From e057e9a1ca807903cef3fa882822fbacb531b1d7 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Wed, 24 Oct 2018 15:17:00 +0200
Subject: [PATCH] add clusterOption for psmn to all config files
---
src/nf_modules/BEDtools/fasta_from_bed.config | 1 +
src/nf_modules/BWA/indexing.config | 1 +
src/nf_modules/BWA/mapping_paired.config | 1 +
src/nf_modules/Bowtie/indexing.config | 1 +
src/nf_modules/Bowtie/mapping_paired.config | 1 +
src/nf_modules/Bowtie/mapping_single.config | 1 +
src/nf_modules/Bowtie2/indexing.config | 1 +
src/nf_modules/Bowtie2/mapping_paired.config | 1 +
src/nf_modules/Bowtie2/mapping_single.config | 1 +
src/nf_modules/FastQC/fastqc_paired.config | 1 +
src/nf_modules/FastQC/fastqc_single.config | 1 +
src/nf_modules/HTSeq/htseq.config | 2 ++
src/nf_modules/Kallisto/indexing.config | 1 +
src/nf_modules/Kallisto/mapping_paired.config | 1 +
src/nf_modules/Kallisto/mapping_single.config | 1 +
src/nf_modules/MUSIC/peak_calling_single.config | 3 +++
src/nf_modules/MultiQC/multiqc_paired.config | 2 ++
src/nf_modules/MultiQC/multiqc_single.config | 2 ++
src/nf_modules/RSEM/indexing.config | 1 +
src/nf_modules/RSEM/quantification_paired.config | 1 +
src/nf_modules/RSEM/quantification_single.config | 1 +
src/nf_modules/SAMtools/filter_bams.config | 1 +
src/nf_modules/SAMtools/index_bams.config | 1 +
src/nf_modules/SAMtools/sort_bams.config | 1 +
src/nf_modules/SAMtools/split_bams.config | 1 +
src/nf_modules/SRAtoolkit/fastqdump.config | 1 +
src/nf_modules/UrQt/trimming_paired.config | 1 +
src/nf_modules/UrQt/trimming_single.config | 1 +
src/nf_modules/cutadapt/adaptor_removal_paired.config | 1 +
src/nf_modules/cutadapt/adaptor_removal_single.config | 1 +
src/nf_modules/cutadapt/trimming_paired.config | 1 +
src/nf_modules/cutadapt/trimming_single.config | 1 +
src/nf_modules/sambamba/index_bams.config | 1 +
src/nf_modules/sambamba/sort_bams.config | 1 +
src/nf_modules/sambamba/split_bams.config | 1 +
src/nf_modules/samblaster/dedup_sams.config | 1 +
36 files changed, 41 insertions(+)
diff --git a/src/nf_modules/BEDtools/fasta_from_bed.config b/src/nf_modules/BEDtools/fasta_from_bed.config
index cae561d7..a297b911 100644
--- a/src/nf_modules/BEDtools/fasta_from_bed.config
+++ b/src/nf_modules/BEDtools/fasta_from_bed.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "BEDtools/2.25.0"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/BWA/indexing.config b/src/nf_modules/BWA/indexing.config
index 03c2f639..6aaed59d 100644
--- a/src/nf_modules/BWA/indexing.config
+++ b/src/nf_modules/BWA/indexing.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "BWA/0.7.17"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "30GB"
time = "12h"
diff --git a/src/nf_modules/BWA/mapping_paired.config b/src/nf_modules/BWA/mapping_paired.config
index cbf47e27..141819be 100644
--- a/src/nf_modules/BWA/mapping_paired.config
+++ b/src/nf_modules/BWA/mapping_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "BWA/0.7.17"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/Bowtie/indexing.config b/src/nf_modules/Bowtie/indexing.config
index 1a0763ba..f52e36ad 100644
--- a/src/nf_modules/Bowtie/indexing.config
+++ b/src/nf_modules/Bowtie/indexing.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Bowtie/1.2.2"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/Bowtie/mapping_paired.config b/src/nf_modules/Bowtie/mapping_paired.config
index a2def455..4b87972b 100644
--- a/src/nf_modules/Bowtie/mapping_paired.config
+++ b/src/nf_modules/Bowtie/mapping_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Bowtie/1.2.2:SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/Bowtie/mapping_single.config b/src/nf_modules/Bowtie/mapping_single.config
index a2def455..4b87972b 100644
--- a/src/nf_modules/Bowtie/mapping_single.config
+++ b/src/nf_modules/Bowtie/mapping_single.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Bowtie/1.2.2:SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/Bowtie2/indexing.config b/src/nf_modules/Bowtie2/indexing.config
index 0dc5c3a1..8db956f3 100644
--- a/src/nf_modules/Bowtie2/indexing.config
+++ b/src/nf_modules/Bowtie2/indexing.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Bowtie2/2.3.4.1"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/Bowtie2/mapping_paired.config b/src/nf_modules/Bowtie2/mapping_paired.config
index f97a1763..05836c43 100644
--- a/src/nf_modules/Bowtie2/mapping_paired.config
+++ b/src/nf_modules/Bowtie2/mapping_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Bowtie2/2.3.4.1:SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/Bowtie2/mapping_single.config b/src/nf_modules/Bowtie2/mapping_single.config
index f97a1763..05836c43 100644
--- a/src/nf_modules/Bowtie2/mapping_single.config
