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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
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
The text was updated successfully, but these errors were encountered:
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
The text was updated successfully, but these errors were encountered: