Error During Linking of Moose-test-opt #28444

shrituntunroy · 2024-08-21T11:42:56Z

shrituntunroy
Aug 21, 2024

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Issue or question about MOOSE

Hi Moose Team,

I am a new Moose user and currently learning to use MOOSE.

I am trying to install moose on my offline PC by manually compiling PetSc, Libmesh and Wasp (https://mooseframework.inl.gov/getting_started/installation/offline_installation.html).
All these three processes completed successfully.

cd ~/projects/moose/scripts
export MOOSE_JOBS=6 METHODS=opt
./update_and_rebuild_petsc.sh --skip-submodule-update --with-packages-download-dir=~/projects/downloads
./update_and_rebuild_libmesh.sh --skip-submodule-update
./update_and_rebuild_wasp.sh --skip-submodule-update

But when I run make on moose test directiory I am getting following error in the final linking stage:

Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/indicators_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/nodalkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/fvkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/constraints_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/fvbcs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/scalarkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/materials_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/executioners_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/userobjects_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/meshes_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/postprocessors_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/base_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/dirackernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/kernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/outputs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/ics_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/dgkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/reporters_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/bcs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/markers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/interfacekernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/src/OverrideCliArgs.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/src/main.C...
Linking Library /home/vikramroy/projects/moose/framework/libmoose-opt.la...
Linking Executable /home/vikramroy/projects/moose/framework/contrib/exodiff/exodiff...
Linking Library /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.la...
Linking Executable /home/vikramroy/projects/moose/test/moose_test-opt...
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `ActionWarehouse::getMooseAppName[abi:cxx11]()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::setFinalTask(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `EmptyAction::validParams()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `GlobalParamsAction::remove(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::getCurrentActionName[abi:cxx11]() const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::addActionBlock(std::shared_ptr<Action>)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `typeinfo for GlobalParamsAction'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::printInputFile(std::ostream&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::getTaskName(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::~ActionWarehouse()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::executeAllActions()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::clear()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::getTasksByAction(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::build()'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `AddVariableAction::variableType[abi:cxx11](libMesh::FEType const&, bool, bool)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `AddVariableAction::getNonlinearVariableOrders()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::isTaskComplete(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `typeinfo for MooseObjectAction'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::reg(std::shared_ptr<RegistryEntryBase>)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::getValidParams(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `typeinfo for CreateProblemAction'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::create(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, InputParameters&)'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `typeinfo for AddMaterialAction'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `AddVariableAction::feType(InputParameters const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `MooseObjectAction::MooseObjectAction(InputParameters const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::getLineInfo(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::ActionFactory(MooseApp&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::actionBlocksWithActionEnd(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::getActionListByName(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::hasActions(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `MooseObjectAction::validParams()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `AddVariableAction::getNonlinearVariableFamilies()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::currentlyConstructing() const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `typeinfo for CommonOutputAction'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::~ActionFactory()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::actionBlocksWithActionBegin(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `vtable for MooseObjectAction'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `MooseObjectAction::addRelationshipManagers(Moose::RelationshipManagerType)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::ActionWarehouse(MooseApp&, Syntax&, ActionFactory&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `GlobalParamsAction::parameters()'
collect2: error: ld returned 1 exit status
make: *** [/home/vikramroy/projects/moose/framework/app.mk:457: /home/vikramroy/projects/moose/test/moose_test-opt] Error 1

I am unable to understand the reason for this error.

Kindly help me so as to resolve this error

(Optional) code in question / simulation log / errors

No response

Encountering Errors? Please include diagnostic output

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

CC=mpicc
CONDA_CHANNEL=https://conda.software.inl.gov/public
CURL_CA_BUNDLE=
CXX=mpicxx
F77=mpif77
F90=mpif90
FC=mpif90
LD_LIBRARY_PATH=/home/vikramr/projects/moose/libmesh/installed/lib/
MOOSE_JOBS=6
PATH=/home/vikramroy/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/snap/bin
REQUESTS_CA_BUNDLE=
SSL_CERT_FILE=

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

CC=/usr/bin/mpicc
CC -show:
gcc -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -L/usr/lib/x86_64-linux-gnu/openmpi/lib -lmpi
CC version:	gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0

CXX=/usr/bin/mpicxx
CXX -show:
g++ -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -L/usr/lib/x86_64-linux-gnu/openmpi/lib -lmpi_cxx -lmpi
CXX version:	g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0

