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I would like to make `/bin/bash` configurable, either through setting an environment variable or through setting a configuration value. Would a PR for this be welcome? Is there anyone I should discuss…
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### Description of the bug
I have been able to successfully run the pipeline test
nextflow run nf-core/differentialabundance \
--outdir test \
-profile test,docker
Unfortunately, I remain u…
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At DNGC, we encountered the following problem when trying to run nf-core pipelines from nf-tower on a HPC with no internet:
```
Sep-26 12:44:13.682 [main] ERROR nextflow.cli.Launcher - @unknown
org…
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### Operating System
CentOS 7
### Other Linux
_No response_
### Workflow Version
wf-pore-c.sif the latest
### Workflow Execution
Command line (Cluster)
### Other workflow execution
_No resp…
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### Description of the bug
I am trying to run the scrnaseq nextflow workflow with the following error message:
ERROR ~ Error executing process > 'NFCORE_SCRNASEQ:SCRNASEQ:GTF_GENE_FILTER ([])'
…
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Hi
I am running RepeatMaker nextflow using a custom TE library on a genome assembly. All processes worked successfully unless the last process (combineRMAlignOutput) with the following error (I got …
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## Bug report
### Expected behavior and actual behavior
**Situation:**
When SLURM jobs are submitted by Nextflow to a SLURM node, sometimes the SLURM node fail to startup. This causes the SLU…
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So I have this regex written in Groovy, that gets all the FASTA files from a directory:
```
output = file(sample_dir).listFiles().findAll{ it.getName() =~ /${sample_name}.*\.f(?:ast)?[qa](?:\.gz)?/ …
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## Bug report
Nextflow with Azure batch appears to fail when reading from multiple containers. The files are reported by processes as not existing, and `.fusion.log` contains messages about 403 au…
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See Slack channel `#prettier-plugin-nextflow` for ideas..
ewels updated
4 months ago