nextflow
nextflow copied to clipboard
A DSL for data-driven computational pipelines
This PR adds support for handling local copies of multiple revisions of the same pipeline. Key points: * Under `NXF_ASSETS`, each pipeline is now pulled as `/[:]` ; `:` is...
## Bug report When running nextflow with AWS Batch, nxf_s3_download() fails to identify an S3 directory as a directory and attempts to download it as a file (i.e. cp dir...
Close #3372 I just changed the publish dir to explicitly publish each file in a directory. I think it means that if the publish mode is symlink, each file in...
## New feature Currently, when Batch is used directly, the job name dictates the naming of the VMs created. For example, the VM name will be the job name appended...
## Bug report The current implementations of human-readable dates and times are ambiguous in terms of their timezone, and in the case of durations, difficult to properly parse. ### Expected...
This PR adds a custom parser for Nextflow scripts and uses it instead of the Groovy parser. The Nextflow parser is generated from an ANTLR grammar, which currently contains a...
## Bug report ![image](https://github.com/nextflow-io/nextflow/assets/3001850/98d289bf-305c-4b0f-8b9a-ef7aa2aca947) ### Expected behavior and actual behavior I expect the long name to be either trimmed or scrollable. Instead in actuality, it overflows into adjacent cells ###...
## New feature I would like to request a (static) config option, or perhaps a (dynamic) toggle in the interactive plotly figures to allow me to de-aggregate process resource reports...
## Bug report ### Expected behavior and actual behavior I'm testing running a workflow with the google cloud batch executor. The `$workDir` implicit variable seems to be an empty string...
This PR fixes support for target architecture `spackTarget` in the case of Wave Spack builds. Supersedes #4554 to only focus on Spack Arch and ditch Spack version.