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test run hit an error #9

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ryao-mdanderson opened this issue Nov 13, 2024 · 0 comments
Open

test run hit an error #9

ryao-mdanderson opened this issue Nov 13, 2024 · 0 comments

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@ryao-mdanderson
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Dear authors,

I tried a test run with the following command, purposely want to have jabba singularity images downloaded. but hit an error message, please advise:

$ module list
Currently Loaded Modules:

  1. openjdk/17.0.3+7 2) nextflow/23.10.0

$ nextflow run mskilab-org/nf-jabba -profile test,singularity --outdir
Nextflow 24.10.0 is available - Please consider updating your version to it
N E X T F L O W ~ version 23.10.0
...
WARN: Access to undefined parameter germline_resource -- Initialise it to a default value eg. params.germline_resource = some_value
...
WARN: Access to undefined parameter validationS3PathCheck -- Initialise it to a default value eg. params.validationS3PathCheck = some_value
ERROR ~ ERROR: Validation of '/nf-core/test-datasets/viralrecon/samplesheet/samplesheet_test_illumina_amplicon.csv' file failed!

-- Check '.nextflow.log' file for details
The following errors have been detected:

  • -- Entry 1: Missing required value: patient
  • -- Entry 2: Missing required value: patient
  • -- Entry 3: Missing required value: patient
  • -- Entry 4: Missing required value: patient

Thank you for your help.
Rong Yao

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