[Çözüldü] Octopus adlı bilimsel kodun derlenip kurulması sırasında aldığım hata

[zeusmaster]

Kurulum;

Kod Seç Genişlet

cd /usr/hazırlık
mkdir octopus
cd octopus
wget www.istanbul.edu.tr/fen/fizik/ktl/kutuphaneler/octopus-4.0.1.tar.gz
mv dow* octopus-4.0.1.tar.gz
tar xvf octopus-4.0.1.tar.gz
cd octopus-4.0.1/
export LIBS_BLAS=/usr/octopus/lib/libblas.a
export LIBS_LAPACK=/usr/octopus/lib/liblapack.a
export LIBS_FFT=/usr/octopus/lib/libfftw3.a
###
./configure  --prefix=/usr/octopus --with-gsl-prefix=/usr/octopus --with-libxc-prefix=/usr/octopus
make
make install
sudo ln -s /usr/octopus/bin/octopus /usr/local/bin/octopus



Hata;

Kod Seç Genişlet

src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o profiling.o profiling_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. mpi_lib.F90 > mpi_lib_oct.f90
../../build/preprocess.pl mpi_lib_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o mpi_lib.o mpi_lib_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. unit_system.F90 > unit_system_oct.f90
../../build/preprocess.pl unit_system_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o unit_system.o unit_system_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. utils.F90 > utils_oct.f90
../../build/preprocess.pl utils_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o utils.o utils_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. topology.F90 > topology_oct.f90
../../build/preprocess.pl topology_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o topology.o topology_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. multicomm.F90 > multicomm_oct.f90
../../build/preprocess.pl multicomm_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o multicomm.o multicomm_oct.f90
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -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
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. command_line.F90 > command_line_oct.f90
../../build/preprocess.pl command_line_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o command_line.o command_line_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. distributed.F90 > distributed_oct.f90
../../build/preprocess.pl distributed_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o distributed.o distributed_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. ialist.F90 > ialist_oct.f90
../../build/preprocess.pl ialist_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o ialist.o ialist_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. iihash.F90 > iihash_oct.f90
../../build/preprocess.pl iihash_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o iihash.o iihash_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. calc_mode.F90 > calc_mode_oct.f90
../../build/preprocess.pl calc_mode_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o calc_mode.o calc_mode_oct.f90
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT recipes.o -MD -MP -MF .deps/recipes.Tpo -c -o recipes.o recipes.c
mv -f .deps/recipes.Tpo .deps/recipes.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT varia.o -MD -MP -MF .deps/varia.Tpo -c -o varia.o varia.c
mv -f .deps/varia.Tpo .deps/varia.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT oct_f.o -MD -MP -MF .deps/oct_f.Tpo -c -o oct_f.o oct_f.c
oct_f.c: In function 'get_memory_usage_':
oct_f.c:411:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
oct_f.c: In function 'oct_getcwd_':
oct_f.c:102:9: warning: ignoring return value of 'getcwd', declared with attribute warn_unused_result [-Wunused-result]
mv -f .deps/oct_f.Tpo .deps/oct_f.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -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 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT write_iter_low.o -MD -MP -MF .deps/write_iter_low.Tpo -c -o write_iter_low.o write_iter_low.c
write_iter_low.c: In function 'write_iter_flush_':
write_iter_low.c:127:7: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
mv -f .deps/write_iter_low.Tpo .deps/write_iter_low.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT varinfo_low.o -MD -MP -MF .deps/varinfo_low.Tpo -c -o varinfo_low.o varinfo_low.c
varinfo_low.c: In function 'get_text':
varinfo_low.c:92:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
mv -f .deps/varinfo_low.Tpo .deps/varinfo_low.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT signals.o -MD -MP -MF .deps/signals.Tpo -c -o signals.o signals.c
mv -f .deps/signals.Tpo .deps/signals.Po
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. io_binary_f.F90 > io_binary_f_oct.f90
../../build/preprocess.pl io_binary_f_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o io_binary_f.o io_binary_f_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. io_csv_f.F90 > io_csv_f_oct.f90
../../build/preprocess.pl io_csv_f_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o io_csv_f.o io_csv_f_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. lookup.F90 > lookup_oct.f90
../../build/preprocess.pl lookup_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o lookup.o lookup_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. opencl.F90 > opencl_oct.f90
../../build/preprocess.pl opencl_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o opencl.o opencl_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. space.F90 > space_oct.f90
