From 016b5b226778f3a832d91937ac6b331da2d6ff16 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Fri, 22 Mar 2019 13:22:48 +0100
Subject: [PATCH] psmn: remove mail report from config files
---
src/nf_modules/bedtools/fasta_from_bed.config | 2 +-
src/nf_modules/bowtie/indexing.config | 2 +-
src/nf_modules/bowtie/mapping_paired.config | 2 +-
src/nf_modules/bowtie/mapping_single.config | 2 +-
src/nf_modules/bowtie2/indexing.config | 2 +-
src/nf_modules/bowtie2/mapping_paired.config | 2 +-
src/nf_modules/bowtie2/mapping_single.config | 2 +-
src/nf_modules/bwa/indexing.config | 2 +-
src/nf_modules/bwa/mapping_paired.config | 2 +-
src/nf_modules/cutadapt/adaptor_removal_paired.config | 2 +-
src/nf_modules/cutadapt/adaptor_removal_single.config | 2 +-
src/nf_modules/cutadapt/trimming_paired.config | 2 +-
src/nf_modules/cutadapt/trimming_single.config | 2 +-
src/nf_modules/deeptools/bam_to_bigwig.config | 4 ++--
src/nf_modules/deeptools/compute_matrix.config | 2 +-
src/nf_modules/deeptools/plot_profile.config | 2 +-
src/nf_modules/fastqc/fastqc_paired.config | 2 +-
src/nf_modules/fastqc/fastqc_single.config | 2 +-
src/nf_modules/htseq/htseq.config | 4 ++--
src/nf_modules/kallisto/indexing.config | 2 +-
src/nf_modules/kallisto/mapping_paired.config | 2 +-
src/nf_modules/kallisto/mapping_single.config | 2 +-
src/nf_modules/macs2/peak_calling.config | 2 +-
src/nf_modules/multiqc/multiqc_paired.config | 4 ++--
src/nf_modules/multiqc/multiqc_single.config | 4 ++--
src/nf_modules/music/peak_calling_single.config | 6 +++---
src/nf_modules/rsem/indexing.config | 2 +-
src/nf_modules/rsem/quantification_paired.config | 2 +-
src/nf_modules/rsem/quantification_single.config | 2 +-
src/nf_modules/sambamba/index_bams.config | 2 +-
src/nf_modules/sambamba/sort_bams.config | 2 +-
src/nf_modules/sambamba/split_bams.config | 2 +-
src/nf_modules/samblaster/dedup_sams.config | 2 +-
src/nf_modules/samtools/filter_bams.config | 2 +-
src/nf_modules/samtools/index_bams.config | 2 +-
src/nf_modules/samtools/sort_bams.config | 2 +-
src/nf_modules/samtools/split_bams.config | 2 +-
src/nf_modules/sratoolkit/fastqdump.config | 2 +-
src/nf_modules/urqt/trimming_paired.config | 2 +-
src/nf_modules/urqt/trimming_single.config | 2 +-
40 files changed, 46 insertions(+), 46 deletions(-)
diff --git a/src/nf_modules/bedtools/fasta_from_bed.config b/src/nf_modules/bedtools/fasta_from_bed.config
index 1e1aad47..1875f439 100644
--- a/src/nf_modules/bedtools/fasta_from_bed.config
+++ b/src/nf_modules/bedtools/fasta_from_bed.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "bedtools/2.25.0"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/bowtie/indexing.config b/src/nf_modules/bowtie/indexing.config
index 9ae43af6..715847fb 100644
--- a/src/nf_modules/bowtie/indexing.config
+++ b/src/nf_modules/bowtie/indexing.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "bowtie/1.2.2"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
memory = "20GB"
cpus = 16
time = "12h"
diff --git a/src/nf_modules/bowtie/mapping_paired.config b/src/nf_modules/bowtie/mapping_paired.config
index e516bc30..0936530d 100644
--- a/src/nf_modules/bowtie/mapping_paired.config
+++ b/src/nf_modules/bowtie/mapping_paired.config
@@ -24,7 +24,7 @@ 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"
+ clusterOptions = "-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 e516bc30..0936530d 100644
--- a/src/nf_modules/bowtie/mapping_single.config
+++ b/src/nf_modules/bowtie/mapping_single.config
@@ -24,7 +24,7 @@ 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"
+ clusterOptions = "-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 0589f4dd..3d0da943 100644
--- a/src/nf_modules/bowtie2/indexing.config
+++ b/src/nf_modules/bowtie2/indexing.config
@@ -24,7 +24,7 @@ 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"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/bowtie2/mapping_paired.config b/src/nf_modules/bowtie2/mapping_paired.config
index eee236b7..54410c46 100644
--- a/src/nf_modules/bowtie2/mapping_paired.config
+++ b/src/nf_modules/bowtie2/mapping_paired.config
@@ -24,7 +24,7 @@ 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"
+ clusterOptions = "-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 eee236b7..54410c46 100644
--- a/src/nf_modules/bowtie2/mapping_single.config
+++ b/src/nf_modules/bowtie2/mapping_single.config
@@ -24,7 +24,7 @@ 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"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/bwa/indexing.config b/src/nf_modules/bwa/indexing.config
index aa5967be..f391241a 100644
--- a/src/nf_modules/bwa/indexing.config
+++ b/src/nf_modules/bwa/indexing.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "bwa/0.7.17"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/bwa/mapping_paired.config b/src/nf_modules/bwa/mapping_paired.config
index e71fc949..700b1983 100644
--- a/src/nf_modules/bwa/mapping_paired.config
