Error running Reentry induction protocols example in Docker container: protocol PSD
Summary
I have just run the Docker container of openCARP, I have no installed or modified anything in the container, when I am trying to run the Reentry induction protocol located in the folder /openCARP/external/experiments/tutorials/02_EP_tissue/21_reentry_induction, using the command
./run.py --np 2 --protocol PSD
What version of carputils and/or openCARP are you using?
carputils and/or openCARP version installed in Docker container pulled on 16/jan/2022
What operating system and processor architecture are you using?
Docker container pulled on 16/jan/2022 from opencarp.org
Steps to reproduce
- Run the Docker container
- move to
/openCARP/external/experiments/tutorials/02_EP_tissue/21_reentry_induction
- run the command
./run.py --np 2 --protocol PSD
What is the current bug behavior?
[mpiexec@7bfd652a2bd2] HYDU_create_process (utils/launch/launch.c:74): execvp error on file /usr/local/bin/hydra_pmi_proxy (No such file or directory)
[mpiexec@7bfd652a2bd2] HYD_pmcd_pmiserv_proxy_init_cb (pm/pmiserv/pmiserv_cb.c:448): assert (!closed) failed
[mpiexec@7bfd652a2bd2] HYDT_dmxu_poll_wait_for_event (tools/demux/demux_poll.c:77): callback returned error status
[mpiexec@7bfd652a2bd2] HYD_pmci_wait_for_completion (pm/pmiserv/pmiserv_pmci.c:196): error waiting for event
[mpiexec@7bfd652a2bd2] main (ui/mpich/mpiexec.c:336): process manager error waiting for completion
OpenMP thread utilization: 8 / 8 threads.
Reading mesh: 2022-01-16_PSD/block_i
Error: could not open 2022-01-16_PSD/block_i.elem for reading! Reason:
No such file or directory
An IO error occured when opening file 2022-01-16_PSD/block_i.elem:
No such file or directory
Traceback (most recent call last):
File "./run.py", line 730, in <module>
run()
File "/usr/local/lib/python3.6/dist-packages/carputils/tools.py", line 528, in wrapped
ret = run(args, job)
File "./run.py", line 555, in run
xyz = np.loadtxt('endo/endo.surfmesh.pts', skiprows=1)
File "/usr/local/lib/python3.6/dist-packages/numpy/lib/npyio.py", line 961, in loadtxt
fh = np.lib._datasource.open(fname, 'rt', encoding=encoding)
File "/usr/local/lib/python3.6/dist-packages/numpy/lib/_datasource.py", line 195, in open
return ds.open(path, mode, encoding=encoding, newline=newline)
File "/usr/local/lib/python3.6/dist-packages/numpy/lib/_datasource.py", line 535, in open
raise IOError("%s not found." % path)
OSError: endo/endo.surfmesh.pts not found.
What is the expected correct behavior?
No errors