../../build/preprocess.pl space_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o space.o space_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. blacs_proc_grid.F90 > blacs_proc_grid_oct.f90
../../build/preprocess.pl blacs_proc_grid_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o blacs_proc_grid.o blacs_proc_grid_oct.f90
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. comm.F90 > comm_oct.f90
../../build/preprocess.pl comm_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o comm.o comm_oct.f90
rm -f libbasic.a
ar cru libbasic.a io_csv.o loct.o string.o varinfo.o mpi.o global.o parser.o datasets.o messages.o io.o io_binary.o mpi_lib.o c_pointer.o unit.o unit_system.o mpi_debug.o profiling.o utils.o topology.o multicomm.o getopt_f.o command_line.o distributed.o hardware.o ialist.o iihash.o calc_mode.o recipes.o varia.o oct_f.o oct_gdlib_f.o write_iter.o write_iter_low.o varinfo_low.o signals.o io_binary_f.o io_csv_f.o lookup.o types.o opencl.o space.o blacs.o blacs_proc_grid.o comm.o   
ranlib libbasic.a
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/basic'
Making all in math
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/math'
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT checksum.o -MD -MP -MF .deps/checksum.Tpo -c -o checksum.o checksum.c
mv -f .deps/checksum.Tpo .deps/checksum.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT dablas.o -MD -MP -MF .deps/dablas.Tpo -c -o dablas.o dablas.c
mv -f .deps/dablas.Tpo .deps/dablas.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -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 -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT oct_gsl_min_f.o -MD -MP -MF .deps/oct_gsl_min_f.Tpo -c -o oct_gsl_min_f.o oct_gsl_min_f.c
mv -f .deps/oct_gsl_min_f.Tpo .deps/oct_gsl_min_f.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -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 blas.o checksum.o checksum_interface.o dablas.o fftw3.o pfft.o spline_filter.o gauss_legendre.o lalg_basic.o lalg_adv.o lapack.o loct_math.o math.o mix.o oct_gsl_f.o oct_gsl_min_f.o ode_solver.o permutations.o root_solver.o solvers.o splines.o sparskit.o symm_op.o tdfunction.o ylm.o young.o scalapack.o pblas.o sgfft.o
ranlib libmath.a
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/math'
Making all in species
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/species'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/species'
Making all in ions
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/ions'
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -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
rm -f libions.a
ar cru libions.a xyz_file.o geometry.o xyz_adjust.o kpoints.o simul_box.o solids.o vibrations.o ion_dynamics.o symmetries.o spglib_f.o
ranlib libions.a
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/ions'
Making all in grid
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/grid'
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT metis.o -MD -MP -MF .deps/metis.Tpo -c -o metis.o metis.c
mv -f .deps/metis.Tpo .deps/metis.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -MT zoltan_low.o -MD -MP -MF .deps/zoltan_low.Tpo -c -o zoltan_low.o zoltan_low.c
mv -f .deps/zoltan_low.Tpo .deps/zoltan_low.Po
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -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 curv_gygi.o curv_briggs.o curv_modine.o curvilinear.o index.o par_vec.o mesh.o nl_operator.o submesh.o stencil_star.o stencil_variational.o stencil_cube.o stencil.o stencil_starplus.o derivatives.o cube_function.o fourier_space.o mesh_function.o basins.o io_function.o multigrid.o ob_grid.o gridhier.o double_grid.o grid.o batch.o mesh_init.o mesh_partition.o metis.o ob_interface.o partition.o partitioner.o zoltan_low.o zoltan.o hypercube.o modelmb_1part.o transfer_table.o mesh_batch.o subarray.o symmetrizer.o boundaries.o operate.o mesh_cube_map.o fourier_shell.o
ranlib libgrid.a
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/grid'
Making all in poisson
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/poisson'
gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'     -g -O2 -I/usr/octopus/include -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_cutoff.o poisson_isf.o poisson_fft.o poisson_corrections.o poisson_cg.o poisson_multigrid.o poisson.o poisson_sete.o poisson_pfft.o scaling_function.o
ranlib libpoisson.a
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/poisson'
Making all in states
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/states'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/states'
Making all in xc
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/xc'
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. functionals.F90 > functionals_oct.f90
../../build/preprocess.pl functionals_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o functionals.o functionals_oct.f90
functionals.F90:108.64:

    call parse_integer(datasets_check('JFunctional'), XC_LCA_OMC, functl%id)
                                                                1
Error: Symbol 'xc_lca_omc' at (1) has no IMPLICIT type
functionals.F90:108.64:

