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Description of changes
Technical details
There is a very strange error going on, occasionally in the Ubuntu 3.10 tests, and the Ubuntu 3.11 pre-release tests:
FAILED tests/preprocessing/test_highly_variable_features.py::test_highly_variable_features - ehrapy.io._read.IndexNotFoundError:
Could not create AnnData object while reading file /home/runner/work/ehrapy/ehrapy/ehrapy_data/dermatology.csv .
Does index_column named patient_id exist in /home/runner/work/ehrapy/ehrapy/ehrapy_data/dermatology.csv?
The error is related to the dermatology.csv file, read in here
Seems to work now again - everywhere. Close for now, hopefully no one will ever need to search for this, and if so, this PR with the posted error will pop up
PR Checklist
docs
is updatedDescription of changes
Technical details There is a very strange error going on, occasionally in the Ubuntu 3.10 tests, and the Ubuntu 3.11 pre-release tests:
The error is related to the dermatology.csv file, read in here
https://github.com/theislab/ehrapy/blob/0ee5c213541a07f0345100028a799b221f2690e5/ehrapy/data/_datasets.py#L330-L362
Quite flaky, only pops up sometimes when repeating the tests
Additional context