IndexError in amici/logging.py:wrapper_timer

[dweindl]

When using AMICI from within snakemake, I run into the following error:

IndexError: list index out of range

  File "/opt/hostedtoolcache/Python/3.8.6/x64/lib/python3.8/site-packages/amici/logging.py", line 186, in wrapper_timer
  File "/opt/hostedtoolcache/Python/3.8.6/x64/lib/python3.8/inspect.py", line 1491, in getouterframes
  File "/opt/hostedtoolcache/Python/3.8.6/x64/lib/python3.8/inspect.py", line 1465, in getframeinfo
  File "/opt/hostedtoolcache/Python/3.8.6/x64/lib/python3.8/inspect.py", line 840, in findsource

Not yet sure where the underlying problem comes from, but it effectively prevents using AMICI functions decorated with log_execution_time from within a snakemake workflow.

[FFroehlich]

I have been using amici withing snakemake for multiple years now. How are you calling amici?

[FFroehlich]

Probably happens when calling amici directly from snakemake. According to https://docs.python.org/3/library/inspect.html, return of inspect.currentframe() may differ across interpreters, so snakemake might be doing something funky there. Should probably sanity check the return before handing it off to inspect.getouterframes().

[dweindl]

How are you calling amici?

currently something in run: calls something that calls ... that calls amici. Trying to get to a minimal example, but not too successful yet.

[dweindl]

PS: yes, putting the run: block in a separate script would probably do the job. But I don't want that here :).

[dweindl]

Having a hard time getting to the source of the issue. The code context and the line numbers in inspect.findsource don't match up. #1348 fixes it, without impairing any other functionality.