Compilation error: Killed signal terminated program cc1plus

[rayaprolu143]

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Issue or question about MOOSE

Hi,

I have attached a screenshot showing the error I received when tried to compile the makefile in moose/test folder using "make -j 6". However, the error does not show up when compiled with "make -j 1". Kindly let me know if there is anything wrong I am doing here.

Sreekar

(Optional) code in question / simulation log / errors

No response

Encountering Errors? Please include diagnostic output

##################################################################################################
Influential Environment Variables

APPTAINER_UNSHARE_IPC=1
CC=mpicc
CONDA_CHANNEL=https://conda.software.inl.gov/public
CURL_CA_BUNDLE=
CXX=mpiCC
F77=mpif77
F90=mpif90
F95=/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/bin/gfortran
FC=mpif90
LD_LIBRARY_PATH=/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib:/apps/spack/negishi/apps/numactl/2.0.14-gcc-12.2.0-pavd247/lib:/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib64:/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib:/apps/spack/negishi/apps/zlib/1.2.13-gcc-12.2.0-lcttzi4/lib:/apps/spack/negishi/apps/mpc/1.1.0-gcc-8.5.0-rmvlya2/lib:/apps/spack/negishi/apps/mpfr/4.0.2-gcc-12.2.0-ceitkks/lib:/apps/spack/negishi/apps/gmp/6.2.1-gcc-12.2.0-o4alg4g/lib
LD_PRELOAD=/apps/external/apps/xalt3/xalt/xalt/lib64/libxalt_init.so
MODULESHOME=/opt/lmod/lmod
MOOSE_JOBS=6
PATH=/apps/external/apps/xalt3/xalt/xalt/bin:/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/bin:/apps/spack/negishi/apps/numactl/2.0.14-gcc-12.2.0-pavd247/bin:/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/bin:/home/arayapro/bin:/home/arayapro/.local/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/hpss/bin:/opt/hsi/bin:/opt/puppetlabs/bin:/usr/site/rcac/sbin:/usr/site/rcac/bin:/usr/site/rcac/scripts:/opt/thinlinc/bin:/opt/thinlinc/sbin
REQUESTS_CA_BUNDLE=
SSL_CERT_FILE=

##################################################################################################
Compiler(s) (CC CXX FC F77 F90):

CC=/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/bin/mpicc
CC -show:
/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/bin/gcc -I/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/include -fexceptions -pthread -L/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -L/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -L/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -L/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib/gcc/x86_64-pc-linux-gnu/12.2.0 -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib64 -Wl,-rpath -Wl,/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -lmpi
CC version:     gcc (Spack GCC) 12.2.0

CXX=/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/bin/mpiCC
CXX -show:
/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/bin/g++ -I/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/include -fexceptions -pthread -L/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -L/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -L/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -L/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib/gcc/x86_64-pc-linux-gnu/12.2.0 -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib64 -Wl,-rpath -Wl,/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -lmpi_cxx -lmpi
CXX version:    g++ (Spack GCC) 12.2.0

FC=/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/bin/mpif90
FC -show:
/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/bin/gfortran -I/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/include -fexceptions -pthread -I/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -L/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -L/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -L/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -L/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib/gcc/x86_64-pc-linux-gnu/12.2.0 -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib64 -Wl,-rpath -Wl,/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi
FC version:     GNU Fortran (Spack GCC) 12.2.0

F77=/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/bin/mpif77
F77 -show:
/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/bin/gfortran -I/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/include -fexceptions -pthread -I/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -L/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -L/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -L/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -L/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib/gcc/x86_64-pc-linux-gnu/12.2.0 -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib64 -Wl,-rpath -Wl,/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi
F77 version:    GNU Fortran (Spack GCC) 12.2.0

F90=/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/bin/mpif90
F90 -show:
/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/bin/gfortran -I/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/include -fexceptions -pthread -I/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -L/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -L/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -L/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -L/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib/gcc/x86_64-pc-linux-gnu/12.2.0 -Wl,-rpath,/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/lib64 -Wl,-rpath -Wl,/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/hwloc/2.8.0-gcc-12.2.0-37auxcx/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/libevent/2.1.12-gcc-12.2.0-fxhhv5n/lib -Wl,-rpath -Wl,/apps/spack/negishi/apps/pmix/4.1.2-gcc-12.2.0-husqypr/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi
F90 version:    GNU Fortran (Spack GCC) 12.2.0

OK

##################################################################################################
Python Sanity Checks

Verify `/usr/bin/env python3 --version` (reporting as: Python 3.6.8),
matches versions for: `which python3 && which python`

/usr/bin/which: no python in (/apps/external/apps/xalt3/xalt/xalt/bin:/apps/spack/negishi/apps/openmpi/4.1.4-gcc-12.2.0-aqmmssy/bin:/apps/spack/negishi/apps/numactl/2.0.14-gcc-12.2.0-pavd247/bin:/apps/spack/negishi/apps/gcc/12.2.0-gcc-8.5.0-27t2zcj/bin:/home/arayapro/bin:/home/arayapro/.local/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/hpss/bin:/opt/hsi/bin:/opt/puppetlabs/bin:/usr/site/rcac/sbin:/usr/site/rcac/bin:/usr/site/rcac/scripts:/opt/thinlinc/bin:/opt/thinlinc/sbin)

WARNING: `python` does not exist
This does not mean there will be a failure, but some shebangs in some python
files may still be relying on calling: `/usr/bin/env python` (Python 2.x era)
OK

##################################################################################################
Python Modules (TestHarness, run-ability)

FAIL:    python module: `packaging` not available
WARNING: python module: `jinja2` not available

Failing Python packages will prevent you from building MOOSE.
Warning Python packages may cause miscellaneous runtime issues.

Either install the above packages, or perhaps you have yet to activate your
moose environment: `conda activate moose`.

[GiudGiud]

hello

could you please try to use less processors for building? for example
make -j 2
or even
make -j 1

this will reduce the memory usage when building the code

GUillaume

[rayaprolu143]

I did, and it worked, as I have mentioned in the post.

So, it is failing because of the memory issue. Is there anything that I could do on my end to increase the memory usage limit?

Sreekar

[GiudGiud]

my bad I did not see that sentence.

Ok so either:

• compile with minimal memory usage with

MOOSE_UNITY=false make -j1

or find a machine with more memory. how much do you have access to on this one?