+++ b/src/nf_modules/bwa/mapping_paired.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "bwa/0.7.17"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/cutadapt/adaptor_removal_paired.config b/src/nf_modules/cutadapt/adaptor_removal_paired.config
index 903ed680..4f5b5b04 100644
--- a/src/nf_modules/cutadapt/adaptor_removal_paired.config
+++ b/src/nf_modules/cutadapt/adaptor_removal_paired.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "cutadapt/1.14"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 903ed680..4f5b5b04 100644
--- a/src/nf_modules/cutadapt/adaptor_removal_single.config
+++ b/src/nf_modules/cutadapt/adaptor_removal_single.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "cutadapt/1.14"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 9dce3d72..023d9758 100644
--- a/src/nf_modules/cutadapt/trimming_paired.config
+++ b/src/nf_modules/cutadapt/trimming_paired.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "cutadapt/1.14"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 9dce3d72..023d9758 100644
--- a/src/nf_modules/cutadapt/trimming_single.config
+++ b/src/nf_modules/cutadapt/trimming_single.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "cutadapt/1.14"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/deeptools/bam_to_bigwig.config b/src/nf_modules/deeptools/bam_to_bigwig.config
index c3edbc6f..209ae8c9 100644
--- a/src/nf_modules/deeptools/bam_to_bigwig.config
+++ b/src/nf_modules/deeptools/bam_to_bigwig.config
@@ -32,7 +32,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "sambamba/0.6.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
@@ -43,7 +43,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "deeptools/3.0.2"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/deeptools/compute_matrix.config b/src/nf_modules/deeptools/compute_matrix.config
index c2c64bf4..471dde0a 100644
--- a/src/nf_modules/deeptools/compute_matrix.config
+++ b/src/nf_modules/deeptools/compute_matrix.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "deeptools/3.0.2"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/deeptools/plot_profile.config b/src/nf_modules/deeptools/plot_profile.config
index 11626d8b..306f3a90 100644
--- a/src/nf_modules/deeptools/plot_profile.config
+++ b/src/nf_modules/deeptools/plot_profile.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "deeptools/3.0.2"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 78abe927..9e75046a 100644
--- a/src/nf_modules/fastqc/fastqc_paired.config
+++ b/src/nf_modules/fastqc/fastqc_paired.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "fastqc/0.11.5"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 78abe927..9e75046a 100644
--- a/src/nf_modules/fastqc/fastqc_single.config
+++ b/src/nf_modules/fastqc/fastqc_single.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "fastqc/0.11.5"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 95eff69c..9e0a4e57 100644
--- a/src/nf_modules/htseq/htseq.config
+++ b/src/nf_modules/htseq/htseq.config
@@ -28,7 +28,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "samtools/1.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
@@ -38,7 +38,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "htseq/0.8.0"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 2db7e1d6..49bc912a 100644
--- a/src/nf_modules/kallisto/indexing.config
+++ b/src/nf_modules/kallisto/indexing.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "kallisto/0.44.0"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 3a26a4fe..ef499149 100644
--- a/src/nf_modules/kallisto/mapping_paired.config
+++ b/src/nf_modules/kallisto/mapping_paired.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "kallisto/0.44.0"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 3a26a4fe..ef499149 100644
--- a/src/nf_modules/kallisto/mapping_single.config
+++ b/src/nf_modules/kallisto/mapping_single.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "kallisto/0.44.0"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/macs2/peak_calling.config b/src/nf_modules/macs2/peak_calling.config
index fa0c6d38..8462ab86 100644
--- a/src/nf_modules/macs2/peak_calling.config
+++ b/src/nf_modules/macs2/peak_calling.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "macs2/2.1.2"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/multiqc/multiqc_paired.config b/src/nf_modules/multiqc/multiqc_paired.config
index 9e16c674..67e90317 100644
--- a/src/nf_modules/multiqc/multiqc_paired.config
+++ b/src/nf_modules/multiqc/multiqc_paired.config
@@ -33,7 +33,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "fastqc/0.11.5"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
@@ -45,7 +45,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "multiqc/1.0"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 56a734c8..cdab351f 100644
--- a/src/nf_modules/multiqc/multiqc_single.config
+++ b/src/nf_modules/multiqc/multiqc_single.config
@@ -32,7 +32,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "fastqc/0.11.5"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
