Unable to run tests - failed to import pyhit

[naveen-pr]

Hi Everyone,

I installed moose using the conda framework. Everything seemed to go smoothly until I run tests in the moose/test directory:
$ ./run_tests -j8
Building and linking hit...
failed to import pyhit - try running "make hit" in the $MOOSE_DIR/test directory.
$ make hit
Building and linking hit...
$ ./run_tests -j8
Building and linking hit...
failed to import pyhit - try running "make hit" in the $MOOSE_DIR/test directory.

Things I checked/tried:

1. Cleaned and compiled run_tests again. It seems to be building fine without any issues.

2. I made sure the environment is loaded (conda activate moose) and updated conda (conda update --all). I don't think there were any build issues but I updated anyway. There were some changes made during the update but got the same pyhit error.

3. Tried restarting the shell.

4. $ conda config --show channels
   channels:

• idaholab
• conda-forge
• defaults

5.$ which python
~/miniconda3/envs/moose/bin/python
I saw this on a different thread - seems to be using conda's python

6. $ echo $CONDA_DEFAULT_ENV
   moose

I basically tried a bunch of things from the troubleshooting page (https://mooseframework.inl.gov/help/troubleshooting.html). I haven't tried removing and re-installing completely yet hoping that it would be something simple..

Thanks,
Naveen.

[ngrilli]

Dear @naveen-pr

I had a similar problem on CentOS 7 cluster before.
What I normally do is to use the python version that is installed in the cluster, so in the following order:

1. source ~/moose-environment.sh
2. module load python3.6.4 (you need to check which version you have installed)

In that case "which python" should point to the version installed in the cluster,
not to miniconda.

Give it a try and let me know.

Best Regards,
Nicolò Grilli
National University of Singapore

[naveen-pr]

Hi Nicolo, thanks. I'm on CentOS 7 as well so could be a similar issue. I don't seem to have a moose-environment.sh file though ( I used these instructions to install https://mooseframework.inl.gov/getting_started/installation/conda.html so I didn't manually create the environment file). I tried loading the default python module I have on the cluster (python3.6) but 'which python' still points to miniconda's version. Any suggestions ?

Thanks,
Naveen.

[ngrilli]

Dear @naveen-pr

In our CentOS 7, I have used the manual installation GCC/MPICH.
You can try that.

Based on the ldd command you show below,
it is clear that your code did not link properly, so it's not only a python problem.

Best Regards,
Nicolò Grilli
National University of Singapore

[ada-ayy]

@ngrilli Hello! I have the same problem with the python environment, but it seems no problem on my ldd command.
I can run successfully the tests on the login node, but it fails with pyhit import on the compute node.
So I wonder what can I do to change my version of python to the one installed in the cluster? I also install moose followed by https://mooseframework.inl.gov/getting_started/installation/conda.html. Should I also manually install the GCC/MPICH? Thanks so much!

[milljm]

Can you start a new discussion for this issue? I don't think this was ever actually answered correctly, and it has other posts with non-pertinent information (making it difficult to read).

When you do start a new discussion, my first question will be "what are the results of an ldd moose_test-opt. So if you wouldn't mind posting that with your discussion topic, it would speed things up :)

[ada-ayy]

Yeah, I will. Thanks!

[milljm]

Can you report back what your conda list looks like?

conda list

Also, it might help to see just what things are being linked:

ldd moose/test/moose_test-opt

[Ali-toghraee]

Hi Milljm
I am trying to do those commands . However, I did the same thing I mentioned and it worked and all tests passed

Here are the results for the commands:

(moose) atoghraee@ME-DESKTOP102:/projects02/moose/test$ ldd moose_test-opt
linux-vdso.so.1 => (0x00007ffc0f58a000)
libmoose_test-opt.so.0 => /home/atoghraee/projects02/moose/test/lib/libmoose_test-opt.so.0 (0x00007f5bc82d6000)
libmoose-opt.so.0 => /home/atoghraee/projects02/moose/framework/libmoose-opt.so.0 (0x00007f5bc6738000)
libhit-opt.so.0 => /home/atoghraee/projects02/moose/framework/contrib/hit/libhit-opt.so.0 (0x00007f5bc8bbc000)
libmesh_opt.so.0 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/libmesh_opt.so.0 (0x00007f5bc5291000)
libtimpi_opt.so.2 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/libtimpi_opt.so.2 (0x00007f5bc8bae000)
libgfortran.so.5 => /home/atoghraee/miniconda3/envs/moose/lib/libgfortran.so.5 (0x00007f5bc50f1000)
libgcc_s.so.1 => /home/atoghraee/miniconda3/envs/moose/lib/libgcc_s.so.1 (0x00007f5bc8b9a000)
libstdc++.so.6 => /home/atoghraee/miniconda3/envs/moose/lib/libstdc++.so.6 (0x00007f5bc4f7c000)
libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007f5bc4c73000)
libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f5bc48a9000)
libmpi.so.12 => /home/atoghraee/miniconda3/envs/moose/lib/libmpi.so.12 (0x00007f5bc456f000)
libpcre-opt.so.0 => /home/atoghraee/projects02/moose/framework/contrib/pcre/libpcre-opt.so.0 (0x00007f5bc8b4e000)
libvtkCommonCore-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/libvtkCommonCore-6.3.so.1 (0x00007f5bc412c000)
libvtkCommonDataModel-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/libvtkCommonDataModel-6.3.so.1 (0x00007f5bc3e21000)
libvtkImagingCore-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/libvtkImagingCore-6.3.so.1 (0x00007f5bc3c00000)
libvtkIOImage-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/libvtkIOImage-6.3.so.1 (0x00007f5bc3a85000)
libvtkImagingMath-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/libvtkImagingMath-6.3.so.1 (0x00007f5bc8b06000)
libvtkCommonExecutionModel-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/libvtkCommonExecutionModel-6.3.so.1 (0x00007f5bc39ec000)
libslepc.so.3.14 => /home/atoghraee/miniconda3/envs/moose/lib/libslepc.so.3.14 (0x00007f5bc364b000)
libpetsc.so.3.14 => /home/atoghraee/miniconda3/envs/moose/lib/libpetsc.so.3.14 (0x00007f5bc1edc000)
libHYPRE-2.19.0.so => /home/atoghraee/miniconda3/envs/moose/lib/libHYPRE-2.19.0.so (0x00007f5bc19fa000)
libpthread.so.0 => /lib/x86_64-linux-gnu/libpthread.so.0 (0x00007f5bc17dd000)
libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007f5bc15d9000)
/lib64/ld-linux-x86-64.so.2 (0x00007f5bc8a79000)
libgomp.so.1 => /home/atoghraee/miniconda3/envs/moose/lib/libgomp.so.1 (0x00007f5bc8ad7000)
libnetcdf.so.13 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/libnetcdf.so.13 (0x00007f5bc148d000)
libvtkIOXML-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../libmesh-vtk/lib/libvtkIOXML-6.3.so.1 (0x00007f5bc13c1000)
libvtkIOParallelXML-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../libmesh-vtk/lib/libvtkIOParallelXML-6.3.so.1 (0x00007f5bc8aae000)
libvtkParallelMPI-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../libmesh-vtk/lib/libvtkParallelMPI-6.3.so.1 (0x00007f5bc13aa000)
libvtkParallelCore-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../libmesh-vtk/lib/libvtkParallelCore-6.3.so.1 (0x00007f5bc1359000)
libz.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/libz.so.1 (0x00007f5bc133f000)
libparmetis.so => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/libparmetis.so (0x00007f5bc12f5000)
libmetis.so => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/libmetis.so (0x00007f5bc1286000)
libquadmath.so.0 => /usr/lib/x86_64-linux-gnu/libquadmath.so.0 (0x00007f5bc1047000)
librt.so.1 => /lib/x86_64-linux-gnu/librt.so.1 (0x00007f5bc0e3f000)
