Hi all, I have encountered a buggy behaviour in samplesheet processing:
My samplesheet has specified absolute paths to different files (/path/to/run_01/ and /path/to/run_02/) with same filename: this is typical for pooling re-sequencing libraries:
nextflow run nf-core/methylseq -profile ku_sund_danhead,dancmpn01fl -r 2.6.0 -params-file nfcore-methylseq-params.yaml --outdir GRCm38 --genome GRCm38 --aligner bismark
ERROR ~ Error executing process > 'NFCORE_METHYLSEQ:METHYLSEQ:FASTQC (16)'
Caused by:
Process `NFCORE_METHYLSEQ:METHYLSEQ:FASTQC` input file name collision -- There are multiple input files for each of the following file names: Sample1_R1.fastq.gz, Sample1_R2.fastq.gz
Relevant files
No response
System information
Nextflow version 23.10.1
Hardware: HPC
Executor: slurm
Container engine: Singularity
OS: Red Hat Enterprise Linux 8.9 (Ootpa)
Version of nf-core/methylseq v2.6.0-g54f823e
Description of the bug
Hi all, I have encountered a buggy behaviour in samplesheet processing:
My samplesheet has specified absolute paths to different files (
/path/to/run_01/
and/path/to/run_02/
) with same filename: this is typical for pooling re-sequencing libraries:Command used and terminal output
Relevant files
No response
System information
Nextflow version 23.10.1 Hardware: HPC Executor: slurm Container engine: Singularity OS: Red Hat Enterprise Linux 8.9 (Ootpa) Version of nf-core/methylseq v2.6.0-g54f823e