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318 update for tes compliance #1025

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318 update for tes compliance

318 update for tes compliance #1025

GitHub Actions / JUnit Test Report failed Sep 16, 2024 in 0s

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

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Check failure on line 1 in nf

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Report

nf.Parameters: --download_method sratools 

Assertion failed: 

1 of 3 assertions failed
Raw output 
Nextflow stdout:

N E X T F L O W  ~  version 24.08.0-edge
Launching `/home/runner/work/fetchngs/fetchngs/.nf-test-775fab53cb4a02a15d51ffbf8d902e18.nf` [loving_gautier] DSL2 - revision: 68dcf2aadf
Downloading plugin nf-validation@1.1.3
[49/6ba577] Submitted process > SRA:SRA_IDS_TO_RUNINFO (DRX026011)
[ed/025efd] Submitted process > SRA:SRA_IDS_TO_RUNINFO (ERX1234253)
[8c/ee06dc] Submitted process > SRA:SRA_IDS_TO_RUNINFO (SRX6725035)
[75/93a182] Submitted process > SRA:SRA_RUNINFO_TO_FTP (1)
WARN: Process `SRA:SRA_RUNINFO_TO_FTP` publishDir path contains a variable with a null value
[93/b6e323] Submitted process > SRA:SRA_RUNINFO_TO_FTP (2)
[fc/280e82] Submitted process > SRA:SRA_RUNINFO_TO_FTP (3)
WARN: Process `SRA:SRA_RUNINFO_TO_FTP` publishDir path contains a variable with a null value
WARN: Process `SRA:SRA_RUNINFO_TO_FTP` publishDir path contains a variable with a null value
[3a/2c1b24] Submitted process > SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:CUSTOM_SRATOOLSNCBISETTINGS (ncbi-settings)
WARN: Process `SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:CUSTOM_SRATOOLSNCBISETTINGS` publishDir path contains a variable with a null value
[1e/701f05] Submitted process > SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_PREFETCH (DRR028935)
[6f/5c9feb] Submitted process > SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_PREFETCH (SRR9984183)
[0b/171770] Submitted process > SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_PREFETCH (ERR1160846)
[36/14c574] Submitted process > SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP (DRX026011_DRR028935)
[97/d05b87] Submitted process > SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP (SRX6725035_SRR9984183)
WARN: Process `SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP` publishDir path contains a variable with a null value
[85/206118] Submitted process > SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP (ERX1234253_ERR1160846)
[51/b6f512] Submitted process > SRA:SRA_TO_SAMPLESHEET (DRX026011_DRR028935)
WARN: Process `SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP` publishDir path contains a variable with a null value
[e9/d584ac] Submitted process > SRA:SRA_TO_SAMPLESHEET (SRX6725035_SRR9984183)
WARN: Process `SRA:FASTQ_DOWNLOAD_PREFETCH_FASTERQDUMP_SRATOOLS:SRATOOLS_FASTERQDUMP` publishDir path contains a variable with a null value
[7b/644ce0] Submitted process > SRA:SRA_TO_SAMPLESHEET (ERX1234253_ERR1160846)
[1d/127088] Submitted process > SRA:MULTIQC_MAPPINGS_CONFIG (1)
WARN: Process `SRA:MULTIQC_MAPPINGS_CONFIG` publishDir path contains a variable with a null value
Nextflow stderr:
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