bambu version

update

…h existing nf-core modules

Update 3_1 dev meta

With the updated biocontainer for m6anet being built, can update
the singularity and docker container with the latest version.

This version changed how m6anet is called.  It has `m6anet` and
the analysis as a parameter (`inference`, `dataprep`) instead of
`m6anet-run_inference` and `m6anet-dataprep` commands.

There are now two files for output from `m6anet inference`, but
the existing output of '*' captures those.  In the future, might
be nice to specify these individually and emit them as separate
outputs for downstream analysis.

I updated the samplesheet to output the filename that was attempted
to be used when looking for the fastq file.  When running the
pipeline with multiple samples, I was unable to determine which
sample was causing the samplesheet error until I added this code.

…ewSE

Updated m6anet to 2.0.2

…ewSE_samplesheet

Samplesheet error message updated with more useful information if fastq can't be found.

…-core/multiqc

fixing nf-core lint errors

Add draft dorado demultiplexing module

Dorado aligner module