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main.nf
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main.nf
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#!/usr/bin/env nextflow
/*
========================================================================================
nf-core/raredisease
========================================================================================
Github : https://github.com/nf-core/raredisease
Website: https://nf-co.re/raredisease
Slack : https://nfcore.slack.com/channels/raredisease
----------------------------------------------------------------------------------------
*/
nextflow.enable.dsl = 2
/*
========================================================================================
GENOME PARAMETER VALUES
========================================================================================
*/
params.fasta = WorkflowMain.getGenomeAttribute(params, 'fasta')
params.fasta_fai = WorkflowMain.getGenomeAttribute(params, 'fai')
params.bwamem2_index = WorkflowMain.getGenomeAttribute(params, 'bwamem2')
params.gnomad = WorkflowMain.getGenomeAttribute(params, 'gnomad')
params.variant_catalog = WorkflowMain.getGenomeAttribute(params, 'variant_catalog')
/*
========================================================================================
VALIDATE & PRINT PARAMETER SUMMARY
========================================================================================
*/
WorkflowMain.initialise(workflow, params, log)
/*
========================================================================================
NAMED WORKFLOW FOR PIPELINE
========================================================================================
*/
include { RAREDISEASE } from './workflows/raredisease'
//
// WORKFLOW: Run main nf-core/raredisease analysis pipeline
//
workflow NFCORE_RAREDISEASE {
RAREDISEASE ()
}
/*
========================================================================================
RUN ALL WORKFLOWS
========================================================================================
*/
//
// WORKFLOW: Execute a single named workflow for the pipeline
// See: https://github.com/nf-core/rnaseq/issues/619
//
workflow {
NFCORE_RAREDISEASE ()
}
/*
========================================================================================
THE END
========================================================================================
*/