Closed NickAkhmetov closed 8 months ago
I rolled back my previous attempt to solve CI build issues in portal-containers:
urllib
broke in CI due to old version of opensslTypeError: expected unicode string, found b'TCG'
I did figure out a safer way to set marker genes without triggering pandas warnings about setting data on a copy:
adata.obs.loc[adata.obs["leiden"] == cluster, f"marker_gene_{str(i)}"] = marker_gene
I've rolled back to before the miniconda change and will try tackling this issue without upgrading the Python version.
This PR makes the
scvelo_annotated.h5ad
file optional by continuing iteration over the file name list if the file does not exist.In order to fix CI, the travis config has been set to use a newer version of Ubuntu (
focal
), as the default (xenial
) shipped with an outdated version ofopenssl
which causedurllib3
to throw errors.