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## Bug report
`nextflow inspect nf-core/rnaseq` fails with error:
```
The following invalid input values have been detected:
You used a core Nextflow option with two hyphens: '--cache'. Ple…
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### Description of the bug
Conda related problems.
Please use the latest image quay.io/sanger-tol/pretext:0.0.2-yy5-c4 in the following 3 modules:
https://github.com/search?q=repo%3Asanger-tol%2Fcu…
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```
./nextflow run nf-core/fetchngs -plugins nf-quilt -profile test,docker --input ../nf-quilt/wf/ids.csv --outdir s3://quilt-ernest-staging/nf-quilt/fetchngs
cat ../nf-quilt/wf/ids.csv
SRR99841…
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### Description of the bug
I created a custom pipeline with nf-core tools with minimal features and tried linting it. There were some issues with tests which were easy to fix, however, prettier fails…
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### Description of the bug
Hi,
I encountered an issue while running the pipeline with data generated using the nf-core/RNAseq pipeline. Specifically, when attempting to run the gprofiler analysis wi…
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### Description of the bug
Conda related problems.
Please use the latest image `quay.io/sanger-tol/pretext:0.0.2-yy5-c4` in the following 3 moudles:
https://github.com/search?q=repo%3Asanger-tol%2F…
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### Description of feature
https://github.com/nf-core/genomeannotator/tree/dev/modules/local/augustus
Secondary option for eukaryote genome mode (low priority to implement)
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Shelly Wanamaker
Yesterday at 1:31 PM
@kubu4 do we have access to `ckpt`? i think my scripts are trying to use those available resources before using srlab resources, but I don't think it is actu…
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We need to review what https://nf-co.re/sarek can do to determine:
- if it could be used as is
- if it could be used with modifications
- if we'd rather extract and replicate some functionality h…
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### Description of the bug
Specifying indices should work as expected from a nf-core pipeline, i.e.
* igenomes should be respected
* it shall be possible to specify pre-computed indices and they sh…