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                                        ,--./,-.
        ___     __   __   __   ___     /,-._.--~\
  |\ | |__  __ /  ` /  \ |__) |__         }  {
  | \| |       \__, \__/ |  \ |___     \`-._,-`-,
                                        `._,._,'
  nf-core/rnaseq v3.0
----------------------------------------------------

Run Name: sick_wozniak

####################################################
## nf-core/rnaseq execution completed unsuccessfully! ##
####################################################
The exit status of the task that caused the workflow execution to fail was: null.
The full error message was:

Error executing process > 'RNASEQ:PREPARE_GENOME:GTF2BED (ITAG2.3_genomic_Ch6.gtf)'

Caused by:
  Failed to pull singularity image
  command: singularity pull  --name depot.galaxyproject.org-singularity-perl-5.26.2.img.pulling.1759152933155 https://depot.galaxyproject.org/singularity/perl:5.26.2 > /dev/null
  status : 127
  message:
    bash: singularity: command not found







The workflow was completed at 2025-09-29T15:35:33.500+02:00 (duration: 26.2s)

The command used to launch the workflow was as follows:

  nextflow run nf-core/rnaseq -profile genotoul -r 3.0 --input /work/user/fmt099/TP_nextflow/inputs.csv --fasta /work/user/fmt099/TP_nextflow/genome/ITAG2.3_genomic_Ch6.fasta --gtf /work/user/fmt099/TP_nextflow/annotation/ITAG2.3_genomic_Ch6.gtf --aligner star_rsem -c /work/user/fmt099/TP_nextflow/sm_config.cfg



Pipeline Configuration:
-----------------------
 - revision: 3.0
 - runName: sick_wozniak
 - containerEngine: singularity
 - launchDir: /work/user/fmt099/TP_nextflow
 - workDir: /work/user/fmt099/TP_nextflow/work
 - projectDir: /home/fmt099/.nextflow/assets/nf-core/rnaseq
 - userName: fmt099
 - profile: genotoul
 - configFiles: /home/fmt099/.nextflow/assets/nf-core/rnaseq/nextflow.config, /work/user/fmt099/TP_nextflow/sm_config.cfg
 - input: /work/user/fmt099/TP_nextflow/inputs.csv
 - fasta: /work/user/fmt099/TP_nextflow/genome/ITAG2.3_genomic_Ch6.fasta
 - gtf: /work/user/fmt099/TP_nextflow/annotation/ITAG2.3_genomic_Ch6.gtf
 - save_reference: true
 - igenomes_ignore: true
 - aligner: star_rsem
 - config_profile_description: The Genotoul cluster profile
 - config_profile_contact: support.bioinfo.genotoul@inra.fr
 - config_profile_url: http://bioinfo.genotoul.fr/
 - max_cpus: 48
 - max_memory: 120 GB
 - max_time: 4d
 - Date Started: 2025-09-29T15:35:07.324+02:00
 - Date Completed: 2025-09-29T15:35:33.500+02:00
 - Pipeline script file path: /home/fmt099/.nextflow/assets/nf-core/rnaseq/main.nf
 - Pipeline script hash ID: 4b892cc54e3b768dca93d19da30a907a
 - Pipeline repository Git URL: https://github.com/nf-core/rnaseq
 - Pipeline repository Git Commit: 3643a94411b65f42bce5357c5015603099556ad9
 - Pipeline Git branch/tag: 3.0
 - Nextflow Version: 20.11.0-edge
 - Nextflow Build: 5448
 - Nextflow Compile Timestamp: 16-11-2020 08:23 UTC

--
nf-core/rnaseq
https://github.com/nf-core/rnaseq