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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:
- Command line:
nextflow run ...
- See error: Please provide your error message
Expected behaviour
Log files
Have you provided the following extra information/files:
System
- Hardware:
- Executor:
- OS:
- Version
Nextflow Installation
Container engine
- Engine:
- version:
- Image tag:
Additional context
Check Documentation
I have checked the following places for your error:
- nf-core/eager FAQ/troubleshooting can be found here
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:
nextflow run ...Expected behaviour
Log files
Have you provided the following extra information/files:
.nextflow.logfileSystem
Nextflow Installation
Container engine
Additional context