Import breaks for Benchmark Model about amici

[jvanhoefer]

The full error message reads:

2023-06-18 16:20:25.717 - amici.de_export - DEBUG - Finished compiling cpp code + (2.79E+01s)
Traceback (most recent call last):
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/site-packages/IPython/core/interactiveshell.py", line 3251, in run_code
exec(code_obj, self.user_global_ns, self.user_ns)
File "", line 4, in
problem_benchmark_collection = importer_benchmark_collection.create_problem()
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/site-packages/pypesto/petab/importer.py", line 679, in create_problem
objective = self.create_objective(**kwargs)
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/site-packages/pypesto/petab/importer.py", line 413, in create_objective
model = self.create_model(force_compile=force_compile)
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/site-packages/pypesto/petab/importer.py", line 279, in create_model
self.compile_model(**kwargs)
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/site-packages/pypesto/petab/importer.py", line 345, in compile_model
amici.petab_import.import_model(
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/site-packages/amici/logging.py", line 198, in wrapper_timer
rval = func(*args, **kwargs)
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/site-packages/amici/petab_import.py", line 707, in import_model_sbml
model_module = amici.import_model_module(model_name, model_output_dir)
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/site-packages/amici/init.py", line 187, in import_model_module
return importlib.import_module(module_name)
File "/Library/Frameworks/Python.framework/Versions/3.10/lib/python3.10/importlib/init.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
File "", line 1050, in _gcd_import
File "", line 1027, in _find_and_load
File "", line 1006, in _find_and_load_unlocked
File "", line 688, in _load_unlocked
File "", line 883, in exec_module
File "", line 241, in _call_with_frames_removed
File "/Users/jvanhoefer/Dokumente/PhD/Projects/Temporal Uncertainties/amici_models/Brannmark_JBC2010/Brannmark_JBC2010/init.py", line 17, in
from .Brannmark_JBC2010 import *
File "/Applications/PyCharm Edu.app/Contents/plugins/python-ce/helpers/pydev/_pydev_bundle/pydev_import_hook.py", line 21, in do_import
module = self._system_import(name, *args, **kwargs)
File "/Users/jvanhoefer/Dokumente/PhD/Projects/Temporal Uncertainties/amici_models/Brannmark_JBC2010/Brannmark_JBC2010/Brannmark_JBC2010.py", line 13, in
from . import _Brannmark_JBC2010
ImportError: cannot import name '_Brannmark_JBC2010' from partially initialized module 'Brannmark_JBC2010' (most likely due to a circular import) (/Users/jvanhoefer/Dokumente/PhD/Projects/Temporal Uncertainties/amici_models/Brannmark_JBC2010/Brannmark_JBC2010/init.py)

[jvanhoefer]

downgrading to 16.0 resolved the problem for the moment...

[dweindl]

Hi @jvanhoefer, can you please try manually deleting /Users/jvanhoefer/Dokumente/PhD/Projects/Temporal Uncertainties/amici_models/Brannmark_JBC2010/ before importing the model and see if it works then?

[dweindl]

Assuming this works now.