nf modules config: remove cpus info

src/nf_modules/BEDtools/fasta_from_bed.config

@@ -15,7 +15,6 @@ profiles {
         module = "BEDtools/2.25.0"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'

src/nf_modules/BWA/indexing.config

@@ -15,7 +15,6 @@ profiles {
         module = "BWA/0.7.17"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "30GB"
         time = "12h"
         queue = 'monointeldeb128'

src/nf_modules/BWA/mapping_paired.config

@@ -15,7 +15,6 @@ profiles {
         module = "BWA/0.7.17"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/Bowtie/indexing.config

@@ -15,7 +15,6 @@ profiles {
         module = "Bowtie/1.2.2"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'

src/nf_modules/Bowtie/mapping_paired.config

@@ -15,7 +15,6 @@ profiles {
         module = "Bowtie/1.2.2:SAMtools/1.7"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/Bowtie/mapping_single.config

@@ -15,7 +15,6 @@ profiles {
         module = "Bowtie/1.2.2:SAMtools/1.7"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/Bowtie2/indexing.config

@@ -15,11 +15,9 @@ profiles {
         module = "Bowtie2/2.3.4.1"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
-        memory = "30GB"
-        time = "24h"
-        queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
-        penv = 'openmp16'
+        memory = "20GB"
+        time = "12h"
+        queue = 'monointeldeb128'
       }
     }
   }

src/nf_modules/Bowtie2/mapping_paired.config

@@ -15,7 +15,6 @@ profiles {
         module = "Bowtie2/2.3.4.1:SAMtools/1.7"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/Bowtie2/mapping_single.config

@@ -15,7 +15,6 @@ profiles {
         module = "Bowtie2/2.3.4.1:SAMtools/1.7"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/FastQC/fastqc_paired.config

@@ -15,7 +15,6 @@ profiles {
         module = "FastQC/0.11.5"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'

src/nf_modules/FastQC/fastqc_single.config

@@ -15,7 +15,6 @@ profiles {
         module = "FastQC/0.11.5"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'

src/nf_modules/HTSeq/htseq.config

@@ -18,7 +18,6 @@ profiles {
         module = "SAMtools/1.7"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'
@@ -28,7 +27,6 @@ profiles {
         module = "HTSeq/0.8.0"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'

src/nf_modules/Kallisto/indexing.config

@@ -15,7 +15,6 @@ profiles {
         module = "Kallisto/0.44.0"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/Kallisto/mapping_paired.config

@@ -15,7 +15,6 @@ profiles {
         module = "Kallisto/0.44.0"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/Kallisto/mapping_single.config

@@ -15,7 +15,6 @@ profiles {
         module = "Kallisto/0.44.0"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/MUSIC/peak_calling_single.config

@@ -21,7 +21,6 @@ profiles {
         module = "MUSIC/6613c53"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'
@@ -31,7 +30,6 @@ profiles {
         module = "MUSIC/6613c53"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'
@@ -41,7 +39,6 @@ profiles {
         module = "MUSIC/6613c53"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "20GB"
         time = "12h"
         queue = 'monointeldeb128'

src/nf_modules/MultiQC/multiqc_paired.config

@@ -19,7 +19,6 @@ profiles {
         module = "FastQC/0.11.5"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "5GB"
         time = "6h"
         queueSize = 1000
@@ -31,7 +30,6 @@ profiles {
         module = "MultiQC/1.0"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "5GB"
         time = "6h"
         queueSize = 1000

src/nf_modules/MultiQC/multiqc_single.config

@@ -18,7 +18,6 @@ profiles {
         module = "FastQC/0.11.5"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "5GB"
         time = "6h"
         queueSize = 1000
@@ -30,7 +29,6 @@ profiles {
         module = "MultiQC/1.0"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 1
         memory = "5GB"
         time = "6h"
         queueSize = 1000

src/nf_modules/RSEM/indexing.config

@@ -15,7 +15,6 @@ profiles {
         module = "RSEM/1.3.0:SAMtools/1.7"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'

src/nf_modules/RSEM/quantification_paired.config

@@ -15,7 +15,6 @@ profiles {
         module = "RSEM/1.3.0:SAMtools/1.7"
         executor = "sge"
         clusterOptions = "-m e -cwd -V"
-        cpus = 16
         memory = "30GB"
         time = "24h"
         queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'