From 3a481402b82debaee410afeb2b64d7ad5afd1039 Mon Sep 17 00:00:00 2001
From: Olga Botvinnik <olga.botvinnik@gmail.com>
Date: Wed, 5 Jun 2019 14:42:07 -0700
Subject: [PATCH] Get czbiohub config to work

---
 conf/{czbiohub.config => czbiohub_aws.config} | 8 +++++++-
 1 file changed, 7 insertions(+), 1 deletion(-)
 rename conf/{czbiohub.config => czbiohub_aws.config} (95%)

diff --git a/conf/czbiohub.config b/conf/czbiohub_aws.config
similarity index 95%
rename from conf/czbiohub.config
rename to conf/czbiohub_aws.config
index d51c6f2..baf4550 100644
--- a/conf/czbiohub.config
+++ b/conf/czbiohub_aws.config
@@ -20,8 +20,15 @@ docker {
 
 process {
   executor = 'awsbatch'
+  queue = 'nextflow'
 }
 
+workDir = "s3://czb-nextflow/work"
+
+aws.region = 'us-west-2'
+executor.awscli = '/home/ec2-user/miniconda/bin/aws'
+params.tracedir = './'
+
 params {
   saveReference = true
 
@@ -42,7 +49,6 @@ params {
   // AWS configurations
   awsregion = "us-west-2"
   awsqueue = "nextflow"
-  workDir = "s3://czb-nextflow/rnaseq/"
 
   // GENCODE GTF and fasta files
   genomes {