Mercurial > repos > ebi-gxa > decoupler_pathway_inference
changeset 6:1d140c4a5875 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit f6c6b8e014c99101232dc75aa972a12fc640a4de
| author | ebi-gxa |
|---|---|
| date | Fri, 25 Oct 2024 15:12:19 +0000 |
| parents | 87f1eaa410cc |
| children | 2c5686d627c0 |
| files | decoupler_pseudobulk.py |
| diffstat | 1 files changed, 8 insertions(+), 0 deletions(-) [+] |
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--- a/decoupler_pseudobulk.py Wed Oct 02 08:27:06 2024 +0000 +++ b/decoupler_pseudobulk.py Fri Oct 25 15:12:19 2024 +0000 @@ -503,6 +503,14 @@ for condition in conditions: # remove any starting or trailing whitespaces from condition condition = condition.strip() + if condition not in adata.obs[obs_field].unique(): + raise ValueError( + f"Condition '{condition}' from contrast {contrast}" + f" is not present in the " + f"obs_field '{obs_field}' from the AnnData object." + f"Possible values are: " + f"{', '.join(adata.obs[obs_field].unique())}." + ) # check the percentage of cells that express each gene # Filter the AnnData object based on the obs_field value adata_filtered = adata[adata.obs[obs_field] == condition]