diff --git a/CHANGELOG.md b/CHANGELOG.md index 69a57b1ff00e52c84a18973f18cb7d34219bec7d..9a546718279bc853ad32fff24257e442cda43271 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -11,7 +11,8 @@ that users understand how the changes affect the new version. version 4.0.0-develop --------------------------- -+ TALON: Update `FilterTalonTranscripts` to new version. ++ TALON: Update `FilterTalonTranscripts` to new version, which removes the + pairingsFile and replaces this with datasetsFile. + TALON: Add `GetSpliceJunctions` & `LabelReads` tasks. + TALON: Update to version 5.0. + Add tasks for pbmm2, the PacBio wrapper for minimap2. diff --git a/talon.wdl b/talon.wdl index c70850dcf043d0276b0f2fc84683c669fbc84c5d..87fc407d8eb6fe2e74ca2a1910c661904a9c459a 100644 --- a/talon.wdl +++ b/talon.wdl @@ -280,7 +280,7 @@ task GetSpliceJunctions { SJinformationFile: {description: "TALON GTF file or database from which to extract exons/introns.", category: "required"} inputFileType: {description: "The file type of SJinformationFile.", category: "required"} referenceGTF: {description: "GTF reference file (ie GENCODE).", category: "required"} - runMode: {description: "Determines whether to include introns or exons in the output.", category: "required"} + runMode: {description: "Determines whether to include introns or exons in the output.", category: "common"} outputPrefix: {description: "Output directory path + output file prefix.", category: "required"} memory: {description: "The amount of memory available to the job.", category: "advanced"} timeMinutes: {description: "The maximum amount of time the job will run in minutes.", category: "advanced"}