JaponicusDB2UniProt

[mah11]

Is there a file equivalent to PomBase2UniProt.tsv, or a plan to produce one?

I thought of asking so I know whether to make the link on the names-and-identifiers page PomBase-specific (per #3), but it seems like a good file to produce.

[ValWood]

Seems like a good plan to produce...

[mah11]

related: also produce allNames.tsv and maybe pseudogeneIDs.tsv (is the latter relevant for S.j.?)

and some other files in other data/subdirectories listed in https://github.com/japonicusdb/japonicus-config/issues/78#issuecomment-912640639

[kimrutherford]

Is there a file equivalent to PomBase2UniProt.tsv, or a plan to produce one?

I've changed the nightly script to copy the uniprot mapping file to https://www.japonicusdb.org/data/names_and_identifiers/JaponicusDB2UniProt.tsv

I'll check that tomorrow.

related: also produce allNames.tsv and maybe pseudogeneIDs.tsv (is the latter relevant for S.j.?)

Could you point me to allNames.tsv for pombe? I can't find it.

[mah11]

Could you point me to allNames.tsv for pombe? I can't find it.

On the web it winds up at https://www.pombase.org/data/names_and_identifiers/allNames.tsv

But it's not in pombe-embl/ftp_site/pombe/names_and_identifiers/, so I don't know how it comes into existence. It does have a current date/time stamp ...

[kimrutherford]

On the web it winds up at https://www.pombase.org/data/names_and_identifiers/allNames.tsv

I've worked this out. This file is just a symbolic link to: https://www.pombase.org/data/names_and_identifiers/gene_IDs_names.tsv

I've now created the same link for japonicus: https://www.japonicusdb.org/data/names_and_identifiers/allNames.tsv

[mah11]

I'm not sure whether I forgot that, or never knew it in the first place. Yay, though :)

[kimrutherford]

I think this is done now.