[CP2K-user] [CP2K:17981] error compiling /usr/bin/ld: cannot find -lfabric
Howard Yanxon
yanxonh at lbl.gov
Thu Nov 3 19:53:12 UTC 2022
Dear developers,
I am trying to compile cp2k using the ARCH=Linux-x86-64-intel-minimal.psmp
(vanilla/no change) and intel compiler (intel v.19.1.2.254).
This is my cpu model: Intel(R) Xeon(R) CPU E5-2698 v3 @ 2.30GHz
During the compilation, I obtained the following error:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/tools/build_utils/fypp -n
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/fm/cp_fm_types.F
cp_fm_types.F90
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/tools/build_utils/fypp -n
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/minimax/minimax_exp.F
minimax_exp.F90
mpiifort -c -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:33:43 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-D__SHORT_FILE__="\"fm/cp_fm_types.F\""
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/fm/'
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr'
cp_fm_types.F90
mpiifort -c -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:33:43 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-D__SHORT_FILE__="\"minimax/minimax_exp.F\""
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/minimax/'
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr'
minimax_exp.F90
/usr/bin/ld: cannot find -lfabric
/usr/bin/sha1sum:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/memory_utilities_unittest.psmp:
No such file or directory
make[3]: ***
[/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/all.dep:130:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/memory_utilities_unittest.psmp]
Error 1
make[3]: *** Waiting for unfinished jobs....
/usr/bin/ld: cannot find -lfabric
/usr/bin/sha1sum:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/graph.psmp:
No such file or directory
make[3]: ***
[/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/all.dep:134:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/graph.psmp]
Error 1
/usr/bin/ld: cannot find -lfabric
/usr/bin/sha1sum:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/parallel_rng_types_unittest.psmp:
No such file or directory
make[3]: ***
[/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/all.dep:126:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/parallel_rng_types_unittest.psmp]
Error 1
make[2]: *** [/lus/swift/home/yanxonh/software_theta/cp2k-9.1/Makefile:158:
all] Error 2
make[1]: *** [/lus/swift/home/yanxonh/software_theta/cp2k-9.1/Makefile:140:
psmp] Error 2
make: *** [Makefile:135: all] Error 2
After re-running the makefile, I get the following error:
echo git:d8d7100 >
"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/git-ref.tmp"
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/tools/build_utils/fypp -n
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/eri_mme/eri_mme_gaussian.F
eri_mme_gaussian.F90
Updating archive
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/lib/Linux-x86-64-intel-minimal_copy/psmp/libcp2kminimax.a
mpiifort -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:48 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-static-intel -static_mpi
-L/lus/swift/home/yanxonh/software_theta/cp2k-9.1/lib/Linux-x86-64-intel-minimal_copy/psmp
-o
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/memory_utilities_unittest.psmp
memory_utilities_unittest.o -lcp2kcommon -lcp2koffload -lcp2kmpiwrap
-lcp2kbase
-L/lus/swift/home/yanxonh/software_theta/cp2k-9.1/lib/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr
-ldbcsr
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_scalapack_lp64.a
-Wl,--start-group
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_intel_lp64.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_sequential.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_core.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_blacs_intelmpi_lp64.a
-Wl,--end-group
ar: creating
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/lib/Linux-x86-64-intel-minimal_copy/psmp/libcp2kminimax.a
mpiifort -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:48 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-static-intel -static_mpi
-L/lus/swift/home/yanxonh/software_theta/cp2k-9.1/lib/Linux-x86-64-intel-minimal_copy/psmp
-o
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/parallel_rng_types_unittest.psmp
parallel_rng_types_unittest.o -lcp2kcommon -lcp2koffload -lcp2kmpiwrap
-lcp2kbase
-L/lus/swift/home/yanxonh/software_theta/cp2k-9.1/lib/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr
-ldbcsr
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_scalapack_lp64.a
-Wl,--start-group
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_intel_lp64.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_sequential.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_core.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_blacs_intelmpi_lp64.a
-Wl,--end-group
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/tools/build_utils/fypp -n
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/pw/pw_grid_info.F
pw_grid_info.F90
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/tools/build_utils/fypp -n
