Make sample name cleaning regex configurable

[ewels]

A bunch of steps in the pipeline attempt to clean off common filename suffixes to give nicer sample names, eg:

smrnaseq/main.nf

Line 428 in a115116

prefix = reads.toString() - ~/(.R1)?(_R1)?(_trimmed)?(\.fq)?(\.fastq)?(\.gz)?$/

1. (.R1)? should probably be (\.R1)? as the . alone is a wildcard matching any character
2. This regex should be kept as a params variable to avoid repeating, and to make it configurable by the end user if it's having an undesirable effect.

[atrigila]

The code has undergone significant changes since this issue was raised, and this specific line no longer exists. Additionally, the regex configuration is now handled via MultiQC :)

[apeltzer]

Issue from 2021 closed 👌🙏