From 2b14934bfcbdff096271dcd0f6efbcee70d0a044 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Fri, 13 Dec 2019 17:16:15 +0100
Subject: [PATCH] cutadapt: config change version from 2.1 to 2.4
---
src/nf_modules/cutadapt/adaptor_removal_paired.config | 8 ++++----
src/nf_modules/cutadapt/adaptor_removal_single.config | 8 ++++----
src/nf_modules/cutadapt/trimming_paired.config | 8 ++++----
src/nf_modules/cutadapt/trimming_single.config | 8 ++++----
4 files changed, 16 insertions(+), 16 deletions(-)
diff --git a/src/nf_modules/cutadapt/adaptor_removal_paired.config b/src/nf_modules/cutadapt/adaptor_removal_paired.config
index 13dfac50..ed42799d 100644
--- a/src/nf_modules/cutadapt/adaptor_removal_paired.config
+++ b/src/nf_modules/cutadapt/adaptor_removal_paired.config
@@ -4,7 +4,7 @@ profiles {
docker.enabled = true
process {
withName: adaptor_removal {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
cpus = 1
}
}
@@ -14,7 +14,7 @@ profiles {
singularity.cacheDir = "./bin/"
process {
withName: adaptor_removal {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
cpus = 1
}
}
@@ -23,7 +23,7 @@ profiles {
process{
withName: adaptor_removal {
beforeScript = "source $baseDir/.conda_psmn.sh"
- conda = "$baseDir/.conda_envs/cutadapt_2.1"
+ conda = "$baseDir/.conda_envs/cutadapt_2.4"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
@@ -39,7 +39,7 @@ profiles {
singularity.runOptions = "--bind /pbs,/sps,/scratch"
process{
withName: adaptor_removal {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
scratch = true
stageInMode = "copy"
stageOutMode = "rsync"
diff --git a/src/nf_modules/cutadapt/adaptor_removal_single.config b/src/nf_modules/cutadapt/adaptor_removal_single.config
index 13dfac50..ed42799d 100644
--- a/src/nf_modules/cutadapt/adaptor_removal_single.config
+++ b/src/nf_modules/cutadapt/adaptor_removal_single.config
@@ -4,7 +4,7 @@ profiles {
docker.enabled = true
process {
withName: adaptor_removal {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
cpus = 1
}
}
@@ -14,7 +14,7 @@ profiles {
singularity.cacheDir = "./bin/"
process {
withName: adaptor_removal {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
cpus = 1
}
}
@@ -23,7 +23,7 @@ profiles {
process{
withName: adaptor_removal {
beforeScript = "source $baseDir/.conda_psmn.sh"
- conda = "$baseDir/.conda_envs/cutadapt_2.1"
+ conda = "$baseDir/.conda_envs/cutadapt_2.4"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
@@ -39,7 +39,7 @@ profiles {
singularity.runOptions = "--bind /pbs,/sps,/scratch"
process{
withName: adaptor_removal {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
scratch = true
stageInMode = "copy"
stageOutMode = "rsync"
diff --git a/src/nf_modules/cutadapt/trimming_paired.config b/src/nf_modules/cutadapt/trimming_paired.config
index 222663bc..8c158c0e 100644
--- a/src/nf_modules/cutadapt/trimming_paired.config
+++ b/src/nf_modules/cutadapt/trimming_paired.config
@@ -4,7 +4,7 @@ profiles {
docker.enabled = true
process {
withName: trimming {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
cpus = 1
}
}
@@ -14,7 +14,7 @@ profiles {
singularity.cacheDir = "./bin/"
process {
withName: trimming {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
cpus = 1
}
}
@@ -23,7 +23,7 @@ profiles {
process{
withName: trimming {
beforeScript = "source $baseDir/.conda_psmn.sh"
- conda = "$baseDir/.conda_envs/cutadapt_2.1"
+ conda = "$baseDir/.conda_envs/cutadapt_2.4"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
@@ -39,7 +39,7 @@ profiles {
singularity.runOptions = "--bind /pbs,/sps,/scratch"
process{
withName: trimming {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
scratch = true
stageInMode = "copy"
stageOutMode = "rsync"
diff --git a/src/nf_modules/cutadapt/trimming_single.config b/src/nf_modules/cutadapt/trimming_single.config
index 222663bc..8c158c0e 100644
--- a/src/nf_modules/cutadapt/trimming_single.config
+++ b/src/nf_modules/cutadapt/trimming_single.config
@@ -4,7 +4,7 @@ profiles {
docker.enabled = true
process {
withName: trimming {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
cpus = 1
}
}
@@ -14,7 +14,7 @@ profiles {
singularity.cacheDir = "./bin/"
process {
withName: trimming {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
cpus = 1
}
}
@@ -23,7 +23,7 @@ profiles {
process{
withName: trimming {
beforeScript = "source $baseDir/.conda_psmn.sh"
- conda = "$baseDir/.conda_envs/cutadapt_2.1"
+ conda = "$baseDir/.conda_envs/cutadapt_2.4"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
@@ -39,7 +39,7 @@ profiles {
singularity.runOptions = "--bind /pbs,/sps,/scratch"
process{
withName: trimming {
- container = "lbmc/cutadapt:2.1"
+ container = "lbmc/cutadapt:2.4"
scratch = true
stageInMode = "copy"
stageOutMode = "rsync"
--
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