o)
      _write_iter_clear_ in libbasic.a(write_iter_low.o)
      _write_iter_flush_ in libbasic.a(write_iter_low.o)
  "std::basic_ostream<char, std::char_traits<char> >& std::operator<< <std::char_traits<char> >(std::basic_ostream<char, std::char_traits<char> >&, char const*)", referenced from:
      splint(double const*, double const*, double const*, int, double, double*) in libmath.a(spline_low.o)
      _write_iter_clear_ in libbasic.a(write_iter_low.o)
      _write_iter_flush_ in libbasic.a(write_iter_low.o)
  "operator delete[](void*)", referenced from:
      void sort2<int>(int, int*, int*) in libbasic.a(sort_low.o)
      void sort2<double>(int, double*, int*) in libbasic.a(sort_low.o)
      spline(double const*, double const*, int, double, double, double*) in libmath.a(spline_low.o)
  "operator delete(void*)", referenced from:
      _oct_spline_end_ in libmath.a(spline_low.o)
      _oct_spline_fit_ in libmath.a(spline_low.o)
      __gnu_cxx::new_allocator<double>::deallocate(double*, unsigned long) in libmath.a(spline_low.o)
  "operator new[](unsigned long)", referenced from:
      void sort2<int>(int, int*, int*) in libbasic.a(sort_low.o)
      void sort2<double>(int, double*, int*) in libbasic.a(sort_low.o)
      spline(double const*, double const*, int, double, double, double*) in libmath.a(spline_low.o)
  "operator new(unsigned long)", referenced from:
      _oct_spline_fit_ in libmath.a(spline_low.o)
      __gnu_cxx::new_allocator<double>::allocate(unsigned long, void const*) in libmath.a(spline_low.o)
  "___cxa_begin_catch", referenced from:
      std::vector<double, std::allocator<double> >::_M_fill_insert(__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, unsigned long, double const&) in libmath.a(spline_low.o)
  "___cxa_end_catch", referenced from:
      std::vector<double, std::allocator<double> >::_M_fill_insert(__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, unsigned long, double const&) in libmath.a(spline_low.o)
  "___cxa_rethrow", referenced from:
      std::vector<double, std::allocator<double> >::_M_fill_insert(__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, unsigned long, double const&) in libmath.a(spline_low.o)
  "___gxx_personality_v0", referenced from:
      Dwarf Exception Unwind Info (__eh_frame) in libmath.a(spline_low.o)
ld: symbol(s) not found for architecture x86_64
collect2: error: ld returned 1 exit status
make[3]: *** [octopus] Error 1
make[2]: *** [all-recursive] Error 1
make[1]: *** [all-recursive] Error 1
make: *** [all] Error 2