Dear DSchreyer
i have the input file like this
sample,fastq_1,fastq_2
270502,/path/270502_S0_L001/270502_S0_L001_R1_001.fastq.gz,/path/270502_S0_L001_R2_001.fastq.gz

and my run.sh script look like this
#! /bin/bash

module load nextflow
export NXF_SINGULARITY_CACHEDIR=/data/SCLC-AUTOPSY/nextflow/nxf_singularity_cache;
export SINGULARITY_CACHEDIR=/data/SCLC-AUTOPSY/nextflow/nxf_singularity_cache/.singularity;
export TMPDIR=/lscratch/$SLURM_JOB_ID
export NXF_JVM_ARGS="-Xms2g -Xmx4g"

sbatch <<EOT
#!/bin/bash

#SBATCH --job-name=nextflow-main
#SBATCH --cpus-per-task=4
#SBATCH --mem=40G
#SBATCH --gres=lscratch:200
#SBATCH --time=36:00:00

nextflow run nf-core/circdna
-profile biowulf
--input /path/matched_samplesheet.csv
--outdir path/results_batch
--genome GRCh37
--igenomes_base /path/igenomes_nf
-resume

exit 0
EOT

when i ran this, the circdna nfcore pipleine print out only this,
Cannot invoke "org.eclipse.jgit.lib.ObjectId.name()" because the return value of "org.eclipse.jgit.lib.Ref.getObjectId()" is null