Closed
Description
We can run nf-core download <pipeline> --singularity to fetch the pipeline files and singularity image.
The code nicely edits the pipeline nextflow.config file so that the custom configs path is relative to the pipeline code for the institutional configs. However, this is not done for the singularity path, so the user still has to use -with-singularity to specify the location for these images.
It would be nice if the tool could edit the configs somehow so that the singularity image is automatically found with just -profile singularity.
Could potentially do this with process.container, or maybe be more clever & generic by setting the singularity cache directory path or something?