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When I run to this step of BAM_TO_BIGWIG, it says the following error, how can I solve this?
Command used and terminal output
Error executing process > 'NFCORE_ATACSEQ:ATACSEQ:MERGED_LIBRARY_BAM_TO_BIGWIG:UCSC_BEDGRAPHTOBIGWIG (control_REP1)'Caused by: Process `NFCORE_ATACSEQ:ATACSEQ:MERGED_LIBRARY_BAM_TO_BIGWIG:UCSC_BEDGRAPHTOBIGWIG (control_REP1)` terminated with an error exit status (255)Command executed: bedGraphToBigWig \ control_REP1.mLb.clN.bedGraph \ GRCh38.primary_assembly.genome.fa.sizes \ control_REP1.mLb.clN.bigWig cat <<-END_VERSIONS > versions.yml "NFCORE_ATACSEQ:ATACSEQ:MERGED_LIBRARY_BAM_TO_BIGWIG:UCSC_BEDGRAPHTOBIGWIG": ucsc: 377 END_VERSIONSCommand exit status: 255Command output: (empty)Command error: control_REP1.mLb.clN.bedGraph is not case-sensitive sorted at line 12791860. Please use "sort -k1,1 -k2,2n" with LC_COLLATE=C, or bedSort and try again.Work dir: /home/data/yaoyanxin/ABC_model_20230608/nf-ATAC/work/d3/28b5fcda3e5ae068adeba1c121dcb1Tip: view the complete command output by changing to the process work dir and entering the command `cat .command.out`
This seems to be an error related to your environment variables settings. See here. Also, we had a similar issue on the rnaseq pipeline some time ago, fixed on this PR. You could try to set LANG=C or LC_COLLATE=C and see whether it works.
Description of the bug
When I run to this step of BAM_TO_BIGWIG, it says the following error, how can I solve this?
Command used and terminal output
Relevant files
.nextflow.log
System information
nf-core/atac-seq 2.0
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