markpanganiban

PublishDir step fails on push to S3 even though pipeline succeeds

4

## Bug report Reported by a user. I recently observed a run on Nextflow Tower that was reported to be completed successfully on platform, but the publish directory on S3...

## New feature `failOnError` is supported globally only under "strict" executation. The other restrictions of "strict" conflict with multiple configurations and purposeful undefined variables. Publishing files are critical functions and...

Partial matching behavior on tw pipelines command

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The pipeline subcommand will return an error when there are multiple matches with the pipeline name. Example below: ``` mark@LAPTOP-CURHNF2E:~/scripts/tw$ ./tw pipelines view -n 'mark-slurm' -w 'seqeralabs/testing' ERROR: Multiple pipelines...

Allow AWS Secrets to be used within IncludeConfig context

1

## Bug report As discussed with Ben, I tested this [PR](https://github.com/nextflow-io/nextflow/commit/00c9f226b201c964f67d520d0404342bc33cf61d) on Platform but the AWS Secrets are not being detected. Using slurm and local nextflow CLI, the secrets/pipeline secrets...

The following command fails when retrieving the stats of a failed run: ``` tw -v runs view -w wspace-id -i failed-wflow-id --stats ``` Output in verbose: ``` {"progress":{"workflowProgress":{"cpus":0,"cpuTime":0,"cpuLoad":0,"memoryRss":0,"memoryReq":0,"readBytes":0,"writeBytes":0,"volCtxSwitch":0,"invCtxSwitch":0,"cost":null,"loadTasks":0,"loadCpus":0,"loadMemory":0,"peakCpus":0,"peakTasks":0,"peakMemory":0,"executors":null,"dateCreated":"2024-04-17T12:03:05Z","lastUpdated":"2024-04-17T12:03:05Z","submitted":0,"succeeded":0,"running":0,"failed":0,"cached":0,"pending":0,"memoryEfficiency":0.0,"cpuEfficiency":0.0},"processesProgress":[]}} java.lang.NullPointerException at...

Added the trustStore password to readme

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Added instructions to use the trustStorePassword for users not using the default password.

When trying to update the pre-run script of a pipeline within the shared workspace, we get the null pointer exception error like below: ``` $ ./tw-0103 pipelines update --workspace 227623619488801...

Segfault with Linux binary tw version 0.9.3 on WSL

7

I see a segmentation fault error when using the Linux binary of tower-cli. Steps to replicate below: ``` $ ./tw info Segmentation fault (core dumped) $ uname -a Linux LAPTOP-CURHNF2E...

# Google Batch: Report actual zone where tasks execute in trace records ## New feature The Google Batch executor currently reports the configured **region** (e.g., `europe-west2`) in trace records rather...

1. Source your `TOWER_SERVER_URL`, `TOWER_ACCESS_TOKEN` and `TOWER_WORKSPACE_ID`. 2. Run `nextflow hello -with-tower` option ``` nextflow run hello -with-tower ``` 3. Run the `dump` command. ``` tw runs dump -i [workflow...