Fix for post-dup steps

[apeltzer]

Many thanks to contributing to nf-core/eager!

Please fill in the appropriate checklist below (delete whatever is not relevant). These are the most common things requested on pull requests (PRs).

PR checklist

• This comment contains a description of changes (with reason)
• If you've fixed a bug or added code that should be tested, add tests!
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Learn more about contributing: https://github.com/nf-core/eager/tree/master/.github/CONTRIBUTING.md

[jfy133]

Testing now!

[jfy133]

Almost there I think:

Feb-25 20:45:00.068 [Actor Thread 46] ERROR nextflow.processor.TaskProcessor - Error executing process > 'multiqc'

Caused by:
  Process `multiqc` input file name collision -- There are multiple input files for each of the following file names: software_versions/software_versions_mqc.yaml, damageprofiler/dmgprof.json


Tip: view the complete command output by changing to the process work dir and entering the command `cat .command.out`
Feb-25 20:45:00.072 [Actor Thread 46] DEBUG nextflow.Session - Session aborted -- Cause: Process `multiqc` input file name collision -- There are multiple input files for each of the following file names: softwa
re_versions/software_versions_mqc.yaml, damageprofiler/dmgprof.json

[apeltzer]

@jfy133 this should be fine now for review - @hesterjvs, this should resolve your remaining issue 👍

[jfy133]

I see it's closed - but works like a charm on my dataset. Great speedy work @apeltzer, thanks !

[apeltzer]

Yeah tested it with some more data and figured this works pretty fine now :-)