+++ b/src/nf_modules/Bowtie2/mapping_single.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Bowtie2/2.3.4.1:SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/FastQC/fastqc_paired.config b/src/nf_modules/FastQC/fastqc_paired.config
index 67e68c78..7d37077b 100644
--- a/src/nf_modules/FastQC/fastqc_paired.config
+++ b/src/nf_modules/FastQC/fastqc_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "FastQC/0.11.5"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/FastQC/fastqc_single.config b/src/nf_modules/FastQC/fastqc_single.config
index 67e68c78..7d37077b 100644
--- a/src/nf_modules/FastQC/fastqc_single.config
+++ b/src/nf_modules/FastQC/fastqc_single.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "FastQC/0.11.5"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/HTSeq/htseq.config b/src/nf_modules/HTSeq/htseq.config
index 8aa704c3..49dc99b0 100644
--- a/src/nf_modules/HTSeq/htseq.config
+++ b/src/nf_modules/HTSeq/htseq.config
@@ -17,6 +17,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
@@ -26,6 +27,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "HTSeq/0.8.0"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/Kallisto/indexing.config b/src/nf_modules/Kallisto/indexing.config
index a76c54b4..84fe9803 100644
--- a/src/nf_modules/Kallisto/indexing.config
+++ b/src/nf_modules/Kallisto/indexing.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Kallisto/0.44.0"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/Kallisto/mapping_paired.config b/src/nf_modules/Kallisto/mapping_paired.config
index abd3b130..b7c2ff41 100644
--- a/src/nf_modules/Kallisto/mapping_paired.config
+++ b/src/nf_modules/Kallisto/mapping_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Kallisto/0.44.0"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/Kallisto/mapping_single.config b/src/nf_modules/Kallisto/mapping_single.config
index abd3b130..b7c2ff41 100644
--- a/src/nf_modules/Kallisto/mapping_single.config
+++ b/src/nf_modules/Kallisto/mapping_single.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "Kallisto/0.44.0"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/MUSIC/peak_calling_single.config b/src/nf_modules/MUSIC/peak_calling_single.config
index 57fed998..ee43a051 100644
--- a/src/nf_modules/MUSIC/peak_calling_single.config
+++ b/src/nf_modules/MUSIC/peak_calling_single.config
@@ -20,6 +20,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "MUSIC/6613c53"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
@@ -29,6 +30,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "MUSIC/6613c53"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
@@ -38,6 +40,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "MUSIC/6613c53"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/MultiQC/multiqc_paired.config b/src/nf_modules/MultiQC/multiqc_paired.config
index fd3f4331..fff1d7be 100644
--- a/src/nf_modules/MultiQC/multiqc_paired.config
+++ b/src/nf_modules/MultiQC/multiqc_paired.config
@@ -18,6 +18,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "FastQC/0.11.5"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
@@ -29,6 +30,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "MultiQC/1.0"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
diff --git a/src/nf_modules/MultiQC/multiqc_single.config b/src/nf_modules/MultiQC/multiqc_single.config
index 786bbebc..abc81de4 100644
--- a/src/nf_modules/MultiQC/multiqc_single.config
+++ b/src/nf_modules/MultiQC/multiqc_single.config
@@ -17,6 +17,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "FastQC/0.11.5"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
@@ -28,6 +29,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "MultiQC/1.0"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
diff --git a/src/nf_modules/RSEM/indexing.config b/src/nf_modules/RSEM/indexing.config
index 59cdf8fa..3114ab31 100644
--- a/src/nf_modules/RSEM/indexing.config
+++ b/src/nf_modules/RSEM/indexing.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "RSEM/1.3.0:SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/RSEM/quantification_paired.config b/src/nf_modules/RSEM/quantification_paired.config
index fe729b9c..86386ae0 100644
--- a/src/nf_modules/RSEM/quantification_paired.config
+++ b/src/nf_modules/RSEM/quantification_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "RSEM/1.3.0:SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/RSEM/quantification_single.config b/src/nf_modules/RSEM/quantification_single.config
index fe729b9c..86386ae0 100644
--- a/src/nf_modules/RSEM/quantification_single.config
+++ b/src/nf_modules/RSEM/quantification_single.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "RSEM/1.3.0:SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/SAMtools/filter_bams.config b/src/nf_modules/SAMtools/filter_bams.config
