v3.1.1#269
Merged
williamrowell merged 7 commits intomainfrom Nov 20, 2025
Merged
Conversation
* bump: Update StarPhase to v1.5.0
* fix: Sawfish output delocalization on GCP - GCP delocalization script fails to delocalize sample-specific outputs using `read_lines()` (e.g. `Array[File] copynum_bedgraph`), but the task succeeds without errors, making this bug difficult to track - We don't want to use `glob()`, because it wouldn't necessarily maintain the sample order. - This patch generates the sample-specific output names as strings in advance and provides these to `sawfish_call` as an input. Closes #263 broadinstitute/cromwell#5592
* bump: Update to Paraphase 3.4.0
* bump: Update Sawfish to v2.2.1
* bump: Update StarPhase to v2.0.0
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
2 participants
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
CHANGELOG