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LINX error: java.lang.NullPointerException: Cannot read field "CopyNumber" #257

@fevac

Description

@fevac

Description of the bug

Hi,

I'm running into this error:

20:08:02.464 [ERROR] thread exception: java.lang.NullPointerException: Cannot read field "CopyNumber" because "cnStartPrevData" is null

I'm running oncoanalyser v2.2.0 with a single tumor sample. Using as parameters:
mode: 'wgts'
genome: 'GRCh37_hmf'

Any ideas of what could be wrong?

Thanks in advance for the help!

Command used and terminal output

nextflow \
  -log $workdir/nextflow_to_small_v2.2.0.log \
  -config $maindir/oncoanalyser/nextflow_config_v2.2.0_nextflow.yaml \
  run nf-core/oncoanalyser \
  -r 2.2.0 \
  -work-dir $workdir/work_small_nextflow \
  -resume \
  -profile singularity \
  -params-file  $workdir/params_file_v2.2.0_small.yaml

Relevant files

No response

System information

Nextflow version 25.04.8 build 5956
HPC
Slurm
Singularity
Linux
Oncoanalyser version 2.2.0

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