Mercurial > repos > bimib > cobraxy
changeset 513:b02cfa3b36dd draft default tip
Uploaded
| author | francesco_lapi |
|---|---|
| date | Wed, 08 Oct 2025 13:01:47 +0000 |
| parents | f32d3c9089fc |
| children | |
| files | COBRAxy/ras_generator.py |
| diffstat | 1 files changed, 8 insertions(+), 2 deletions(-) [+] |
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--- a/COBRAxy/ras_generator.py Wed Oct 08 12:05:27 2025 +0000 +++ b/COBRAxy/ras_generator.py Wed Oct 08 13:01:47 2025 +0000 @@ -309,9 +309,15 @@ if any(dataset.index.duplicated(keep=False)): genes_duplicates=orig_gene_list[dataset.index.duplicated(keep=False)] genes_duplicates_in_model=[elem for elem in genes_duplicates if elem in rules_total_string] + if len(genes_duplicates_in_model)>0:#metabolic genes have duplicated entries in the dataset list_str=", ".join(genes_duplicates_in_model) - raise ValueError(f"ERROR: Duplicate entries in the gene dataset present in one or more GPR. The following metabolic genes are duplicated: "+list_str) + list_genes=f"ERROR: Duplicate entries in the gene dataset present in one or more GPR. The following metabolic genes are duplicated: "+list_str + raise ValueError(list_genes) + else: + list_str=", ".join(genes_duplicates) + list_genes=f"INFO: Duplicate entries in the gene dataset. The following genes are duplicated in the dataset but not mentioned in the GPRs: "+list_str + utils.logWarning(list_genes,ARGS.out_log) #check if nan value must be ignored in the GPR if ARGS.none: @@ -335,7 +341,7 @@ if len(genes_not_mapped)>0: genes_not_mapped_str=", ".join(genes_not_mapped) utils.logWarning( - f"The following genes are mentioned in the GPR rules but don't appear in the dataset: "+genes_not_mapped_str, + f"INFO: The following genes are mentioned in the GPR rules but don't appear in the dataset: "+genes_not_mapped_str, ARGS.out_log) print("Execution succeeded")