libvtksys-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtksys-6.3.so.1 (0x00007f5bc0ded000)
libvtkCommonMisc-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkCommonMisc-6.3.so.1 (0x00007f5bc0dd7000)
libvtkCommonSystem-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkCommonSystem-6.3.so.1 (0x00007f5bc0dc1000)
libvtkCommonTransforms-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkCommonTransforms-6.3.so.1 (0x00007f5bc0d8f000)
libvtkCommonMath-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkCommonMath-6.3.so.1 (0x00007f5bc0d6d000)
libvtkpng-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkpng-6.3.so.1 (0x00007f5bc0d3a000)
libvtktiff-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtktiff-6.3.so.1 (0x00007f5bc0cd0000)
libvtkmetaio-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkmetaio-6.3.so.1 (0x00007f5bc0c29000)
libvtkDICOMParser-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkDICOMParser-6.3.so.1 (0x00007f5bc0c0b000)
libvtkzlib-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkzlib-6.3.so.1 (0x00007f5bc0bf2000)
libvtkjpeg-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh-vtk/lib/./libvtkjpeg-6.3.so.1 (0x00007f5bc0bc2000)
libstrumpack.so => /home/atoghraee/miniconda3/envs/moose/lib/./libstrumpack.so (0x00007f5bc01da000)
libsuperlu_dist.so.6 => /home/atoghraee/miniconda3/envs/moose/lib/./libsuperlu_dist.so.6 (0x00007f5bc00e6000)
libmpifort.so.12 => /home/atoghraee/miniconda3/envs/moose/lib/./libmpifort.so.12 (0x00007f5bc00a7000)
libmfhdf.so.0 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/./libmfhdf.so.0 (0x00007f5bc007b000)
libdf.so.0 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/./libdf.so.0 (0x00007f5bbffcd000)
libhdf5_hl.so.100 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/./libhdf5_hl.so.100 (0x00007f5bbffa6000)
libhdf5.so.103 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/./libhdf5.so.103 (0x00007f5bbfc12000)
libcurl.so.4 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/./libcurl.so.4 (0x00007f5bbfb79000)
libvtkIOXMLParser-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../libmesh-vtk/lib/./libvtkIOXMLParser-6.3.so.1 (0x00007f5bbfb60000)
libvtkIOCore-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../libmesh-vtk/lib/./libvtkIOCore-6.3.so.1 (0x00007f5bbfae7000)
libvtkIOLegacy-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../libmesh-vtk/lib/./libvtkIOLegacy-6.3.so.1 (0x00007f5bbfa44000)
libjpeg.so.9 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libjpeg.so.9 (0x00007f5bbfa06000)
libnghttp2.so.14 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libnghttp2.so.14 (0x00007f5bbf9dd000)
libssh2.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libssh2.so.1 (0x00007f5bbf999000)
libssl.so.1.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libssl.so.1.1 (0x00007f5bbf909000)
libcrypto.so.1.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libcrypto.so.1.1 (0x00007f5bbf63d000)
libgssapi_krb5.so.2 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libgssapi_krb5.so.2 (0x00007f5bbf5ed000)
libkrb5.so.3 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libkrb5.so.3 (0x00007f5bbf514000)
libk5crypto.so.3 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libk5crypto.so.3 (0x00007f5bbf4f5000)
libcom_err.so.3 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/././libcom_err.so.3 (0x00007f5bbf4ee000)
libvtkexpat-6.3.so.1 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../libmesh-vtk/lib/././libvtkexpat-6.3.so.1 (0x00007f5bbf4c2000)
libkrb5support.so.0 => /home/atoghraee/miniconda3/envs/moose/libmesh/lib/../../lib/./././libkrb5support.so.0 (0x00007f5bbf4b2000)
libresolv.so.2 => /lib/x86_64-linux-gnu/libresolv.so.2 (0x00007f5bbf297000)
(moose) atoghraee@ME-DESKTOP102:/projects02/moose/test$

