I am trying to run rnaseq pipeline via tower: nextflow run 'https://github.com/nf-core/rnaseq' -name voluminous_joliot -params-file 'https://api.tower.nf/ephemeral/POavQ6D1KNKRnyJy4T0zXA.json' -with-tower -r 3.9 -profile singularity but it is failing wi…

Aha, so the same problem as was previously reported! [image] ewels: got as far as identifying an error with Windows line-endings within the pipeline source code How odd. Ok, well glad it’s working - thanks for letting us know :pray:

Env: can't execute 'perl

Ask for help

animesh (fuzzyLife) January 23, 2024, 3:41pm 11

Running it via seqera/ tower web ui Seqera Cloud

Issue running bash with Jellyfish container

Topic		Replies	Views
Singularity error in downloaded pipeline Ask for help nf-core , singularity , seqera-containers	5	118	September 27, 2025
Apptainer and nextflow Ask for help apptainer , singularity	4	676	April 11, 2024
Cutandrun pipeline help :( Ask for help nextflow , nf-core	7	376	April 22, 2024
Issues running available singularity container with Nextflow Ask for help singularity	6	521	April 8, 2024
Starting Nextflow in a singularity container and use it to run another singularity container Ask for help nextflow , nf-core	0	142	July 12, 2024

Env: can't execute 'perl

Related topics