From 170b070690f65bdbc2736dd9a6fd95f04dd5df3d Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Wed, 22 Apr 2020 21:33:49 -0500
Subject: [PATCH] Remove processes from AWS configs
---
workflow/conf/aws_ondemand.config | 28 +++-------------------------
workflow/conf/aws_spot.config | 26 ++------------------------
2 files changed, 5 insertions(+), 49 deletions(-)
diff --git a/workflow/conf/aws_ondemand.config b/workflow/conf/aws_ondemand.config
index 0c8b6ff..79c5fc6 100755
--- a/workflow/conf/aws_ondemand.config
+++ b/workflow/conf/aws_ondemand.config
@@ -1,4 +1,4 @@
-workDir = 's3://gudmap.rbk/work'
+workDir = 's3://'
aws.client.storageEncryption = 'AES256'
aws {
region = 'us-east-2'
@@ -9,29 +9,7 @@ aws {
process {
executor = 'awsbatch'
- queue = 'highpriority-3278a8b0-1fc8-11ea-b1ac-021e2396e2cc'
+ queue = 'highpriority-'
cpus = 1
memory = '2 GB'
-
- withName:parseMetadata {
- cpus = 5
- }
- withName:getRef {
- cpus = 8
- }
- withName:trimData {
- cpus = 8
- memory = '2 GB'
- }
- withName:alignData {
- cpus = 50
- memory = '5 GB'
- }
- withName:dedupData {
- cpus = 2
- memory = '20 GB'
- }
- withName:fastqc {
- memory = '5 GB'
- }
-}
\ No newline at end of file
+}
diff --git a/workflow/conf/aws_spot.config b/workflow/conf/aws_spot.config
index 4708298..f193569 100755
--- a/workflow/conf/aws_spot.config
+++ b/workflow/conf/aws_spot.config
@@ -1,4 +1,4 @@
-workDir = 's3://gudmap.rbk/work'
+workDir = 's3://'
aws.client.storageEncryption = 'AES256'
aws {
region = 'us-east-2'
@@ -9,29 +9,7 @@ aws {
process {
executor = 'awsbatch'
- queue = 'default-3278a8b0-1fc8-11ea-b1ac-021e2396e2cc'
+ queue = 'default-'
cpus = 1
memory = '2 GB'
-
- withName:parseMetadata {
- cpus = 5
- }
- withName:getRef {
- cpus = 8
- }
- withName:trimData {
- cpus = 8
- memory = '2 GB'
- }
- withName:alignData {
- cpus = 50
- memory = '5 GB'
- }
- withName:dedupData {
- cpus = 2
- memory = '20 GB'
- }
- withName:fastq {
- memory = '5 GB'
- }
}
--
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