FC=/usr/bin/mpif90
FC -show:
gfortran -I/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran-mod-15/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/lib -L/usr/lib/x86_64-linux-gnu/openmpi/lib/fortran/gfortran -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi -lopen-rte -lopen-pal -lhwloc -levent_core -levent_pthreads -lm -lz
FC version:	GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0

F77=/usr/bin/mpif77
F77 -show:
gfortran -I/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran-mod-15/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/lib -L/usr/lib/x86_64-linux-gnu/openmpi/lib/fortran/gfortran -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi -lopen-rte -lopen-pal -lhwloc -levent_core -levent_pthreads -lm -lz
F77 version:	GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0

F90=/usr/bin/mpif90
F90 -show:
gfortran -I/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran-mod-15/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/lib -L/usr/lib/x86_64-linux-gnu/openmpi/lib/fortran/gfortran -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi -lopen-rte -lopen-pal -lhwloc -levent_core -levent_pthreads -lm -lz
F90 version:	GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0

OK

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

Verify `/usr/bin/env python3 --version` (reporting as: Python 3.10.12),
matches versions for: `which python3 && which python`


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)

OK

Answered by shrituntunroy

Aug 22, 2024

Hi Jason,

I wanted to let you know that I started fresh by removing all the files and trying again.

I’m happy to report that the problem is resolved, and MOOSE compiled successfully this time.

Thank you so much for your help and support.

View full answer

milljm · 2024-08-21T12:59:21Z

milljm
Aug 21, 2024
Maintainer

I always appreciate those that go for glory with a clean system only library build :) 🍻

Because you are using system packages, we need to carefully scrutinize the contents of your /usr/local/** area(s). I can recall many a time that I've encountered libraries/binaries in this path that are custom, and need to either be explicitly included, or unfortunately, excluded (a bit harder to do).

That said, can you perform the following and report back? I would like to see how libMesh linked:

ldd /home/vikramr/projects/moose/libmesh/installed/bin/meshtool-opt

3 replies

shrituntunroy Aug 21, 2024
Author

Hi Jason,

Thankyou for your reply.

Following is returned when the check the ldd of meshtool-opt

vikramroy@VikramRoy:~/projects/moose/scripts$ ldd /home/vikramr/projects/moose/libmesh/installed/bin/meshtool-opt
ldd: /home/vikramr/projects/moose/libmesh/installed/bin/meshtool-opt: No such file or directory

But I didn't got any installation error when I installed petsc and libmesh

Kindly help so as to resolve this issue

milljm Aug 21, 2024
Maintainer

I assumed that is where libMesh was according to the diagnostic log.
Is this location valid?

LD_LIBRARY_PATH=/home/vikramr/projects/moose/libmesh/installed/lib/

What is in:

ls /home/vikramr/projects/moose/libmesh/installed/lib

Also, what is in... if its there the /bin dir?

ls /home/vikramr/projects/moose/libmesh/installed/bin

shrituntunroy Aug 22, 2024
Author

Hi Jason, Thankyou for your reply.

There was a typo in my path and the enviornment var LD_LIBRARY_PATH. My actual path is

