Ben Sherman
Ben Sherman
See this Slack thread: https://nextflow.slack.com/archives/C02T98A23U7/p1662981608103629 It would be nice for the `dag` config scope to have a `verbose` option to control whether extra details like channel names and operators are...
The nextflow-api docker image currently uses ubuntu as the base, which partly contributes to its ~3GB size. We should try to find a more optimized image, such as something based...
The developers of nextflow have also been working on a monitoring system called nextflow tower: https://github.com/seqeralabs/nf-tower I think there is some overlap with our nextflow api but I'm not sure...
This PR reorganizes the docs in a number of ways: - reorganize manual pages into "Running pipelines" and "Developing pipelines" to be more aligned with the user journey - separate...
Spun off from https://github.com/nextflow-io/nextflow/issues/4042#issuecomment-1875924234 Currently, the `publishDir` directive is used to define "workflow outputs". It is a "push" model in which individual processes are responsible for deciding which of their...
Close #3460 This PR saves the built-in reports as Tower reports by inspecting the Nextflow config. If a report is enabled, it will be eagerly sent to the reports file...
We recently added some logic to handle Fusion symlinks, which happen when an input file is included in a published output. We use the `.fusion.symlinks` file to detect and resolve...
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...
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...
Close #2723 This PR explores one possible solution to the config overhaul by implementing a custom parser for config files, using a similar approach as #4613. The linked issue initially...