From b0a4d2c1c042238ece73aad46ebaafc243385eb1 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Mon, 4 Jun 2018 16:58:30 +0200
Subject: [PATCH] fix docker configuration
---
src/nf_modules/SAMtools/samtools.config | 2 ++
src/nf_modules/UrQt/urqt.config | 2 ++
src/nf_modules/cutadapt/cutadapt.config | 8 ++++----
3 files changed, 8 insertions(+), 4 deletions(-)
diff --git a/src/nf_modules/SAMtools/samtools.config b/src/nf_modules/SAMtools/samtools.config
index 509cdf9..a10e3e5 100644
--- a/src/nf_modules/SAMtools/samtools.config
+++ b/src/nf_modules/SAMtools/samtools.config
@@ -1,5 +1,7 @@
profiles {
docker {
+ docker.temp = 'auto'
+ docker.enabled = true
process {
$sort_bam {
container = "samtools:1.7"
diff --git a/src/nf_modules/UrQt/urqt.config b/src/nf_modules/UrQt/urqt.config
index 0309d09..8e7e40e 100644
--- a/src/nf_modules/UrQt/urqt.config
+++ b/src/nf_modules/UrQt/urqt.config
@@ -1,5 +1,7 @@
profiles {
docker {
+ docker.temp = 'auto'
+ docker.enabled = true
process {
$trimming {
container = "urqt:d62c1f8"
diff --git a/src/nf_modules/cutadapt/cutadapt.config b/src/nf_modules/cutadapt/cutadapt.config
index 79a6478..969ee02 100644
--- a/src/nf_modules/cutadapt/cutadapt.config
+++ b/src/nf_modules/cutadapt/cutadapt.config
@@ -1,9 +1,7 @@
profiles {
docker {
- docker {
- temp = 'auto'
- enabled = true
- }
+ docker.temp = 'auto'
+ docker.enabled = true
process {
$adaptor_removal {
container = "cutadapt:1.14"
@@ -21,6 +19,8 @@ profiles {
profiles {
docker {
+ docker.temp = 'auto'
+ docker.enabled = true
process {
$trimming {
container = "cutadapt:1.14"
--
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