 /home/vikramroy/projects/moose/libmesh/installed/bin/meshtool-opt

and it returned the following

vikramroy@VikramRoy:~/projects/moose/scripts$ ldd /home/vikramroy/projects/moose/libmesh/installed/bin/meshtool-opt
	linux-vdso.so.1 (0x00007ffd483ae000)
	libmesh_opt.so.0 => /home/vikramroy/projects/moose/libmesh/installed/lib/libmesh_opt.so.0 (0x00007cbf24a00000)
	libtimpi_opt.so.11 => /home/vikramroy/projects/moose/libmesh/installed/lib/libtimpi_opt.so.11 (0x00007cbf25eef000)
	libmpi.so.40 => /lib/x86_64-linux-gnu/libmpi.so.40 (0x00007cbf248c9000)
	libgfortran.so.5 => /lib/x86_64-linux-gnu/libgfortran.so.5 (0x00007cbf24400000)
	libgcc_s.so.1 => /lib/x86_64-linux-gnu/libgcc_s.so.1 (0x00007cbf25eb7000)
	libstdc++.so.6 => /lib/x86_64-linux-gnu/libstdc++.so.6 (0x00007cbf24000000)
	libmpi_cxx.so.40 => /lib/x86_64-linux-gnu/libmpi_cxx.so.40 (0x00007cbf25e9d000)
	libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007cbf247e2000)
	libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007cbf23c00000)
	libnetcdf.so.13 => /home/vikramroy/projects/moose/libmesh/installed/lib/libnetcdf.so.13 (0x00007cbf242e1000)
	libslepc.so.3.20 => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libslepc.so.3.20 (0x00007cbf23800000)
	libpetsc.so.3.20 => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libpetsc.so.3.20 (0x00007cbf21e00000)
	libHYPRE-2.29.0.so => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libHYPRE-2.29.0.so (0x00007cbf21800000)
	libstrumpack.so.7.1 => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libstrumpack.so.7.1 (0x00007cbf20800000)
	libparmetis.so => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libparmetis.so (0x00007cbf2479d000)
	libmetis.so => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libmetis.so (0x00007cbf24735000)
	libhdf5.so.200 => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libhdf5.so.200 (0x00007cbf20200000)
	libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007cbf25e7d000)
	libtirpc.so.3 => /lib/x86_64-linux-gnu/libtirpc.so.3 (0x00007cbf24707000)
	/lib64/ld-linux-x86-64.so.2 (0x00007cbf25f8b000)
	libgomp.so.1 => /lib/x86_64-linux-gnu/libgomp.so.1 (0x00007cbf24297000)
	libopen-rte.so.40 => /lib/x86_64-linux-gnu/libopen-rte.so.40 (0x00007cbf23f43000)
	libopen-pal.so.40 => /lib/x86_64-linux-gnu/libopen-pal.so.40 (0x00007cbf23e90000)
	libhwloc.so.15 => /lib/x86_64-linux-gnu/libhwloc.so.15 (0x00007cbf2423b000)
	libquadmath.so.0 => /lib/x86_64-linux-gnu/libquadmath.so.0 (0x00007cbf23e48000)
	libhdf5_hl.so.200 => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libhdf5_hl.so.200 (0x00007cbf246e0000)
	libscalapack.so.2.2 => /home/vikramroy/projects/moose/scripts/../petsc/arch-moose/lib/libscalapack.so.2.2 (0x00007cbf1fa00000)
	libsuperlu_dist.so.8 => /home/vikramroy/projects/moose/petsc/arch-moose/lib/libsuperlu_dist.so.8 (0x00007cbf21c98000)
	libX11.so.6 => /lib/x86_64-linux-gnu/libX11.so.6 (0x00007cbf206c0000)
	libmpi_mpifh.so.40 => /lib/x86_64-linux-gnu/libmpi_mpifh.so.40 (0x00007cbf23b9a000)
	libgssapi_krb5.so.2 => /lib/x86_64-linux-gnu/libgssapi_krb5.so.2 (0x00007cbf237ac000)
	libevent_core-2.1.so.7 => /lib/x86_64-linux-gnu/libevent_core-2.1.so.7 (0x00007cbf21c63000)
	libevent_pthreads-2.1.so.7 => /lib/x86_64-linux-gnu/libevent_pthreads-2.1.so.7 (0x00007cbf25e72000)
	libudev.so.1 => /lib/x86_64-linux-gnu/libudev.so.1 (0x00007cbf21c39000)
	libxcb.so.1 => /lib/x86_64-linux-gnu/libxcb.so.1 (0x00007cbf217d6000)
	libkrb5.so.3 => /lib/x86_64-linux-gnu/libkrb5.so.3 (0x00007cbf20135000)
	libk5crypto.so.3 => /lib/x86_64-linux-gnu/libk5crypto.so.3 (0x00007cbf217a7000)
	libcom_err.so.2 => /lib/x86_64-linux-gnu/libcom_err.so.2 (0x00007cbf25e6a000)
	libkrb5support.so.0 => /lib/x86_64-linux-gnu/libkrb5support.so.0 (0x00007cbf2422d000)
	libXau.so.6 => /lib/x86_64-linux-gnu/libXau.so.6 (0x00007cbf25e64000)
	libXdmcp.so.6 => /lib/x86_64-linux-gnu/libXdmcp.so.6 (0x00007cbf23e40000)
	libkeyutils.so.1 => /lib/x86_64-linux-gnu/libkeyutils.so.1 (0x00007cbf25e5d000)
	libresolv.so.2 => /lib/x86_64-linux-gnu/libresolv.so.2 (0x00007cbf23e2c000)
	libbsd.so.0 => /lib/x86_64-linux-gnu/libbsd.so.0 (0x00007cbf2178f000)
	libmd.so.0 => /lib/x86_64-linux-gnu/libmd.so.0 (0x00007cbf23b8d000)

I corrected this typo and recompiled petsc, libmesh and wasp.

