The exit status of the task that caused the workflow execution to fail was: 1
.
The full error message was:
Error executing process > 'NFCORE_CUTANDRUN:CUTANDRUN:INPUT_CHECK:SAMPLESHEET_CHECK (sample_sheet.csv)' Caused by: Process `NFCORE_CUTANDRUN:CUTANDRUN:INPUT_CHECK:SAMPLESHEET_CHECK (sample_sheet.csv)` terminated with an error exit status (1) Command executed: check_samplesheet.py sample_sheet.csv samplesheet.valid.csv true cat <<-END_VERSIONS > versions.yml "NFCORE_CUTANDRUN:CUTANDRUN:INPUT_CHECK:SAMPLESHEET_CHECK": python: $(python --version | grep -E -o "([0-9]{1,}\.)+[0-9]{1,}") END_VERSIONS Command exit status: 1 Command output: ERROR: Please check samplesheet -> Control entry and sample entry must be different! Line: 'IgG,1,/data/abdenlab/share/4dn2csg/cut2run_batch2/CutnRun_H1_IgG_S1_L001_R1_001.fastq.gz,/data/abdenlab/share/4dn2csg/cut2run_batch2/CutnRun_H1_IgG_S1_L001_R2_001.fastq.gz,IgG' Command error: ERROR: Please check samplesheet -> Control entry and sample entry must be different! Line: 'IgG,1,/data/abdenlab/share/4dn2csg/cut2run_batch2/CutnRun_H1_IgG_S1_L001_R1_001.fastq.gz,/data/abdenlab/share/4dn2csg/cut2run_batch2/CutnRun_H1_IgG_S1_L001_R2_001.fastq.gz,IgG' Work dir: /home/gng/cutandrun_h1_batch2/work/3b/3382554f96db295f4053b2284f0383 Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`
The workflow was completed at 2023-05-26T17:39:39.216354-04:00 (duration: 1m 31s)
The command used to launch the workflow was as follows:
nextflow run nf-core/cutandrun -r 3.1 -profile docker --input /home/gng/cutandrun_h1_batch2/sample_sheet.csv --outdir /home/gng/cutandrun_h1_batch2/ --fasta /data/genomes/ncbi/GRCh38.analysisSet/GCA_000001405.15_GRCh38_no_alt_plus_hs38d1_analysis_set.fna.gz --bowtie2 /data/genomes/ncbi/GRCh38.analysisSet/GCA_000001405.15_GRCh38_no_alt_plus_hs38d1_analysis_set.fna.bowtie_index.tar.gz --gtf /data/genomes/ncbi/GRCh38.analysisSet/genes.gtf --peakcaller macs2 --skip_heatmaps true --max_memory 400.GB
revision | 3.1 |
---|---|
runName | nasty_shannon |
containerEngine | docker |
launchDir | /home/gng/cutandrun_h1_batch2 |
workDir | /home/gng/cutandrun_h1_batch2/work |
projectDir | /home/gng/.nextflow/assets/nf-core/cutandrun |
userName | gng |
profile | docker |
configFiles | /home/gng/.nextflow/assets/nf-core/cutandrun/nextflow.config |
input | /home/gng/cutandrun_h1_batch2/sample_sheet.csv |
outdir | /home/gng/cutandrun_h1_batch2/ |
bowtie2 | /data/genomes/ncbi/GRCh38.analysisSet/GCA_000001405.15_GRCh38_no_alt_plus_hs38d1_analysis_set.fna.bowtie_index.tar.gz |
gtf | /data/genomes/ncbi/GRCh38.analysisSet/genes.gtf |
spikein_bowtie2 | s3://ngi-igenomes/igenomes//Escherichia_coli_K_12_MG1655/NCBI/2001-10-15/Sequence/Bowtie2Index/ |
spikein_fasta | s3://ngi-igenomes/igenomes//Escherichia_coli_K_12_MG1655/NCBI/2001-10-15/Sequence/WholeGenomeFasta/genome.fa |
fasta | /data/genomes/ncbi/GRCh38.analysisSet/GCA_000001405.15_GRCh38_no_alt_plus_hs38d1_analysis_set.fna.gz |
igenomes_base | s3://ngi-igenomes/igenomes/ |
skip_heatmaps | true |
minimum_alignment_q_score | 20 |
normalisation_binsize | 50 |
peakcaller | macs2 |
max_memory | 400.GB |
Date Started | 2023-05-26T17:38:08.009694-04:00 |
Date Completed | 2023-05-26T17:39:39.216354-04:00 |
Pipeline script file path | /home/gng/.nextflow/assets/nf-core/cutandrun/main.nf |
Pipeline script hash ID | 933b3071ca6a81e9c2fc3c1dd6fa5968 |
Pipeline repository Git URL | https://github.com/nf-core/cutandrun |
Pipeline repository Git Commit | 42502fb44975e930eec865353c5481f472bcf766 |
Pipeline Git branch/tag | 3.1 |
Nextflow Version | 22.10.7 |
Nextflow Build | 5853 |
Nextflow Compile Timestamp | 18-02-2023 20:32 UTC |
nf-core/cutandrun