List of the mains changes that can have an impact for the rest of pipelines developers:
nextflow schema
outdir has not default now
The singularity_cache_dir parameter is removed since it is better to have it as an environmental variable, this way shared images between pipelines won't be downloaded twice.
The check_max functions is removed as with the new version of nextflow this is no longer needed.
The deepmodeloptim is now the only main workflow (under $projectDir/workflows)
The previous workflows have been refactored as subworkflows to use the nf-core structure $projectDir/subworkflow/subworkflow_name/main.nf and the dependent code has also been fixed (e.g. includes).
List of the mains changes that can have an impact for the rest of pipelines developers:
singularity_cache_dir
parameter is removed since it is better to have it as an environmental variable, this way shared images between pipelines won't be downloaded twice.check_max
functions is removed as with the new version of nextflow this is no longer needed.deepmodeloptim
is now the only main workflow (under$projectDir/workflows
)$projectDir/subworkflow/subworkflow_name/main.nf
and the dependent code has also been fixed (e.g.include
s).