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It seems that from the CLI if you try and set the parameter --gm_thresholds to "1" it believes it is an integer and fails expecting a string for the parameter.
Works from within the nextflow.config just not from CLI
Command used and terminal output
gasnomenclature$ nextflow run main.nf -profile docker --input tests/data/samplesheets/samplesheet1.csv --outdir results-pipeline-1 --gm_thresholds "1"
Nextflow 24.10.3 is available - Please consider updating your version to it
N E X T F L O W ~ version 24.04.4
Launching `main.nf` [drunk_lamarck] DSL2 - revision: c64c757f52ERROR ~ ERROR: Validation of pipeline parameters failed!
-- Check '.nextflow.log' file for details
The following invalid input values have been detected:
* --gm_thresholds: expected type: String, found: Integer (1)
Relevant files
No response
System information
No response
The text was updated successfully, but these errors were encountered:
Description of the bug
It seems that from the CLI if you try and set the parameter
--gm_thresholds
to "1" it believes it is an integer and fails expecting a string for the parameter.Works from within the nextflow.config just not from CLI
Command used and terminal output
Relevant files
No response
System information
No response
The text was updated successfully, but these errors were encountered: