find_nf_asset: Find a standard nextflow workflow output asset

In nf-osi/nfportalutils: NF Portal Utilities

Find a standard nextflow workflow output asset

Description

Note that samplesheets became part of the output only for newer versions of nf-core/rna-seq; older runs may not find samplesheets. Paths default to known working paths corresponding to the latest major workflow version, but this may change and may need to be updated as part of util maintenance.

Usage

find_nf_asset(
  syn_out,
  asset = c("software_versions", "multiqc_report", "samplesheet", "samtools_stats"),
  workflow = "rna-seq"
)

Arguments

syn_out	Id of top-level folder that corresponds to publishDir in a nextflow workflow.
asset	Name of asset to find.
workflow	Specify workflow, "rna-seq" or "sarek"; defaults to "rna-seq"

Value

Id of samplesheet.

nf-osi/nfportalutils documentation built on Feb. 26, 2024, 1:05 p.m.