fix: runDLKcat if path has spaces #352
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mihai-sysbio
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Aug 24, 2023
edkerk
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Dec 2, 2023
* fix: loadDatabases check for duplicate protIDs (#349) * fix: prevent NaN in light ecModels (#346) * fix: calculateFfactor if paxDB has taxID !4 chars (#347) * fix: runDLKcat if path has spaces (#352) * refactor: FSEOF (#356) * fix: FSEOF to 0.9 of teorethical max prod * refactor: switch force objetive to target * fix: remove unnecesary function * fix: update input arguments * fix: temporal solution k-score * refactor: FSEOF * feat: add gene essentiality to FSEOF * fix: file writing * feat: add cutoff based on quantile * feat: report target transport reactions * refactor: add cutoff for essentiality * fix: bug identifying gene essentiality * doc: move installations instructions to wiki (#357) * move installation instructions to wiki * GECKOInstaller checks for latest GECKO version * fix: prevent duplications in protein pseudometabolites * minor fixes * doc: update documentation * doc: swap gitter for GitHub Discussions * fix: correct link to upgrade instructions * fix: synchronize STEP numbers protocol and paper --------- Co-authored-by: Albert Tafur Rangel <[email protected]>
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Main improvements in this PR:
runDLKcatcorrectly handlesparam.pathif the folder name has spaces (solves error: DLKcat Docker invalid reference format error #351)Instructions on merging this PR:
developas target branch, and will be resolved with a squash-merge.mainas target branch, and will be resolved with a merge commit.