Run terminates prematurely without error message

[el239]

Description of the bug

Run stops without results generated or indication of why it didn't finish.

Command used and terminal output

nextflow run nf-core/rnaseq --input pisumSRRs/samplesheet/samplesheet.csv --outdir pisum_NFrnaseqRETRY --bam_csi_index --fasta GCA_024323335.1_CAAS_Psat_ZW6_1.0_genomic.fna --gff GCA_024323335.1_CAAS_Psat_ZW6_1.0_genomic.gff -profile singularity 

final lines of output:
[-        ] process > NFCORE_RNASEQ:RNASEQ:DESEQ2_QC_STAR_SALMON    -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MULTIQC_TSV_FAIL_MAPPED  -
[-        ] process > NFCORE_RNASEQ:RNASEQ:PRESEQ_LCEXTRAP          -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MARK_DUPLICATES_PICAR... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MARK_DUPLICATES_PICAR... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MARK_DUPLICATES_PICAR... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MARK_DUPLICATES_PICAR... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MARK_DUPLICATES_PICAR... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:STRINGTIE_STRINGTIE      -
[-        ] process > NFCORE_RNASEQ:RNASEQ:SUBREAD_FEATURECOUNTS    -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MULTIQC_CUSTOM_BIOTYPE   -
[-        ] process > NFCORE_RNASEQ:RNASEQ:BEDTOOLS_GENOMECOV       -
[-        ] process > NFCORE_RNASEQ:RNASEQ:BEDGRAPH_TO_BIGWIG_FO... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:BEDGRAPH_TO_BIGWIG_FO... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:BEDGRAPH_TO_BIGWIG_RE... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:BEDGRAPH_TO_BIGWIG_RE... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:QUALIMAP_RNASEQ          -
[-        ] process > NFCORE_RNASEQ:RNASEQ:DUPRADAR                 -
[-        ] process > NFCORE_RNASEQ:RNASEQ:RSEQC:RSEQC_BAMSTAT      -
[-        ] process > NFCORE_RNASEQ:RNASEQ:RSEQC:RSEQC_INFEREXPE... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:RSEQC:RSEQC_JUNCTIONA... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:RSEQC:RSEQC_JUNCTIONS... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:RSEQC:RSEQC_READDUPLI... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MULTIQC_TSV_STRAND_CHECK -
[-        ] process > NFCORE_RNASEQ:RNASEQ:CUSTOM_DUMPSOFTWAREVE... -
[-        ] process > NFCORE_RNASEQ:RNASEQ:MULTIQC                  -

Relevant files

execution_trace_2022-07-28_17-06-31.txt

System information

Linux HPC

N E X T F L O W version 22.04.4 build 5706 nf-core/rnaseq v3.8.1