MOOSE tests failing due to an attempt running as root user

[BilboMcBong]

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Issue or question about MOOSE

Dear Moose community,

I tried to pull and run the docker image of the Moose application exactly as described in the installation page.
After spending some time with some conda activate/deactivate issue ([(https://github.com//discussions/28798]) the application compiles and most of the tests pass.

The Issue

However, there are still some test that fail, due to running the the tests as root user which is a bad practice as the error message indicates.
I sense that this is rather a Docker but a Moose issue but I thought someone could have run into similar problem.

What I tried so far

I tried to create another sudo user and initialize conda for all users, then I commited this container to a new image. Unfortunately, this approach does not work as various files are not found when trying to build and run the tests.

My setup

• Host Machine: Ubuntu 22.04.5 LTS
• I am using Docker Desktop

I am completely new to docker and have only basic knowledge of Linux.

Any help is appreciated!
Thanks in Advance

(Optional) code in question / simulation log / errors

interfaces/random.parallel_verification: Test spec: /projects/moose/test/tests/interfaces/random/tests:15
interfaces/random.parallel_verification: Working directory: /projects/moose/test/tests/interfaces/random
interfaces/random.parallel_verification: Running command: mpiexec -n 2 /projects/moose/test/moose_test-opt -i random.i --error --error-override
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: ################################################################################
interfaces/random.parallel_verification: Begin runner_run output
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: prterun has detected an attempt to run as root.
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: Running as root is *strongly* discouraged as any mistake (e.g., in
interfaces/random.parallel_verification: defining TMPDIR) or bug can result in catastrophic damage to the OS
interfaces/random.parallel_verification: file system, leaving your system in an unusable state.
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: We strongly suggest that you run prterun as a non-root user.
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: You can override this protection by adding the --allow-run-as-root
interfaces/random.parallel_verification: option to your command line.  However, we reiterate our strong advice
interfaces/random.parallel_verification: against doing so - please do so at your own risk.
interfaces/random.parallel_verification: --------------------------------------------------------------------------
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: ################################################################################
interfaces/random.parallel_verification: End runner_run output
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: ################################################################################
interfaces/random.parallel_verification: Begin tester output
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: Exit Code: 1
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: Tester failed, reason: CRASH
interfaces/random.parallel_verification: 
interfaces/random.parallel_verification: ################################################################################
interfaces/random.parallel_verification: End tester output
interfaces/random.parallel_verification:

Encountering Errors? Please include diagnostic output

# ./diagnostics.sh 
####################################################################################################
Influential Environment Variables

CC=mpicc
CONDA_CHANNEL=https://conda.software.inl.gov/public
CONDA_DEFAULT_ENV=moose
CONDA_EXE=/opt/miniforge3/bin/conda
CONDA_PREFIX=/opt/miniforge3/envs/moose
CONDA_PROMPT_MODIFIER=(moose) 
CONDA_PYTHON_EXE=/opt/miniforge3/bin/python
CONDA_SHLVL=1
CURL_CA_BUNDLE=
CXX=mpicxx
F77=mpif77
F90=mpif90
FC=mpif90
LD_LIBRARY_PATH=/opt/openmpi/lib:/opt/rh/gcc-toolset-12/root/usr/lib64:/opt/rh/gcc-toolset-12/root/usr/lib:/opt/openmpi/lib:/opt/rh/gcc-toolset-12/root/usr/lib64:/opt/rh/gcc-toolset-12/root/usr/lib:/.singularity.d/libs
LIBMESH_DIR=/opt/libmesh
MODULESHOME=/usr/share/Modules
MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl
MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD
MOOSE_APPTAINER_GENERATOR_LIBRARY=moose-dev
MOOSE_APPTAINER_GENERATOR_NAME=moose-dev-openmpi-x86_64
MOOSE_APPTAINER_GENERATOR_NAME_SUMMARY=moose-dev-openmpi-x86_64:2025.07.22
MOOSE_APPTAINER_GENERATOR_TAG=2025.07.22
MOOSE_APPTAINER_GENERATOR_VERSION=2025.07.22
MOOSE_JOBS=6
MOOSE_MPI_DIR=/opt/openmpi
PATH=/opt/miniforge3/envs/moose/bin:/opt/wasp/bin:/opt/code-server/bin:/opt/miniforge3/bin:/opt/openmpi/bin:/opt/rh/gcc-toolset-12/root/usr/bin:/opt/wasp/bin:/opt/code-server/bin:/opt/miniforge3/condabin:/opt/miniforge3/bin:/opt/openmpi/bin:/opt/rh/gcc-toolset-12/root/usr/bin:/usr/share/Modules/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/root/bin
PETSC_DIR=/opt/petsc
REQUESTS_CA_BUNDLE=
SSL_CERT_FILE=
WASP_DIR=/opt/wasp
####################################################################################################
Compiler(s) (CC CXX FC F77 F90):

which $CC; /opt/openmpi/bin/mpicc
$CC --version; gcc (GCC) 12.2.1 20221121 (Red Hat 12.2.1-7)
$CC -show; gcc -I/opt/openmpi/include -pthread -L/opt/openmpi/lib -Wl,-rpath -Wl,/opt/openmpi/lib -Wl,--enable-new-dtags -lmpi

which $CXX; /opt/openmpi/bin/mpicxx
$CXX --version; g++ (GCC) 12.2.1 20221121 (Red Hat 12.2.1-7)
$CXX -show; g++ -I/opt/openmpi/include -pthread -L/opt/openmpi/lib -Wl,-rpath -Wl,/opt/openmpi/lib -Wl,--enable-new-dtags -lmpi

which $FC; /opt/openmpi/bin/mpif90
$FC --version; GNU Fortran (GCC) 12.2.1 20221121 (Red Hat 12.2.1-7)
$FC -show; gfortran -I/opt/openmpi/include -pthread -I/opt/openmpi/lib -L/opt/openmpi/lib -Wl,-rpath -Wl,/opt/openmpi/lib -Wl,--enable-new-dtags -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi

which $F77; /opt/openmpi/bin/mpif77
$F77 --version; GNU Fortran (GCC) 12.2.1 20221121 (Red Hat 12.2.1-7)
$F77 -show; gfortran -I/opt/openmpi/include -pthread -I/opt/openmpi/lib -L/opt/openmpi/lib -Wl,-rpath -Wl,/opt/openmpi/lib -Wl,--enable-new-dtags -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi

which $F90; /opt/openmpi/bin/mpif90
$F90 --version; GNU Fortran (GCC) 12.2.1 20221121 (Red Hat 12.2.1-7)
$F90 -show; gfortran -I/opt/openmpi/include -pthread -I/opt/openmpi/lib -L/opt/openmpi/lib -Wl,-rpath -Wl,/opt/openmpi/lib -Wl,--enable-new-dtags -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi

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

/usr/bin/env python3 --version; (reporting as: Python 3.13.5) matches
which python3 python;

/opt/miniforge3/envs/moose/bin/python3 --version; == Python 3.13.5
/opt/miniforge3/envs/moose/bin/python --version; == Python 3.13.5

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

OK
####################################################################################################
MOOSE Repository/Conda Version Checks

WARNING: Not using Conda MOOSE packages, or conda activate moose not performed


checks PASSED

[loganharbour]

If you are trying to create an environment to share with others, you shouldn't do it as a super user. You should create the environment as a non-privileged user (yourself or a service user), and then make the environment readable (not-writeable) by others.

[BilboMcBong]

"If you are trying to create an environment to share with others, you shouldn't do it as a super user."
Means super user on the host machine of my docker container or super user inside my docker container?