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Description
Description of the bug
When downloading/running the pipeline, it returns an error (missing database) when trying to print the help message.
Command used and terminal output
# On Cedar, load the relevant modules (`StdEnv` & `nextflow`). The following command generates an error:
$ nextflow run cidgoh/bacpaq -r v1.0.1 --help
Nextflow 24.10.1 is available - Please consider updating your version to it
N E X T F L O W ~ version 24.04.4
Launching `https://github.com/cidgoh/bacpaq` [pensive_watson] DSL2 - revision: 3c48b98202 [v1.0.1]
ERROR ~ Path to Kraken2 database is not valid
-- Check '.nextflow.log' file for detailsRelevant files
System information
Nextflow version: 24.04.4
Hardware: Cedar
Executor: Local (salloc)
OS: Linux
Version of bacpaq: 1.0.1
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bugSomething isn't workingSomething isn't working