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nf-core / demultiplex

Demultiplexing pipeline for sequencing data
https://nf-co.re/demultiplex
MIT License
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Test full is currently failing due to parameter validation #289

Open FriederikeHanssen opened 5 days ago

FriederikeHanssen commented 5 days ago

Description of the bug

Running the pipeline with test _full results in:

* --input (https://raw.githubusercontent.com/nf-core/test-datasets/demultiplex/samplesheet/1.3.0/samplesheet_full.csv): Validation of file failed:
    -> Entry 1: Error for field 'id' (35147139): Sample name must be provided and cannot contain spaces

Based on this slack discussion (https://nfcore.slack.com/archives/CL88J906S/p1731922001766669) , a more lenient validation mode should fix the issue and let the samplesheet validation handle strings and numbers.

Command used and terminal output

Workflow options
  v1_schema                 : true
Input/output options
  input                     : https://raw.githubusercontent.com/nf-core/test-datasets/demultiplex/samplesheet/1.3.0/samplesheet_full.csv
  outdir                    :./results/
Demultiplexing options
  demultiplexer             : bcl2fastq
Institutional config options
  config_profile_name       : Full test profile
  config_profile_description: Full test dataset to check pipeline function
Core Nextflow options
  revision                  : 1.5.3
  profile                   : test_full

Relevant files

No response

System information

No response

atrigila commented 3 days ago

Thanks for reporting! We can also use this opportunity to fix the workflow dispatch which I think, due to the latest template merge, is causing AWS megatests not being triggered automatically.