Open stevekm opened 1 month ago
I'd recommend adding -profile test,docker
. This will solve at least the --input
parameter and will ensure that nextflow inspect
returns you docker images. This is the default, but there is no harm in being explicit.
Almost all nf-core workflows will only then require --outdir
which you can set to an arbitrary directory that can be deleted afterwards.
What is the ignore-errors
parameter? I don't think I've seen that before.
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 to ignore errors.Any ideas how to fix this? Ideally in a manner that will work for all pipelines, and not just
scrnaseq
, since I will be using the same method to get the list of containers from all pipelines running in the Nextflow Tower instance.@robsyme you might be interested in this one also
Command used and terminal output
No response
Relevant files
No response
System information
nextflow version 24.04.2.5914