All the three process completed successfully as shown below (only the final terminal outputs):

PETSC:

Install complete.
Now to check if the libraries are working do (in current directory):
make SLEPC_DIR=/home/vikramroy/projects/moose/petsc/arch-moose PETSC_DIR=/home/vikramroy/projects/moose/scripts/../petsc PETSC_ARCH=arch-moose check
====================================
/usr/bin/gmake --no-print-directory -f makefile PETSC_ARCH=arch-moose PETSC_DIR=/home/vikramroy/projects/moose/scripts/../petsc SLEPC_DIR=/home/vikramroy/projects/moose/petsc/arch-moose/externalpackages/slepc-v3.20.1 install-builtafterslepc
/usr/bin/gmake --no-print-directory -f makefile PETSC_ARCH=arch-moose PETSC_DIR=/home/vikramroy/projects/moose/scripts/../petsc SLEPC_DIR=/home/vikramroy/projects/moose/petsc/arch-moose/externalpackages/slepc-v3.20.1 slepc4py-install
gmake[6]: Nothing to be done for 'slepc4py-install'.
=========================================
Now to check if the libraries are working do:
make PETSC_DIR=/home/vikramroy/projects/moose/scripts/../petsc PETSC_ARCH=arch-moose check
=========================================
vikramroy@VikramRoy:~/projects/moose$ make PETSC_DIR=/home/vikramroy/projects/moose/scripts/../petsc PETSC_ARCH=arch-moose check
make: *** No rule to make target 'check'.  Stop.
vikramroy@VikramRoy:~/projects/moose$ cd petsc/
vikramroy@VikramRoy:~/projects/moose/petsc$ make PETSC_ARCH=arch-moose check
Running PETSc check examples to verify correct installation
Using PETSC_DIR=/home/vikramroy/projects/moose/petsc and PETSC_ARCH=arch-moose
C/C++ example src/snes/tutorials/ex19 run successfully with 1 MPI process
C/C++ example src/snes/tutorials/ex19 run successfully with 2 MPI processes
C/C++ example src/snes/tutorials/ex19 run successfully with hypre
C/C++ example src/snes/tutorials/ex19 run successfully with mumps
C/C++ example src/snes/tutorials/ex19 run successfully with superlu_dist
C/C++ example src/vec/vec/tests/ex47 run successfully with hdf5
Running SLEPc check examples to verify correct installation
Using SLEPC_DIR=/home/vikramroy/projects/moose/petsc/arch-moose/externalpackages/slepc-v3.20.1, PETSC_DIR=/home/vikramroy/projects/moose/petsc, and PETSC_ARCH=arch-moose
C/C++ example src/eps/tests/test10 run successfully with 1 MPI process
C/C++ example src/eps/tests/test10 run successfully with 2 MPI processes
Completed SLEPc check examples
Completed PETSc check examples

Libmesh:

make  install-am
make[3]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/examples/vector_fe/vector_fe_ex9'
make[4]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/examples/vector_fe/vector_fe_ex9'
make[4]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/home/vikramroy/projects/moose/scripts/../libmesh/installed/examples/vector_fe/ex9'
 /home/vikramroy/projects/moose/scripts/../libmesh/build-aux/install-sh -C -m 644 ../../../../examples/vector_fe/vector_fe_ex9/mixed_exact_solution.h ../../../../examples/vector_fe/vector_fe_ex9/solution_function.h ../../../../examples/vector_fe/vector_fe_ex9/vector_fe_ex9.C vector_fe_ex9.in ../../../../examples/vector_fe/vector_fe_ex9/run.sh ../../../contrib/utils/Makefile '/home/vikramroy/projects/moose/scripts/../libmesh/installed/examples/vector_fe/ex9'
make[4]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/examples/vector_fe/vector_fe_ex9'
make[3]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/examples/vector_fe/vector_fe_ex9'
make[2]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/examples/vector_fe/vector_fe_ex9'
make[2]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/examples'
make[3]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/examples'
make[3]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/home/vikramroy/projects/moose/scripts/../libmesh/installed/examples'
 /home/vikramroy/projects/moose/scripts/../libmesh/build-aux/install-sh -C -m 644 ../../examples/run_common.sh '/home/vikramroy/projects/moose/scripts/../libmesh/installed/examples'
make[3]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/examples'
make[2]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/examples'
make[1]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/examples'
Making install in doc
make[1]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/doc'
Making install in html
make[2]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/doc/html'
make  install-am
make[3]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/doc/html'
make[4]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/doc/html'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/doc/html'
make[3]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/doc/html'
make[2]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/doc/html'
make[2]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/doc'
make[3]: Entering directory '/home/vikramroy/projects/moose/libmesh/build/doc'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/doc'
make[2]: Leaving directory '/home/vikramroy/projects/moose/libmesh/build/doc'

this time also ldd /home/vikramroy/projects/moose/libmesh/installed/bin/meshtool-opt returned same as above.

