nf-core
Approved pipelines fail using test data using `test,docker`
A number of "Approved" pipelines in nf-core/pipelines fail.
These are pipelines run using Nextflow 24.10.5 using the following:
nextflow run nf-core/<pipeline> -r <version> -profile test,docker --outdir test
The "Approved" pipelines (ranked by stars) and versions that fail to complete are:
| Pipeline | Version | Details |
|---|---|---|
| rnafusion | 3.0.2 | ERROR ~ Error executing process > 'NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (test)' |
| funcscan | 2.0.0 | ERROR ~ Error executing process > 'NFCORE_FUNCSCAN:FUNCSCAN:AMP:DRAMP_DOWNLOAD' |
| bactmap | 1.0.0 | ERROR ~ Cannot get property 'args' on null object |
| rnavar | 1.0.0 | ERROR ~ Error executing process > 'NFCORE_RNAVAR:RNAVAR:ALIGN_STAR:STAR_ALIGN (GM12878)' |
| mhcquant | 2.6.0 | ERROR ~ Error executing process > 'NFCORE_MHCQUANT:MHCQUANT:MS2RESCORE (HepG2_A)' |
Couldn't reproduce error for methylseq, the pipeline succeeds. Leaving it open for now in case someone provides more details https://github.com/nf-core/methylseq/issues/512
Couldn't reproduce error for
methylseq, the pipeline succeeds. Leaving it open for now in case someone provides more details nf-core/methylseq#512
Yes, you're correct, the pipeline succeeded. Failed at MULTIQC step for me, but I know why, it's a local issue not an actual problem with the pipeline. I will remove it from the list.