replaced where the module load should be

BU-ISCIII · Sep 19, 2023 · d3349e7 · d3349e7
1 parent 29b37be
commit d3349e7
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Showing 3 changed files with 5 additions and 6 deletions.
diff --git a/bu_isciii/templates/exomeeb/ANALYSIS/ANALYSIS01_EXOME/lablog b/bu_isciii/templates/exomeeb/ANALYSIS/ANALYSIS01_EXOME/lablog
@@ -1,3 +1,5 @@
+# module load Nextflow/22.10.1 singularity
+
 ln -s ../00-reads/ .
 ln -s ../samples_id.txt .
 
@@ -6,8 +8,6 @@ cat samples_id.txt | xargs -I % echo -e "%,XY,0,%,1,00-reads/%_R1.fastq.gz,00-re
 
 mkdir -p 02-postprocessing 03-annotation 99-stats
 
-#module load Nextflow singularity
-
 scratch_dir=$(echo $PWD | sed "s/\/data\/bi\/scratch_tmp/\/scratch/g")
 
 cat <<EOF > sarek.sbatch

diff --git a/bu_isciii/templates/exometrio/ANALYSIS/ANALYSIS01_EXOME/lablog b/bu_isciii/templates/exometrio/ANALYSIS/ANALYSIS01_EXOME/lablog
@@ -1,3 +1,5 @@
+# module load Nextflow/22.10.1 singularity
+
 ln -s ../00-reads/ .
 ln -s ../samples_id.txt .
 
@@ -22,13 +24,10 @@ do
 
 done < ./samples_id.txt
 
-
 echo -e "patient,sex,status,sample,lane,fastq_1,fastq_2" > samplesheet.csv
 cat samples_id.txt | xargs -I % echo -e "%,XY,0,%,1,00-reads/%_R1.fastq.gz,00-reads/%_R2.fastq.gz" >> samplesheet.csv
 mkdir -p 02-postprocessing 03-annotation 99-stats
 
-#module load Nextflow singularity
-
 scratch_dir=$(echo $PWD | sed "s/\/data\/bi\/scratch_tmp/\/scratch/g")
 
 cat <<EOF > sarek.sbatch

diff --git a/bu_isciii/templates/wgstrio/ANALYSIS/ANALYSIS01_GENOME/lablog b/bu_isciii/templates/wgstrio/ANALYSIS/ANALYSIS01_GENOME/lablog
@@ -1,3 +1,4 @@
+# module load Nextflow/22.10.1 singularity
 
 ln -s ../00-reads/ .
 ln -s ../samples_id.txt .
@@ -28,7 +29,6 @@ echo -e "patient,sex,status,sample,lane,fastq_1,fastq_2" > samplesheet.csv
 cat samples_id.txt | xargs -I % echo -e "%,XY,0,%,1,00-reads/%_R1.fastq.gz,00-reads/%_R2.fastq.gz" >> samplesheet.csv
 mkdir -p 02-postprocessing 03-annotation 99-stats
 
-#module load Nextflow singularity
 
 scratch_dir=$(echo $PWD | sed "s/\/data\/bi\/scratch_tmp/\/scratch/g")