From b905d301853174e240831f0d639a81eed84e2ac8 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Wed, 27 Nov 2019 17:49:15 +0100
Subject: [PATCH] .update_config.sh: exclude nf module from singularity update
---
src/.update_config.sh | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/src/.update_config.sh b/src/.update_config.sh
index c39630d9..b4115057 100644
--- a/src/.update_config.sh
+++ b/src/.update_config.sh
@@ -10,7 +10,7 @@ fd ".*config" -E "nf_modules" src/ -x perl -0777pe 's|\n\s*singularity {\n\s*sin
# update in2p3 config
fd ".*config" -E "nf_modules" src/ -x perl -0777pe 's|\n\s*ccin2p3 {\n\s*singularity.enabled = true|\n ccin2p3 {\n singularity.enabled = true\n singularity.cacheDir = "/sps/lbmc/common/singularity/"|mg' -i {}
fd ".*config" src/ -x perl -pe 's|container = "lbmc//sps/lbmc/common/singularity/(.*).img"|container = "lbmc/\1"|g' -i {}
-fd ".*config" src/ -x perl -0777pe 's|singularity.cacheDir = "/sps/lbmc/common/singularity/"|singularity.cacheDir = "\$baseDir/.src/singularity_in2p3/"|mg' -i {}
+fd ".*config" -E "nf_modules" src/ -x perl -0777pe 's|singularity.cacheDir = "/sps/lbmc/common/singularity/"|singularity.cacheDir = "\$baseDir/.src/singularity_in2p3/"|mg' -i {}
# we remove the ccin2p3_conda section
fd ".*config" -E "nf_modules" src/ -x perl -0777pe "s|\s*ccin2p3_conda {.*ccin2p3 {\n|\n ccin2p3 {\n|msg" -i {}
--
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