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Important! Template update for nf-core/tools v3.0.2 #1030

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Important! Template update for nf-core/tools v3.0.2

Important! Template update for nf-core/tools v3.0.2 #1030

GitHub Actions / JUnit Test Report failed Oct 14, 2024 in 0s

1 tests run, 0 passed, 0 skipped, 1 failed.

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Check failure on line 1 in Test pipeline

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@github-actions github-actions / JUnit Test Report

Test pipeline.Run with profile test 

Assertion failed: 

1 of 2 assertions failed
Raw output 
Nextflow stdout:

N E X T F L O W  ~  version 24.04.2
Launching `/home/runner/work/fetchngs/fetchngs/tests/../main.nf` [infallible_brenner] DSL2 - revision: 90ed099e6f
Downloading plugin [email protected]

------------------------------------------------------
                                        ,--./,-.
        ___     __   __   __   ___     /,-._.--~'
  |\ | |__  __ /  ` /  \ |__) |__         }  {
  | \| |       \__, \__/ |  \ |___     \`-._,-`-,
                                        `._,._,'
  nf-core/fetchngs 1.13.0dev
------------------------------------------------------
Input/output options
  input                     : https://raw.githubusercontent.com/nf-core/test-datasets/2732b911c57e607fa7aea5ba0c3d91b25bafb662/testdata/v1.12.0/sra_ids_test.csv
  outdir                    : /home/runner/work/fetchngs/fetchngs/.nf-test/tests/e1d0d533fa4114cdfd71d954f0715b76/output

Institutional config options
  config_profile_name       : Test profile
  config_profile_description: Minimal test dataset to check pipeline function

Core Nextflow options
  runName                   : infallible_brenner
  containerEngine           : docker
  launchDir                 : /home/runner/work/fetchngs/fetchngs/.nf-test/tests/e1d0d533fa4114cdfd71d954f0715b76
  workDir                   : /home/runner/work/fetchngs/fetchngs/.nf-test/tests/e1d0d533fa4114cdfd71d954f0715b76/work
  projectDir                : /home/runner/work/fetchngs/fetchngs
  userName                  : runner
  profile                   : test,docker
  configFiles               : 

!! Only displaying parameters that differ from the pipeline defaults !!
------------------------------------------------------* The pipeline
  https://doi.org/10.5281/zenodo.5070524

* The nf-core framework
    https://doi.org/10.1038/s41587-020-0439-x

* Software dependencies
    https://github.com/nf-core/fetchngs/blob/master/CITATIONS.md

[5d/cb8cb2] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (ERR1160846)
[a9/bc289f] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (DRR028935)
[93/211a2a] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (SRR9984183)
[87/50f3bb] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (SRR13191702)
[6d/597a58] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (SRR14593545)
[77/52c364] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (GSM4907283)
[74/e9eed9] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (SRR12848126)
[69/2f1c05] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (SRR14709033)
[79/675b02] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (DRR026872)
[46/d225cc] Submitted process > NFCORE_FETCHNGS:SRA:SRA_IDS_TO_RUNINFO (GSE214215)
[98/be8c8e] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (1)
[16/b6b5eb] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (2)
[fa/6b3444] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (3)
[b4/619590] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (4)
[6c/f4fa1c] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (5)
[5b/8f249a] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (6)
[ba/366f6a] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (7)
[cd/4ee19f] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (8)
[de/bb6fda] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (9)
[35/cb033b] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (ERX1234253_ERR1160846)
[51/53d72c] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (DRX026011_DRR028935)
[9e/6e48fe] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (ERX1234253_ERR1160846)
[61/0c2272] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX6725035_SRR9984183)
[cb/effc9c] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (DRX026011_DRR028935)
[df/f3bf0e] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX9626017_SRR13191702)
[69/d8969b] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX6725035_SRR9984183)
[a4/675ce7] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX9504942_SRR13055518)
[2e/ef1b3e] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX9626017_SRR13191702)
[bb/365f1d] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX9504942_SRR13055517)
[ca/1c122e] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX9504942_SRR13055518)
[09/db82cc] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX9504942_SRR13055520)
[88/1fcdf5] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX9504942_SRR13055517)
[23/10cf27] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX9504942_SRR13055519)
[f6/b500fd] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX9504942_SRR13055520)
[5c/6ea9bf] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (DRX024467_DRR026872)
[10/6bc495] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX9504942_SRR13055519)
[1f/058f7f] Submitted process > NFCORE_FETCHNGS:SRA:SRA_RUNINFO_TO_FTP (10)
[4f/9c73e4] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (DRX024467_DRR026872)
[ea/d4032d] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX17709227_SRR21711856)
[0a/9f1ccd] Submitted process > NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX17709228_SRR21711855)
[2a/b44bef] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX17709227_SRR21711856)
[8f/79196c] Submitted process > NFCORE_FETCHNGS:SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:CUSTOM_SRATOOLSNCBISETTINGS (ncbi-settings)
[34/c2740c] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX17709228_SRR21711855)
[5a/3812e3] Submitted process > NFCORE_FETCHNGS:SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_PREFETCH (SRR12848126)
[0c/4cc899] Submitted process > NFCORE_FETCHNGS:SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_PREFETCH (SRR14709033)
[1b/048b5d] Submitted process > NFCORE_FETCHNGS:SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_PREFETCH (SRR14593545)
[7d/ac2bdc] Submitted process > NFCORE_FETCHNGS:SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP (SRX9315476_SRR12848126)
[70/25d93a] Submitted process > NFCORE_FETCHNGS:SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP (SRX11047067_SRR14709033)
[57/3c157c] Submitted process > NFCORE_FETCHNGS:SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP (SRX10940790_SRR14593545)
[9f/1c94b6] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX9315476_SRR12848126)
[e3/2bbc18] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX11047067_SRR14709033)
[b7/6ee978] Submitted process > NFCORE_FETCHNGS:SRA:SRA_TO_SAMPLESHEET (SRX10940790_SRR14593545)
[20/2e4876] Submitted process > NFCORE_FETCHNGS:SRA:MULTIQC_MAPPINGS_CONFIG (1)
-[nf-core/fetchngs] Pipeline completed successfully-
WARN: =============================================================================
  Please double-check the samplesheet that has been auto-created by the pipeline.

  Public databases don't reliably hold information such as strandedness
  information, controls etc

  All of the sample metadata obtained from the ENA has been appended
  as additional columns to help you manually curate the samplesheet before
  running nf-core/other pipelines.
===================================================================================
Nextflow stderr:

Nextflow 24.04.4 is available - Please consider updating your version to it
View more details on GitHub Actions