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/input/input_section_types.F
input_section_types.F90
mpiifort -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:48 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-static-intel -static_mpi
-L/lus/swift/home/yanxonh/software_theta/cp2k-9.1/lib/Linux-x86-64-intel-minimal_copy/psmp
-o
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/graph.psmp
graph.o -lcp2kmetadyn_tools -lcp2kcommon -lcp2koffload -lcp2kmpiwrap
-lcp2kbase
-L/lus/swift/home/yanxonh/software_theta/cp2k-9.1/lib/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr
-ldbcsr
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_scalapack_lp64.a
-Wl,--start-group
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_intel_lp64.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_sequential.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_core.a
/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/lib/intel64/libmkl_blacs_intelmpi_lp64.a
-Wl,--end-group
mpiifort -c -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:48 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-D__SHORT_FILE__="\"pw/pw_grid_info.F\""
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/pw/'
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr'
pw_grid_info.F90
mpiifort -c -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:48 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-D__SHORT_FILE__="\"eri_mme/eri_mme_gaussian.F\""
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/eri_mme/'
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr'
eri_mme_gaussian.F90
mpiifort -c -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:48 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-D__SHORT_FILE__="\"input/input_section_types.F\""
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/input/'
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr'
input_section_types.F90
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/tools/build_utils/fypp -n
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/preconditioner_types.F
preconditioner_types.F90
mpiifort -c -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:48 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-D__SHORT_FILE__="\"preconditioner_types.F\""
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/'
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr'
preconditioner_types.F90
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/tools/build_utils/fypp -n
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/et_coupling_types.F
et_coupling_types.F90
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/tools/build_utils/fypp -n
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/qs_diis_types.F
qs_diis_types.F90
/usr/bin/ld: cannot find -lfabric
/usr/bin/ld: cannot find -lfabric
/usr/bin/sha1sum:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/graph.psmp:
No such file or directory
/usr/bin/sha1sum:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/memory_utilities_unittest.psmp:
No such file or directory
mpiifort -c -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:48 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-D__SHORT_FILE__="\"et_coupling_types.F\""
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/'
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr'
et_coupling_types.F90
mpiifort -c -O2 -fopenmp -fp-model precise -funroll-loops -g -qopenmp-simd
-traceback -xHost -D__FFTW3 -D__MAX_CONTR=4 -D__MKL -D__MPI_VERSION=3
-D__parallel -D__SCALAPACK -diag-disable=8291 -diag-disable=8293 -fpp -free
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include
-I/opt/intel/compilers_and_libraries_2020.0.166/linux/mkl/include/fftw
-D__COMPILE_ARCH="\"Linux-x86-64-intel-minimal_copy\""
-D__COMPILE_DATE="\"Thu Nov 3 19:50:49 UTC 2022\""
-D__COMPILE_HOST="\"thetalogin6\"" -D__COMPILE_REVISION="\"git:d8d7100\""
-D__DATA_DIR="\"/lus/swift/home/yanxonh/software_theta/cp2k-9.1/data\""
-D__SHORT_FILE__="\"qs_diis_types.F\""
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/src/'
-I'/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/exts/dbcsr'
qs_diis_types.F90
make[3]: ***
[/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/all.dep:130:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/memory_utilities_unittest.psmp]
Error 1
make[3]: *** Waiting for unfinished jobs....
make[3]: ***
[/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/all.dep:134:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/graph.psmp]
Error 1
/usr/bin/ld: cannot find -lfabric
/usr/bin/sha1sum:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/parallel_rng_types_unittest.psmp:
No such file or directory
make[3]: ***
[/lus/swift/home/yanxonh/software_theta/cp2k-9.1/obj/Linux-x86-64-intel-minimal_copy/psmp/all.dep:126:
/lus/swift/home/yanxonh/software_theta/cp2k-9.1/exe/Linux-x86-64-intel-minimal_copy/parallel_rng_types_unittest.psmp]
Error 1
make[2]: *** [/lus/swift/home/yanxonh/software_theta/cp2k-9.1/Makefile:158:
all] Error 2
make[1]: *** [/lus/swift/home/yanxonh/software_theta/cp2k-9.1/Makefile:140:
psmp] Error 2
make: *** [Makefile:135: all] Error 2
I really appreciate for the help.
Regards,
Howard
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