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Set Content-Type to text/html for HTML file upload to S3 in publishDir directive

17

## New feature Currently, when using `publishDir` to send results to an `s3` destination, all of the files are getting the `Content-Type` set to `application/octet-stream`. This is fine for data...

birnbera

feature: nullable in input/output path

5

new feature to allow nonexisting paths in input and output parameters closes #2678 p.d. it has 2 tests ignored in `ScriptDslTest` because with them `ScriptRunnerTest` fails by Timeout but don't...

jorgeaguileraseqera

sort published files so common bioinformatics indexes are processed at the end.

2

Hi, this small PR is related to the following issue: https://github.com/nextflow-io/nextflow/issues/1489 When publishing a set of paths, reorder the files so the common indexes (TBI, BAI,CSI...) are copied at the...

lindenb

Document azcopy configs and centralize azure configs

2

This PR updates the Azure docs 1. For the new configs added via https://github.com/nextflow-io/nextflow/commit/3998a56b2b322f986e908b17ad41f8c2b52210a1 2. Consolidate the `azure advanced settings` within the central `Configuration` docs which list all scopes.

abhi18av

Save .command.log for k8s tasks

9

Resolves #2364 This PR updates the K8s task handler to always save `.command.log`. I also removed some code that saved the log for failed pods in a more roundabout way....

bentsherman

This PR includes a few general changes to K8s classes to improve readability. I might review the rest of the K8s code before making this PR ready to review. -...

bentsherman

Dirwatch deeper

8

A PR to address https://github.com/nextflow-io/nextflow/issues/2721. Three main changes to `DirWatcher` class: **Allow more complex paths** The first (and motivating) change was to increase the flexibility of the `Channel.watchPath` pattern to...

robsyme

[New Feature] Evaluate Closure for every input file

5

Until now, Nextflow evaluates Closures to stage multiple Inputfiles only once. Accordingly, it cannot produce individual staging names for different files in one Channel/one task. However, it might be helpful...

Lehmann-Fabian

Scipio extended error report

2

Hi, thank you very much for developing nexflow. At Scipio-bioscience we created this fork because we felt the need to have more precise errors report. For now this fork is...

mguinin

This PR adds two tests for yet not working cases. However, I was unable to fix them. The **first issu**e occurs if you define a method in a configuration file....

Lehmann-Fabian