index 94b96d49..5525c61f 100644
--- a/src/nf_modules/SAMtools/filter_bams.config
+++ b/src/nf_modules/SAMtools/filter_bams.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/SAMtools/index_bams.config b/src/nf_modules/SAMtools/index_bams.config
index dcc102d6..a87ad5bf 100644
--- a/src/nf_modules/SAMtools/index_bams.config
+++ b/src/nf_modules/SAMtools/index_bams.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/SAMtools/sort_bams.config b/src/nf_modules/SAMtools/sort_bams.config
index 14a6c7ee..111683a2 100644
--- a/src/nf_modules/SAMtools/sort_bams.config
+++ b/src/nf_modules/SAMtools/sort_bams.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/SAMtools/split_bams.config b/src/nf_modules/SAMtools/split_bams.config
index 707b20d5..e1f43fa9 100644
--- a/src/nf_modules/SAMtools/split_bams.config
+++ b/src/nf_modules/SAMtools/split_bams.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "SAMtools/1.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/SRAtoolkit/fastqdump.config b/src/nf_modules/SRAtoolkit/fastqdump.config
index bedbcd57..19937da5 100644
--- a/src/nf_modules/SRAtoolkit/fastqdump.config
+++ b/src/nf_modules/SRAtoolkit/fastqdump.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "SRAtoolkit/2.8.2"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/UrQt/trimming_paired.config b/src/nf_modules/UrQt/trimming_paired.config
index f11ad74f..ba68637b 100644
--- a/src/nf_modules/UrQt/trimming_paired.config
+++ b/src/nf_modules/UrQt/trimming_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "UrQt/d62c1f8"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "5GB"
time = "12h"
diff --git a/src/nf_modules/UrQt/trimming_single.config b/src/nf_modules/UrQt/trimming_single.config
index f11ad74f..ba68637b 100644
--- a/src/nf_modules/UrQt/trimming_single.config
+++ b/src/nf_modules/UrQt/trimming_single.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "UrQt/d62c1f8"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "5GB"
time = "12h"
diff --git a/src/nf_modules/cutadapt/adaptor_removal_paired.config b/src/nf_modules/cutadapt/adaptor_removal_paired.config
index dfc86004..d981cd30 100644
--- a/src/nf_modules/cutadapt/adaptor_removal_paired.config
+++ b/src/nf_modules/cutadapt/adaptor_removal_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "cutadapt/1.14"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/cutadapt/adaptor_removal_single.config b/src/nf_modules/cutadapt/adaptor_removal_single.config
index dfc86004..d981cd30 100644
--- a/src/nf_modules/cutadapt/adaptor_removal_single.config
+++ b/src/nf_modules/cutadapt/adaptor_removal_single.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "cutadapt/1.14"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/cutadapt/trimming_paired.config b/src/nf_modules/cutadapt/trimming_paired.config
index 82b26049..b433677f 100644
--- a/src/nf_modules/cutadapt/trimming_paired.config
+++ b/src/nf_modules/cutadapt/trimming_paired.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "cutadapt/1.14"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/cutadapt/trimming_single.config b/src/nf_modules/cutadapt/trimming_single.config
index 82b26049..b433677f 100644
--- a/src/nf_modules/cutadapt/trimming_single.config
+++ b/src/nf_modules/cutadapt/trimming_single.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "cutadapt/1.14"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/sambamba/index_bams.config b/src/nf_modules/sambamba/index_bams.config
index e4eeaa0f..ea511a0b 100644
--- a/src/nf_modules/sambamba/index_bams.config
+++ b/src/nf_modules/sambamba/index_bams.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "sambamba/0.6.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/sambamba/sort_bams.config b/src/nf_modules/sambamba/sort_bams.config
index 5c03e740..6ad67ab0 100644
--- a/src/nf_modules/sambamba/sort_bams.config
+++ b/src/nf_modules/sambamba/sort_bams.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "sambamba/0.6.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/sambamba/split_bams.config b/src/nf_modules/sambamba/split_bams.config
index dc0b2d35..fe8e3ab8 100644
--- a/src/nf_modules/sambamba/split_bams.config
+++ b/src/nf_modules/sambamba/split_bams.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "sambamba/0.6.7"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/samblaster/dedup_sams.config b/src/nf_modules/samblaster/dedup_sams.config
index 06abf41e..eeba96b2 100644
--- a/src/nf_modules/samblaster/dedup_sams.config
+++ b/src/nf_modules/samblaster/dedup_sams.config
@@ -14,6 +14,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "samblaster/0.1.24"
executor = "sge"
+ clusterOptions = "-m e -cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
--
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