Bowtie2: nf update config for psmn

src/nf_modules/Bowtie2/indexing.config

@@ -3,15 +3,22 @@ profiles {
     docker.temp = 'auto'
     docker.enabled = true
     process {
-      withname: index_fasta {
+      withname: mapping_fastq {
         container = "bowtie2:2.3.4.1"
       }
     }
   }
   psmn {
     process{
-      withname: index_fasta {
-        beforeScript = "module purge; module load Bowtie2/2.3.4.1"
+      withname: mapping_fastq {
+        beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
+        module = "Bowtie2/2.3.4.1"
+        executor = "sge"
+        cpus = 16
+        memory = "30GB"
+        time = "24h"
+        queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
+        penv = 'openmp16'
       }
     }
   }

src/nf_modules/Bowtie2/mapping_paired.config

@@ -11,7 +11,14 @@ profiles {
   psmn {
     process{
       withname: mapping_fastq {
-        beforeScript = "module purge; module load SAMtools/1.7; module load Bowtie2/2.3.4.1"
+        beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
+        module = "Bowtie2/2.3.4.1:SAMtools/1.7"
+        executor = "sge"
+        cpus = 16
+        memory = "30GB"
+        time = "24h"
+        queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
+        penv = 'openmp16'
       }
     }
   }

src/nf_modules/Bowtie2/mapping_single.config

@@ -11,7 +11,14 @@ profiles {
   psmn {
     process{
       withname: mapping_fastq {
-        beforeScript = "module purge; module load SAMtools/1.7; module load Bowtie2/2.3.4.1"
+        beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
+        module = "Bowtie2/2.3.4.1:SAMtools/1.7"
+        executor = "sge"
+        cpus = 16
+        memory = "30GB"
+        time = "24h"
+        queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
+        penv = 'openmp16'
       }
     }
   }