gtf option needs a dynamic default #121
Description
Description of the bug
When submitting without --gtf, the pipeline throws
Oct-06 15:32:56.195 [main] DEBUG nextflow.cli.Launcher - Operation aborted
nextflow.validation.SchemaValidationException: The following invalid input values have been detected:
* --gtf (/kyukon/data/gent/shared/000/gvo00082/genomes/Hsapiens/GRCh38/seq/gencode.v48.basic.annotation.gtf): the file or directory '/kyukon/data/gent/shared/000/gvo00082/genomes/Hsapiens/GRCh38/seq/gencode.v48.basic.annotation.gtf' does not exist
Better would be to get gtf from the genome base.
Command used and terminal output
Relevant files
No response
System information
No response