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compomics / peptide-shaker

Interpretation of proteomics identification results
http://compomics.github.io/projects/peptide-shaker.html
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Gene ontology download runs for several minutes reporting errors on each file #471

Closed orsburn closed 2 years ago

orsburn commented 2 years ago

Hi CompOmics! Every file I open in PeptideShaker opens up with a long string of downloads from Ensembl that it can not complete. image Is it possible to deactivate it's search for these GO databases? Thanks! -ben

hbarsnes commented 2 years ago

Hi Ben,

Yes, you can turn this off in the identification settings. Open the identification settings by clicking the Edit button next to them in the New Project dialog, then click "Show Advanced Settings", open the "Gene Annotation" option and select "No" for both options.

Best regards, Harald

orsburn commented 2 years ago

Hmmm....I don't see that listed as an option in either Peptide Shaker or SearchGUI under the advanced settings on the Windows GUI. I'll keep digging for it. Thanks for getting back to me!

hbarsnes commented 2 years ago

Unless you are using very old versions of SearchGUI and PeptideShaker you should have these settings available as described above. I'm attaching a screenshot of where to locate them. You will find the parameters from the dialog in which you set the search parameters.

Identification Settings

hbarsnes commented 2 years ago

Issue assumed resolved. If this is not the case, please let us know and we'll reopen the issue.