From 8a0b1743c2b1faf5601db3742e87708d84dabdf5 Mon Sep 17 00:00:00 2001
From: Mei Wu <25568561+projectoriented@users.noreply.github.com>
Date: Wed, 27 Apr 2022 20:19:49 +0200
Subject: [PATCH] use nf-core configs to load hasta

---
 nextflow.config | 10 ++++++++++
 1 file changed, 10 insertions(+)

diff --git a/nextflow.config b/nextflow.config
index cf3b8b9..b6697c5 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -19,6 +19,9 @@ params {
 
     platform='ILLUMINA'
 
+    // Utilize nf-core custom profiles 
+    custom_config_base         = "https://raw.githubusercontent.com/nf-core/configs/master"
+
     // Star reference directory path
     star_index="${reference_dir}/grch38_homo_sapiens_-gencode_pri-.fasta_star_genome_dir/"
 
@@ -49,6 +52,13 @@ process.shell = ['/bin/bash', '-euo', 'pipefail']
 // Load modules.config for DSL2 module specific options
 includeConfig 'conf/modules.config'
 
+// Load nf-core custom profiles from different Institutions
+try {
+    includeConfig "${params.custom_config_base}/nfcore_custom.config"
+} catch (Exception e) {
+    System.err.println("WARNING: Could not load nf-core/config profiles: ${params.custom_config_base}/nfcore_custom.config")
+}
+
 profiles {
     docker {
         docker.enabled         = true