py38 functional tests run forever

[anilbey]

The run step freezes after bluepymm.select_combos: test select_combos based on example simple1 test is executed.

Here is the last log produced, nothing else gets written after this log.

   bluepymm.select_combos: test select_combos based on example simple1 ... /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:379: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.
    ext_neurondb = ext_neurondb.append(emodel_ext_neurondb_rows)
  /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:381: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.
    megate_passed_all = megate_passed_all.append(
  /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:383: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.
    median_scores = median_scores.append(emodel_median_scores)
  /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:384: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.
    passed_combos = passed_combos.append(emodel_passed_combos)
  /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:379: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.
    ext_neurondb = ext_neurondb.append(emodel_ext_neurondb_rows)
  /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:381: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.
    megate_passed_all = megate_passed_all.append(
  /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:383: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.
    median_scores = median_scores.append(emodel_median_scores)
  /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:384: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.
    passed_combos = passed_combos.append(emodel_passed_combos)
  /home/runner/work/BluePyMM/BluePyMM/bluepymm/select_combos/reporting.py:313: UserWarning: Tight layout not applied. The bottom and top margins cannot be made large enough to accommodate all axes decorations.
    plt.tight_layout()
  ok

[wvangeit]

yeah, can we login on these github actions nodes?

[anilbey]

It is possible it seems. I haven't tried that before. I am busy with other tasks at the moment. I can look at it the next week.
https://github.com/marketplace/actions/debugging-with-ssh

[wvangeit]

Sure, no hurry

[anilbey]

#237 fixes this

[anilbey]

Update: #237 does not fix this. Github CI sometimes get stuck. It sometimes works when I manually restart it.
In 237 py3.9 was getting stuck. It worked after I restarted but are we to restart the jobs from time to time?

Is this problem bluepymm specific or does it happen in the other repos as well? @AurelienJaquier

If it's happening only in BluePyMM, ipyparallel engines might be the cause.

[AurelienJaquier]

I haven't seen this in other repos.