(moose) atoghraee@ME-DESKTOP102:~/projects02/moose/test$ conda list

packages in environment at /home/atoghraee/miniconda3/envs/moose:

Name Version Build Channel

_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 1_gnu conda-forge
beautifulsoup4 4.9.3 pyhb0f4dca_0 conda-forge
binutils_impl_linux-64 2.35.1 h193b22a_2 conda-forge
binutils_linux-64 2.35 hc3fd857_29 conda-forge
bzip2 1.0.8 h7f98852_4 conda-forge
c-ares 1.17.1 h7f98852_1 conda-forge
ca-certificates 2020.12.5 ha878542_0 conda-forge
certifi 2020.12.5 py37h89c1867_1 conda-forge
cloudpickle 1.6.0 py_0 conda-forge
cmake 3.19.4 h4547794_0 conda-forge
curl 7.75.0 h979ede3_0 conda-forge
cycler 0.10.0 py_2 conda-forge
cytoolz 0.11.0 py37h5e8e339_3 conda-forge
dask-core 2021.3.0 pyhd8ed1ab_0 conda-forge
dbus 1.13.6 hfdff14a_1 conda-forge
decorator 4.4.2 py_0 conda-forge
expat 2.2.10 h9c3ff4c_0 conda-forge
fontconfig 2.13.1 hba837de_1004 conda-forge
freetype 2.10.4 h0708190_1 conda-forge
future 0.18.2 py37h89c1867_3 conda-forge
gcc_impl_linux-64 9.3.0 h28f5a38_17 conda-forge
gcc_linux-64 9.3.0 h7247604_29 conda-forge
gettext 0.19.8.1 hf34092f_1004 conda-forge
gfortran_impl_linux-64 9.3.0 hc4a2995_18 conda-forge
gfortran_linux-64 9.3.0 ha1c937c_29 conda-forge
glib 2.66.3 h58526e2_0 conda-forge
gst-plugins-base 1.14.5 h0935bb2_2 conda-forge
gstreamer 1.14.5 h36ae1b5_2 conda-forge
gxx_impl_linux-64 9.3.0 h53cdd4c_17 conda-forge
gxx_linux-64 9.3.0 h0d07fa4_29 conda-forge
hdf4 4.2.13 h10796ff_1004 conda-forge
hdf5 1.10.5 nompi_h5b725eb_1114 conda-forge
icu 67.1 he1b5a44_0 conda-forge
imagecodecs-lite 2019.12.3 py37h902c9e0_3 conda-forge
imageio 2.9.0 py_0 conda-forge
jinja2 2.11.3 pyh44b312d_0 conda-forge
jpeg 9d h36c2ea0_0 conda-forge
jsoncpp 1.8.4 hc9558a2_1002 conda-forge
kernel-headers_linux-64 2.6.32 h77966d4_13 conda-forge
kiwisolver 1.3.1 py37h2527ec5_1 conda-forge
krb5 1.17.2 h926e7f8_0 conda-forge
latexcodec 2.0.1 pyh9f0ad1d_0 conda-forge
lcms2 2.11 hcbb858e_1 conda-forge
ld_impl_linux-64 2.35.1 hea4e1c9_2 conda-forge
libblas 3.9.0 8_openblas conda-forge
libcblas 3.9.0 8_openblas conda-forge
libclang 10.0.1 default_hde54327_1 conda-forge
libcurl 7.75.0 hc4aaa36_0 conda-forge
libdrm-cos6-x86_64 2.4.65 h9d98e8f_1104 conda-forge
libedit 3.1.20191231 he28a2e2_2 conda-forge
libev 4.33 h516909a_1 conda-forge
libevent 2.1.10 hcdb4288_3 conda-forge
libffi 3.2.1 he1b5a44_1007 conda-forge
libgcc-devel_linux-64 9.3.0 hfd08b2a_17 conda-forge
libgcc-ng 9.3.0 h2828fa1_18 conda-forge
libgfortran-ng 9.3.0 hff62375_18 conda-forge
libgfortran5 9.3.0 hff62375_18 conda-forge
libglib 2.66.3 hbe7bbb4_0 conda-forge
libglu 9.0.0 hf484d3e_1000 conda-forge
libgomp 9.3.0 h2828fa1_18 conda-forge
libice-cos6-x86_64 1.0.6 h9d98e8f_1104 conda-forge
libice-devel-cos6-x86_64 1.0.6 h9d98e8f_1104 conda-forge
libiconv 1.16 h516909a_0 conda-forge
liblapack 3.9.0 8_openblas conda-forge
libllvm10 10.0.1 he513fc3_3 conda-forge
libnetcdf 4.6.2 h303dfb8_1003 conda-forge
libnghttp2 1.43.0 h812cca2_0 conda-forge
libopenblas 0.3.12 pthreads_h4812303_1 conda-forge
libpng 1.6.37 hed695b0_0 conda-forge
libpq 12.3 h255efa7_3 conda-forge
libsm-cos6-x86_64 1.2.1 h9d98e8f_1104 conda-forge
libsm-devel-cos6-x86_64 1.2.1 h9d98e8f_1104 conda-forge
libssh2 1.9.0 ha56f1ee_6 conda-forge
libstdcxx-devel_linux-64 9.3.0 h4084dd6_17 conda-forge
libstdcxx-ng 9.3.0 h6de172a_18 conda-forge
libtiff 4.1.0 hc3755c2_3 conda-forge
libuuid 2.32.1 h7f98852_1000 conda-forge
libuv 1.41.0 h7f98852_0 conda-forge
libx11-common-cos6-x86_64 1.6.4 h9d98e8f_1104 conda-forge
libx11-cos6-x86_64 1.6.4 h9d98e8f_1104 conda-forge
