From 18ed48f39839d42e839566f379a1b9e6680b3d3b Mon Sep 17 00:00:00 2001
From: phue <patrick.huether@gmail.com>
Date: Mon, 28 Oct 2019 11:38:24 +0100
Subject: [PATCH] deprecate igenomesIgnore in favor of igenomes_ignore

keep both for now until all the pipelines have been synced
---
 conf/cbe.config          | 3 ++-
 conf/czbiohub_aws.config | 3 ++-
 conf/genouest.config     | 3 ++-
 conf/hebbe.config        | 3 ++-
 conf/mendel.config       | 3 ++-
 conf/pasteur.config      | 3 ++-
 6 files changed, 12 insertions(+), 6 deletions(-)

diff --git a/conf/cbe.config b/conf/cbe.config
index aed9866..6e47361 100755
--- a/conf/cbe.config
+++ b/conf/cbe.config
@@ -18,5 +18,6 @@ params {
   params.max_time = 14.d
   params.max_cpus = 36
   params.max_memory = 4.TB
-  igenomesIgnore = true
+  igenomes_ignore = true
+  igenomesIgnore = true //deprecated
 }
\ No newline at end of file
diff --git a/conf/czbiohub_aws.config b/conf/czbiohub_aws.config
index 1dd8da2..98aebe8 100644
--- a/conf/czbiohub_aws.config
+++ b/conf/czbiohub_aws.config
@@ -55,7 +55,8 @@ params {
   awsregion = "us-west-2"
   awsqueue = "nextflow"
 
-  igenomesIgnore = true
+  igenomes_ignore = true
+  igenomesIgnore = true //deprecated
 
   fc_extra_attributes = 'gene_name'
   fc_group_features = 'gene_id'
diff --git a/conf/genouest.config b/conf/genouest.config
index 68d82a6..801b9fb 100644
--- a/conf/genouest.config
+++ b/conf/genouest.config
@@ -16,7 +16,8 @@ process {
 }
 
 params {
-  igenomesIgnore = true
+  igenomes_ignore = true
+  igenomesIgnore = true //deprecated
   max_memory = 750.GB
   max_cpus = 80
   max_time = 336.h
diff --git a/conf/hebbe.config b/conf/hebbe.config
index 500ec31..26296d5 100644
--- a/conf/hebbe.config
+++ b/conf/hebbe.config
@@ -18,7 +18,8 @@ process {
 }
 
 params {
-  igenomesIgnore = true
+  igenomes_ignore = true
+  igenomesIgnore = true //deprecated
   saveReference = true
   max_memory = 64.GB
   max_cpus = 20
diff --git a/conf/mendel.config b/conf/mendel.config
index e658c87..0fb7e81 100644
--- a/conf/mendel.config
+++ b/conf/mendel.config
@@ -19,5 +19,6 @@ params {
   max_cpus = 32
   max_memory = 128.GB
   max_time = 192.h
-  igenomesIgnore = true
+  igenomes_ignore = true
+  igenomesIgnore = true //deprecated
 }
diff --git a/conf/pasteur.config b/conf/pasteur.config
index 1d95131..01d5227 100644
--- a/conf/pasteur.config
+++ b/conf/pasteur.config
@@ -16,7 +16,8 @@ process {
 }
 
 params {
-  igenomesIgnore = true
+  igenomes_ignore = true
+  igenomesIgnore = true //deprecated
   max_memory = 256.GB
   max_cpus = 28
   max_time = 24.h