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### Is there an existing issue for this?
- [X] I have searched the existing issues
### Description of the Bug/Issue
Using a locally-installed instance of [nf-flu v3.5.1 release f18f8ce](https://git…
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### Description of the bug
Hello,
I am trying to run GSEA but I get an error when trying to process the GMT file I obtained from MSigDB.
Previously, I have executed the pipeline without the G…
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The nf-core pipeline template uses a [custom timestamp](https://github.com/nf-core/tools/blob/7785b4cd8d3ce1321832e1a7ae4f2874509e31f4/nf_core/pipeline-template/nextflow.config#L243-L259) in the vario…
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### Description of the bug
Hello,
I am running the "standard" pipeline with many variant callers, but suddenly got an error with Mutect2. The same command has worked previously for me for before. …
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### Description of the bug
I am trying to programmatically get the list of all containers in the pipeline. However the standard command `nextflow inspect` does not seem to work, even if you tell it t…
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Nextflow `24.02.0-edge` brings with it two new features which should give much cleaner syntax for collecting tool versions: channel topics using `topic` (see https://github.com/nf-core/modules/issues/…
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## Bug report
### Expected behavior and actual behavior
I mention both `pull` and `run` because that is how I found the bug, but I confirmed it with just `pull`.
Expected:
Calling `nextflo…
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Hi,
thanks for the great pipeline for deepinterpolation. I am trying to get it running on local PC.
my .config file is so-
> workDir = '/home/user/tmp'
>
> docker {
> enabled = true…
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Hi!
I'm having some issues with setting up some tests using the setup method. Working from the examples in the documentation, I've nailed it down to the following minimal reproducible examples (I'm…
Aratz updated
1 month ago
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Hello EGAP Team,
I encountered this error while trying to run the EGAPx pipeline on a sheep genome (~2.8GB) and it pertains to an inability to write to a location.
"mktemp: failed to create di…