"PubChem Compound" & "NCBI Nucleotide" unknown DataSource v66 (and before)

wikipathways / reactome2gpml-converter

Converts Reactome pathways to GPML format

Other

2 stars 5 forks source link

"PubChem Compound" & "NCBI Nucleotide" unknown DataSource v66 (and before) #60

Closed DeniseSl22 closed 6 years ago

DeniseSl22 commented 6 years ago

Another 2 exceptions, which I've seen for version 66 but also previous ones:

"java.lang.IllegalArgumentException : no DataSource known for PubChem Compound " & "java.lang.IllegalArgumentException : no DataSource known for NCBI Nucleotide "

Have to check out why the datasource annotation is not working in this case...

DeniseSl22 commented 6 years ago

After checking the BridgeDb system codes, I found:

Cpc | PubChem-compound & Np | NCBI Protein

Could it be that the nodes are not recognised, because there is a misspelling for Pubchem, and we don't map to NCBI Nucleotide?!