nf-core / eager

A fully reproducible and state-of-the-art ancient DNA analysis pipeline
https://nf-co.re/eager
MIT License
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Missing "=" in mapdamage rescale command #934

Closed ashildv closed 1 year ago

ashildv commented 1 year ago

Check Documentation

I have checked the following places for your error:

Description of the bug

This is the command nf-core eager ran, there is missing equal sign here: " --rescale-length-5p 15"

From the .command.sh file:

!/bin/bash -euo pipefail

mapDamage -i sample_rmdup.bam -r reference.fasta --rescale --rescale-out sample_rmdup_rescaled.bam --rescale-length-5p 15 --rescale-length-3p=15 samtools index sample_rmdup_rescaled.bam

Steps to reproduce

Steps to reproduce the behaviour:

  1. Command line: nextflow run ...
  2. See error: Please provide your error message

Expected behaviour

Log files

Have you provided the following extra information/files:

System

Nextflow Installation

Container engine

Additional context

apeltzer commented 1 year ago

Fixed in #935