    call parse_integer(datasets_check('JFunctional'), XC_LCA_OMC, functl%id)
                                                                1
Error: Symbol 'xc_lca_omc' at (1) has no IMPLICIT type
make[3]: *** [functionals.o] Error 1
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/xc'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1'
make: *** [all] Error 2
root@ZeuS:/usr/hazırlık/octopus/octopus-4.0.1# make install
Making install in build
make[1]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/build'
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/build'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/build'
make[1]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/build'
Making install in external_libs
make[1]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs'
Making install in metis-4.0
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/metis-4.0'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/metis-4.0'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/metis-4.0'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/metis-4.0'
Making install in qshep
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/qshep'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/qshep'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/qshep'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/qshep'
Making install in newuoa
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/newuoa'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/newuoa'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/newuoa'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/newuoa'
Making install in spglib
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib'
Making install in src
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib/src'
make[4]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib/src'
make[4]: Nothing to be done for `install-exec-am'.
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib/src'
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib/src'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib'
make[4]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib'
make[4]: Nothing to be done for `install-exec-am'.
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib'
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/spglib'
Making install in zoltan
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/zoltan'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/zoltan'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/zoltan'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/zoltan'
Making install in slatec
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/slatec'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/slatec'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/slatec'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs/slatec'
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs'
make[1]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/external_libs'
Making install in liboct_parser
make[1]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/liboct_parser'
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/liboct_parser'
test -z "/usr/octopus/lib" || /bin/mkdir -p "/usr/octopus/lib"
/usr/bin/install -c -m 644  liboct_parser.a '/usr/octopus/lib'
( cd '/usr/octopus/lib' && ranlib liboct_parser.a )
test -z "/usr/octopus/include" || /bin/mkdir -p "/usr/octopus/include"
/usr/bin/install -c -m 644 liboct_parser.h string_f.h '/usr/octopus/include'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/liboct_parser'
make[1]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/liboct_parser'
Making install in src
make[1]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src'
Making install in include
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/include'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/include'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/include'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/include'
Making install in basic
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/basic'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/basic'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/basic'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/basic'
Making install in math
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/math'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/math'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/math'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/math'
Making install in species
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/species'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/species'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/species'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/species'
Making install in ions
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/ions'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/ions'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/ions'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/ions'
Making install in grid
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/grid'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/grid'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/grid'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/grid'
Making install in poisson
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/poisson'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/poisson'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/poisson'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/poisson'
Making install in states
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/states'
make[3]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/states'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/states'
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/states'
Making install in xc
make[2]: Entering directory `/usr/hazırlık/octopus/octopus-4.0.1/src/xc'
/lib/cpp -C -ansi  -I../../src/include -I../../src/include -I../../external_libs/spglib/src -I../../liboct_parser  -DSHARE_OCTOPUS='"/usr/octopus/share/octopus"'   -I. functionals.F90 > functionals_oct.f90
../../build/preprocess.pl functionals_oct.f90 \
  "" "yes" "yes" "yes"
gfortran -pipe -O3 -funroll-loops -ffast-math -ffree-line-length-none   -I /usr/octopus/include -I ../../src/basic -I ../../src/math -I ../../src/species -I ../../src/ions -I ../../src/grid -I ../../src/poisson -I ../../src/states -I ../../src/xc -I ../../src/system -I ../../src/hamiltonian -I ../../src/scf -I ../../src/td -I ../../src/opt_control -I ../../src/sternheimer -I ../../external_libs/qshep  -c  -o functionals.o functionals_oct.f90
functionals.F90:108.64:

    call parse_integer(datasets_check('JFunctional'), XC_LCA_OMC, functl%id)
                                                                1
Error: Symbol 'xc_lca_omc' at (1) has no IMPLICIT type
functionals.F90:108.64:

    call parse_integer(datasets_check('JFunctional'), XC_LCA_OMC, functl%id)
                                                                1
Error: Symbol 'xc_lca_omc' at (1) has no IMPLICIT type
make[2]: *** [functionals.o] Error 1
make[2]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src/xc'
make[1]: *** [install-recursive] Error 1
make[1]: Leaving directory `/usr/hazırlık/octopus/octopus-4.0.1/src'
make: *** [install-recursive] Error 1


[cagriemer]

@bahdem bu sorun sanirim daha once cozulmustu. http://forum.ubuntu-tr.net/index.php?topic=28039.msg353110#msg353110 adresindeki adimlari teker teker uyguladiniz mi acaba? Bir de nette hizlica goz atabildigim kadariyla hatayi libxc surumune baglamislar. Hangi surumunu cektiniz libxc'nin? Son surum olan 1.2.0 ile Octopus 4.0.1 calismiyormus, o yuzden 1.1.0 surumunun kullanilmasi onerilmis.

[zeusmaster]

Son surum olan 1.2.0 ile Octopus 4.0.1 calismiyormus, o yuzden 1.1.0 surumunun kullanilmasi onerilmis.

@cagriemer dediğiniz gibi libxc nin 1.2.0 sürümünden miş sorun. Sürümü 1.1.0 ile değiştirince sorunum çözüldü. Teşekkür ederim