then wasp:

ORIGIN/../lib"
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasphit.so
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphit/HITLexer.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphit/HITParser.hpp
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphit/HITInterpreter.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphit/HITInterpreter.i.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphit/HITNodeView.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphit/HITNodeView.i.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphit/HIT.lex
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphit/HIT.bison
-- Installing: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasphalite.so.4.3.0
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasphalite.so.04
-- Set runtime path of "/home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasphalite.so.4.3.0" to "/home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib:$ORIGIN/../lib"
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasphalite.so
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphalite/DataAccessor.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphalite/HaliteInterpreter.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphalite/HaliteInterpreter.i.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphalite/HaliteNodeView.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphalite/HaliteNodeView.i.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphalite/HaliteWorkflow.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasphalite/SubStringIndexer.h
-- Installing: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasplsp.so.4.3.0
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasplsp.so.04
-- Set runtime path of "/home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasplsp.so.4.3.0" to "/home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib:$ORIGIN/../lib"
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/lib/libwasplsp.so
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/Client.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/ClientImpl.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/Connection.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/IOStreamConnection.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/LSP.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/LSPInterpreter.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/Server.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/ServerImpl.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/SymbolIterator.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/ThreadConnection.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/WaspServer.h
-- Up-to-date: /home/vikramroy/projects/moose/scripts/../framework/contrib/wasp/install/include/wasplsp/WaspServer.i.h

When I compile moose also I dont get any error till the final linking of the moose-test-opt as shown below:

vikramroy@VikramRoy:~/projects/moose/scripts$ cd ~/projects/moose/test
make -j 6
/bin/sh: 1: git: not found
cut: /.git: No such file or directory
/bin/sh: 1: git: not found
cut: /.git: No such file or directory
Traceback (most recent call last):
  File "/home/vikramroy/projects/moose/framework/../scripts/premake.py", line 183, in <module>
    PreMake().check()
  File "/home/vikramroy/projects/moose/framework/../scripts/premake.py", line 18, in __init__
    self.versioner_meta = Versioner().version_meta()
  File "/home/vikramroy/projects/moose/scripts/versioner.py", line 272, in version_meta
    if not self.is_git_object(commit):
  File "/home/vikramroy/projects/moose/scripts/versioner.py", line 151, in is_git_object
    raise ex
  File "/home/vikramroy/projects/moose/scripts/versioner.py", line 145, in is_git_object
    subprocess.run(command, stdout=subprocess.DEVNULL,
  File "/usr/lib/python3.10/subprocess.py", line 503, in run
    with Popen(*popenargs, **kwargs) as process:
  File "/usr/lib/python3.10/subprocess.py", line 971, in __init__
    self._execute_child(args, executable, preexec_fn, close_fds,
  File "/usr/lib/python3.10/subprocess.py", line 1863, in _execute_child
    raise child_exception_type(errno_num, err_msg, err_filename)
FileNotFoundError: [Errno 2] No such file or directory: 'git'
make: [/home/vikramroy/projects/moose/framework/moose.mk:388: prebuild] Error 1 (ignored)
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/actions_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/distributions_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/timesteppers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/samplers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/executors_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/mesh_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/linesearches_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/physics_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/controls_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/linearfvbcs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/limiters_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/transfers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/predictors_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/vectorpostprocessors_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/functions_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/auxkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/meshgenerators_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/partitioner_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/problems_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/variables_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/fviks_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/interfaces_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/functormaterials_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/fvics_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/multiapps_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/indicators_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/nodalkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/splits_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/fvkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/utils_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/constraints_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/fvbcs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/scalarkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/geomsearch_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/parser_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/materials_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/executioners_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/relationshipmanagers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/userobjects_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/times_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/hdgbcs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/preconditioners_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/bounds_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/restart_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/postprocessors_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/systems_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/base_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/dirackernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/kernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/linearfvkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/hdgkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/outputs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/dampers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/ics_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/loops_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/dgkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/meshdivisions_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/reporters_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/positions_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/bcs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/markers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/interfacekernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/build/unity_src/timeintegrators_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/PerfGraph.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/SymmetricRankTwoTensor.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/RankTwoTensor.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/SymmetricRankFourTensor.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/PerfGraphLivePrint.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/PerfGraphRegistry.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/RankThreeTensor.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/VectorTag.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/RankFourTensor.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/src/utils_nonunity/FactorizedRankTwoTensor.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/create_file.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/exo_block.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/map.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/node_set.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/exoII_read.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/exo_entity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/check.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/exodiff.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/ED_SystemInterface.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/side_set.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/framework/contrib/exodiff/Tolerance.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/actions_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/timesteppers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/samplers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/executors_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/controls_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/vectorpostprocessors_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/functions_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/auxkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/meshgenerators_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/partitioner_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/problems_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/fviks_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/indicators_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/nodalkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/fvkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/constraints_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/fvbcs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/scalarkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/materials_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/executioners_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/userobjects_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/meshes_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/postprocessors_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/base_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/dirackernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/kernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/outputs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/ics_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/dgkernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/reporters_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/bcs_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/markers_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/build/unity_src/interfacekernels_Unity.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/src/OverrideCliArgs.C...
Compiling C++ (in opt mode) /home/vikramroy/projects/moose/test/src/main.C...
Linking Library /home/vikramroy/projects/moose/framework/libmoose-opt.la...
Linking Executable /home/vikramroy/projects/moose/framework/contrib/exodiff/exodiff...
Linking Library /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.la...
Linking Executable /home/vikramroy/projects/moose/test/moose_test-opt...
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `ActionWarehouse::getMooseAppName[abi:cxx11]()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::setFinalTask(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `EmptyAction::validParams()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `GlobalParamsAction::remove(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::getCurrentActionName[abi:cxx11]() const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::addActionBlock(std::shared_ptr<Action>)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `typeinfo for GlobalParamsAction'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::printInputFile(std::ostream&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::getTaskName(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::~ActionWarehouse()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::executeAllActions()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::clear()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::getTasksByAction(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::build()'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `AddVariableAction::variableType[abi:cxx11](libMesh::FEType const&, bool, bool)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `AddVariableAction::getNonlinearVariableOrders()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::isTaskComplete(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `typeinfo for MooseObjectAction'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::reg(std::shared_ptr<RegistryEntryBase>)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::getValidParams(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `typeinfo for CreateProblemAction'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::create(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, InputParameters&)'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `typeinfo for AddMaterialAction'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `AddVariableAction::feType(InputParameters const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `MooseObjectAction::MooseObjectAction(InputParameters const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::getLineInfo(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::ActionFactory(MooseApp&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::actionBlocksWithActionEnd(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::getActionListByName(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::hasActions(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `MooseObjectAction::validParams()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `AddVariableAction::getNonlinearVariableFamilies()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::currentlyConstructing() const'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `typeinfo for CommonOutputAction'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionFactory::~ActionFactory()'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::actionBlocksWithActionBegin(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `vtable for MooseObjectAction'
/usr/bin/ld: /home/vikramroy/projects/moose/test/lib/libmoose_test-opt.so: undefined reference to `MooseObjectAction::addRelationshipManagers(Moose::RelationshipManagerType)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `ActionWarehouse::ActionWarehouse(MooseApp&, Syntax&, ActionFactory&)'
/usr/bin/ld: /home/vikramroy/projects/moose/framework/libmoose-opt.so: undefined reference to `GlobalParamsAction::parameters()'
collect2: error: ld returned 1 exit status
make: *** [/home/vikramroy/projects/moose/framework/app.mk:457: /home/vikramroy/projects/moose/test/moose_test-opt] Error 1
vikramroy@VikramRoy:~/projects/moose/test$

I have installed this moose offline version in my other pc they were completed succesfully. In this pc I am unable to make out what is causing this error.

Please help if have an idea about this.

Thankyou

shrituntunroy · 2024-08-22T07:13:17Z

shrituntunroy
Aug 22, 2024
Author

Hi Jason,

I wanted to let you know that I started fresh by removing all the files and trying again.

I’m happy to report that the problem is resolved, and MOOSE compiled successfully this time.

Thank you so much for your help and support.

1 reply

milljm Aug 22, 2024
Maintainer

Glad you got it sorted. Not sure what the underlying issue was. The only thing that comes to mind if deleting (rm -rf moose) worked, is that somehow the first build was incorrect and required a cleaning before another attempt could be made. Usually we tell folks to cd moose; git clean -xfd in order to do this.

Cheers! 🍻

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Error During Linking of Moose-test-opt #28444

shrituntunroy Aug 21, 2024

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