@@ -44,7 +44,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "multiqc/1.0"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
diff --git a/src/nf_modules/music/peak_calling_single.config b/src/nf_modules/music/peak_calling_single.config
index 713c2e7a..d21fe81d 100644
--- a/src/nf_modules/music/peak_calling_single.config
+++ b/src/nf_modules/music/peak_calling_single.config
@@ -40,7 +40,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "music/6613c53"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
@@ -50,7 +50,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "music/6613c53"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
@@ -60,7 +60,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "music/6613c53"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
diff --git a/src/nf_modules/rsem/indexing.config b/src/nf_modules/rsem/indexing.config
index f7265d65..aeea35fe 100644
--- a/src/nf_modules/rsem/indexing.config
+++ b/src/nf_modules/rsem/indexing.config
@@ -24,7 +24,7 @@ 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"
+ clusterOptions = "-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 520a7064..812167ed 100644
--- a/src/nf_modules/rsem/quantification_paired.config
+++ b/src/nf_modules/rsem/quantification_paired.config
@@ -24,7 +24,7 @@ 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"
+ clusterOptions = "-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 520a7064..812167ed 100644
--- a/src/nf_modules/rsem/quantification_single.config
+++ b/src/nf_modules/rsem/quantification_single.config
@@ -24,7 +24,7 @@ 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"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/sambamba/index_bams.config b/src/nf_modules/sambamba/index_bams.config
index c76c7313..8cbbd24b 100644
--- a/src/nf_modules/sambamba/index_bams.config
+++ b/src/nf_modules/sambamba/index_bams.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "sambamba/0.6.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 93a82673..11811d97 100644
--- a/src/nf_modules/sambamba/sort_bams.config
+++ b/src/nf_modules/sambamba/sort_bams.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "sambamba/0.6.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 4
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/sambamba/split_bams.config b/src/nf_modules/sambamba/split_bams.config
index 13d39259..6df50fc7 100644
--- a/src/nf_modules/sambamba/split_bams.config
+++ b/src/nf_modules/sambamba/split_bams.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "sambamba/0.6.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 f98a94ca..75efda22 100644
--- a/src/nf_modules/samblaster/dedup_sams.config
+++ b/src/nf_modules/samblaster/dedup_sams.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "samblaster/0.1.24"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 0d411c50..87d99007 100644
--- a/src/nf_modules/samtools/filter_bams.config
+++ b/src/nf_modules/samtools/filter_bams.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "samtools/1.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/samtools/index_bams.config b/src/nf_modules/samtools/index_bams.config
index 3f70dc27..762773b4 100644
--- a/src/nf_modules/samtools/index_bams.config
+++ b/src/nf_modules/samtools/index_bams.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "samtools/1.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 8a84a222..63c23123 100644
--- a/src/nf_modules/samtools/sort_bams.config
+++ b/src/nf_modules/samtools/sort_bams.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "samtools/1.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "30GB"
time = "24h"
diff --git a/src/nf_modules/samtools/split_bams.config b/src/nf_modules/samtools/split_bams.config
index 8b285ac9..de924648 100644
--- a/src/nf_modules/samtools/split_bams.config
+++ b/src/nf_modules/samtools/split_bams.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "samtools/1.7"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 9a0a30cf..2fc5039f 100644
--- a/src/nf_modules/sratoolkit/fastqdump.config
+++ b/src/nf_modules/sratoolkit/fastqdump.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "sratoolkit/2.8.2"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-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 ce5d5736..f0b084b8 100644
--- a/src/nf_modules/urqt/trimming_paired.config
+++ b/src/nf_modules/urqt/trimming_paired.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "urqt/d62c1f8"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
memory = "5GB"
cpus = 16
time = "12h"
diff --git a/src/nf_modules/urqt/trimming_single.config b/src/nf_modules/urqt/trimming_single.config
index 74503ba1..02788fcb 100644
--- a/src/nf_modules/urqt/trimming_single.config
+++ b/src/nf_modules/urqt/trimming_single.config
@@ -24,7 +24,7 @@ profiles {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "urqt/d62c1f8"
executor = "sge"
- clusterOptions = "-m e -cwd -V"
+ clusterOptions = "-cwd -V"
cpus = 16
memory = "5GB"
time = "12h"
--
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