SNP_calling.config: rename some module to load

src/SNP_calling.config

@@ -71,7 +71,7 @@ profiles {
         penv = 'openmp16'
       }
       withName: index_fasta {
-        beforeScript = "module purge; module load Bowtie2/2.3.4.1"
+        beforeScript = "module purge; module load Bowtie2/2.3.4.1; module load sambamba/0.6.7; module load samblaster/0.6.7"
         executor = "sge"
         cpus = 1
         memory = "30GB"
@@ -125,7 +125,7 @@ profiles {
         penv = 'openmp16'
       }
       withName: index2_fasta {
-        beforeScript = "module purge; module load gatk/4.0.8.1"
+        beforeScript = "module purge; module load GATK/4.0.8.1"
         executor = "sge"
         cpus = 1
         memory = "20GB"
@@ -145,7 +145,7 @@ profiles {
         queue = 'monointeldeb128'
       }
       withName: samtools_SNP_tumor {
-        beforeScript = "module purge; module load bcftools/1.7"
+        beforeScript = "module purge; module load BCFtools/1.7"
         executor = "sge"
         cpus = 1
         memory = "20GB"
@@ -155,7 +155,7 @@ profiles {
         queue = 'monointeldeb128'
       }
       withName: samtools_SNP_norm {
-        beforeScript = "module purge; module load bcftools/1.7"
+        beforeScript = "module purge; module load BCFtools/1.7"
         executor = "sge"
         cpus = 1
         memory = "20GB"
@@ -165,7 +165,7 @@ profiles {
         queue = 'monointeldeb128'
       }
       withName: vcf_to_csv_tumor {
-        beforeScript = "module purge; module load gatk/4.0.8.1"
+        beforeScript = "module purge; module load GATK/4.0.8.1"
         executor = "sge"
         cpus = 1
         memory = "20GB"
@@ -175,7 +175,7 @@ profiles {
         queue = 'monointeldeb128'
       }
       withName: vcf_to_csv_norm {
-        beforeScript = "module purge; module load gatk/4.0.8.1"
+        beforeScript = "module purge; module load GATK/4.0.8.1"
         executor = "sge"
         cpus = 1
         memory = "20GB"