libx11-devel-cos6-x86_64 1.6.4 h9d98e8f_1104 conda-forge
libxcb 1.13 h7f98852_1003 conda-forge
libxext-cos6-x86_64 1.3.3 h9d98e8f_1104 conda-forge
libxext-devel-cos6-x86_64 1.3.3 h9d98e8f_1104 conda-forge
libxkbcommon 0.10.0 he1b5a44_0 conda-forge
libxml2 2.9.10 h68273f3_2 conda-forge
libxslt 1.1.33 hf705e74_1 conda-forge
libxt-cos6-x86_64 1.1.4 h9d98e8f_1104 conda-forge
libxt-devel-cos6-x86_64 1.1.4 h9d98e8f_1104 conda-forge
livereload 2.6.3 pyh9f0ad1d_0 conda-forge
lxml 4.6.2 py37h77fd288_1 conda-forge
lz4-c 1.8.3 he1b5a44_1001 conda-forge
mako 1.1.4 pyh44b312d_0 conda-forge
markupsafe 1.1.1 py37h5e8e339_3 conda-forge
matplotlib 3.3.4 py37h89c1867_0 conda-forge
matplotlib-base 3.3.4 py37h0c9df89_0 conda-forge
mesa-dri-drivers-cos6-x86_64 11.0.7 h9d98e8f_1104 conda-forge
mesa-dri1-drivers-cos6-x86_64 7.11 h9d98e8f_1104 conda-forge
mesa-libgl-cos6-x86_64 11.0.7 h9d98e8f_1104 conda-forge
mesa-libgl-devel-cos6-x86_64 11.0.7 h9d98e8f_1104 conda-forge
mesalib 18.3.1 h590aaf7_0 conda-forge
mock 4.0.3 py37h89c1867_1 conda-forge
moose-libmesh 2021.02.15 build_0 idaholab
moose-libmesh-vtk 6.3.0 build_5 idaholab
moose-mpich 3.3.2 build_5 idaholab
moose-petsc 3.14.2 build_4 idaholab
moose-tools 2021.01.06 py_0 idaholab
mpi 1.0 mpich conda-forge
mysql-common 8.0.21 0 conda-forge
mysql-libs 8.0.21 h43e1182_0 conda-forge
ncurses 6.2 h58526e2_4 conda-forge
networkx 2.5 py_0 conda-forge
nspr 4.29 h9c3ff4c_1 conda-forge
nss 3.62 hb5efdd6_0 conda-forge
numpy 1.20.1 py37haa41c4c_0 conda-forge
olefile 0.46 pyh9f0ad1d_1 conda-forge
openssl 1.1.1j h7f98852_0 conda-forge
pandas 1.2.3 py37hdc94413_0 conda-forge
pcre 8.44 he1b5a44_0 conda-forge
pillow 8.1.0 py37he6b4880_1 conda-forge
pip 21.0.1 pyhd8ed1ab_0 conda-forge
pkg-config 0.29.2 h36c2ea0_1008 conda-forge
pthread-stubs 0.4 h36c2ea0_1001 conda-forge
pybtex 0.24.0 py37h89c1867_0 conda-forge
pylatexenc 2.9 pyhd8ed1ab_0 conda-forge
pyparsing 2.4.7 pyh9f0ad1d_0 conda-forge
pyqt 5.12.3 py37h89c1867_7 conda-forge
pyqt-impl 5.12.3 py37he336c9b_7 conda-forge
pyqt5-sip 4.19.18 py37hcd2ae1e_7 conda-forge
pyqtchart 5.12 py37he336c9b_7 conda-forge
pyqtwebengine 5.12.1 py37he336c9b_7 conda-forge
python 3.7.8 h8bdb77d_2_cpython conda-forge
python-dateutil 2.8.1 py_0 conda-forge
python_abi 3.7 1_cp37m conda-forge
pytz 2021.1 pyhd8ed1ab_0 conda-forge
pywavelets 1.1.1 py37h902c9e0_3 conda-forge
pyyaml 5.4.1 py37h5e8e339_0 conda-forge
qt 5.12.9 h1f2b2cb_0 conda-forge
readline 8.0 he28a2e2_2 conda-forge
rhash 1.4.1 h7f98852_0 conda-forge
scikit-image 0.17.2 py37hdc94413_4 conda-forge
scipy 1.6.0 py37h14a347d_0 conda-forge
setuptools 49.6.0 py37h89c1867_3 conda-forge
six 1.15.0 pyh9f0ad1d_0 conda-forge
soupsieve 2.0.1 py_1 conda-forge
sqlite 3.34.0 h74cdb3f_0 conda-forge
sysroot_linux-64 2.12 h77966d4_13 conda-forge
tbb 2020.2 h4bd325d_4 conda-forge
tifffile 2020.6.3 py_0 conda-forge
tk 8.6.10 h21135ba_1 conda-forge
toolz 0.11.1 py_0 conda-forge
tornado 6.1 py37h5e8e339_1 conda-forge
vtk 8.2.0 py37hfdee58b_203 conda-forge
wheel 0.36.2 pyhd3deb0d_0 conda-forge
xorg-kbproto 1.0.7 h7f98852_1002 conda-forge
xorg-libice 1.0.10 h7f98852_0 conda-forge
xorg-libsm 1.2.3 hd9c2040_1000 conda-forge
xorg-libx11 1.7.0 h7f98852_0 conda-forge
xorg-libxau 1.0.9 h7f98852_0 conda-forge
xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge
xorg-libxt 1.2.1 h7f98852_2 conda-forge
xorg-x11-proto-devel-cos6-x86_64 7.7 h9d98e8f_1104 conda-forge
xorg-xproto 7.0.31 h7f98852_1007 conda-forge
xz 5.2.5 h516909a_1 conda-forge
yaml 0.2.5 h516909a_0 conda-forge
zlib 1.2.11 h516909a_1010 conda-forge
zstd 1.4.4 h3b9ef0a_2 conda-forge

