From 66f191a1cfd87ac5b5b728a0ebc73b84b9d469c9 Mon Sep 17 00:00:00 2001
From: Piotr Faba <piotr.faba@ardigen.com>
Date: Wed, 27 May 2020 16:30:00 +0200
Subject: [PATCH] declate NXF_GLOBAL_CONFIG in ci

---
 .github/workflows/main.yml |  2 ++
 conf/bi.config             | 10 +++++-----
 2 files changed, 7 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
index b927957..8226dac 100644
--- a/.github/workflows/main.yml
+++ b/.github/workflows/main.yml
@@ -23,7 +23,9 @@ jobs:
         run: |
           wget -qO- get.nextflow.io | bash
           sudo mv nextflow /usr/local/bin/
+          touch /usr/local/bin/test.config
       - name: Check ${{ matrix.profile }} profile
         env: 
           SCRATCH: '~'
+          NXF_GLOBAL_CONFIG: /usr/local/bin/test.config
         run: nextflow run ${GITHUB_WORKSPACE}/configtest.nf --custom_config_base=${GITHUB_WORKSPACE} -profile ${{ matrix.profile }}
diff --git a/conf/bi.config b/conf/bi.config
index 6fa20d6..874d9f8 100644
--- a/conf/bi.config
+++ b/conf/bi.config
@@ -1,11 +1,11 @@
 params.globalConfig = determine_global_config()
 
-// includeConfig params.globalConfig
+includeConfig params.globalConfig
 
 def determine_global_config() {
-    // if( System.getenv('NXF_GLOBAL_CONFIG') == null)
-    // {
-    //     throw new Exception("Environment variable NXF_GLOBAL_CONFIG is missing. Set it to point to global.config file")
-    // }
+    if( System.getenv('NXF_GLOBAL_CONFIG') == null)
+    {
+        throw new Exception("Environment variable NXF_GLOBAL_CONFIG is missing. Set it to point to global.config file")
+    }
     return System.getenv('NXF_GLOBAL_CONFIG')   
 }