Skip to content

GECKO 3.2.0
Compare
Choose a tag to compare
@edkerk edkerk released this 27 May 12:33
· 8 commits to main since this release
v3.2.0
72897f4
This commit was created on GitHub.com and signed with GitHub’s verified signature.
GPG key ID: B5690EEEBB952194
Learn about vigilant mode.
  • Fixes:
    • ⚠️ specify RAVEN 2.9.2 as dependency, and provide more detailed instructions on how to upgrade
    • loadDatabases clarifies what to do if download from UniProt fails
    • calculateFfactor sometimes failed to properly read paxDB.tsv files
    • runDLKcat should parse params.path as absolute paths to docker #378
    • applyKcatConstraints can handle when all kcat are zero
    • getStandardKcat should also assign standard kcat values for reactions that do have a non-empty grRules field, but are not in model.ec due to the genes not matching any of the enzymes in the uniprot.tsv file
    • calculateFfactor can take protData input
    • enzymeUsage correct mention of output units #376
    • updateProtPool is made obsolete #375
  • Features:
    • ⚠️ keep protein usage reaction draw from protein pool when proteomics is integrated #375
    • new removeStandardKcat function removes all traces of getStandardKcat having modified a model
  • Chores:
    • update dependencies in GitHub Actions
Assets 2
Loading