(moose) atoghraee@ME-DESKTOP102:~/projects02/moose/test$ which python
/home/atoghraee/miniconda3/envs/moose/bin/python

(moose) atoghraee@ME-DESKTOP102:~/projects02/moose/test$ module list
No Modulefiles Currently Loaded.

[Ali-toghraee]

So , I did the "make" to create combined-opt in the "combined" modules.
however when did the tests I faced the same problem. Does this mean I cannot run my input files (simulations) in the combined module?

[Ali-toghraee]

Hello again, I am trying to run my input files using the combined-opt, I open my input file folder in a terminal and run it but I get the following error.

(base) atoghraee@ME-DESKTOP102:/projects02/ox_poly$ conda activate moose
(moose) atoghraee@ME-DESKTOP102:/projects02/ox_poly$ mpiexec -np 88 /home/atoghraee/projects02/moose/modules/combined/combined-opt -i fun05_absM_m8000_df.i
/home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/combined/test/lib/libcombined_test-opt.so.0) /home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/combined/lib/libcombined-opt.so.0)
/home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/framework/libmoose-opt.so.0) /home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/chemical_reactions/test/lib/libchemical_reactions_test-opt.so.0)
/home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/fluid_properties/test/lib/libfluid_properties_test-opt.so.0) /home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/ray_tracing/test/lib/libray_tracing_test-opt.so.0)
/home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/heat_conduction/test/lib/libheat_conduction_test-opt.so.0) /home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/level_set/test/lib/liblevel_set_test-opt.so.0)
/home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/misc/test/lib/libmisc_test-opt.so.0) /home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/rdg/test/lib/librdg_test-opt.so.0)
/home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/navier_stokes/test/lib/libnavier_stokes_test-opt.so.0) /home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/tensor_mechanics/test/lib/libtensor_mechanics_test-opt.so.0)
/home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/peridynamics/test/lib/libperidynamics_test-opt.so.0) /home/atoghraee/projects02/moose/modules/combined/combined-opt: /opt/moose/gcc-7.3.0/lib64/libstdc++.so.6: version GLIBCXX_3.4.26' not found (required by /home/atoghraee/projects02/moose/modules/phase_field/test/lib/libphase_field_test-opt.so.0)

. . .

[milljm]

@Ali-toghraee please create a new issue. The original poster has marked this entire thread as answered, and your latest posted error has nothing to do with "Failed to import pyhit".

[Ali-toghraee]

Sure Milljm