update sarek version in exomeeb (#341)

* update sarek version in exomeeb * Updated sarek version (v3.4.4) in ExomeEB-ExomeTrio-WGSTrio templates * Current version Nextflow
BU-ISCIII · Sep 19, 2024 · 3a5b571 · 3a5b571
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -14,7 +14,7 @@ Code contributions to the new version:
 
 ### Template fixes and updates
 - Fixed path to blast database and update Emmtyper params [#339](https://github.com/BU-ISCIII/buisciii-tools/pull/339)
-
+- Updated sarek version (v3.4.4) in ExomeEB-ExomeTrio-WGSTrio templates [#341] (https://github.com/BU-ISCIII/buisciii-tools/pull/341)
 ### Modules
 
 #### Added enhancements

diff --git a/bu_isciii/templates/exomeeb/ANALYSIS/ANALYSIS01_EXOME/lablog b/bu_isciii/templates/exomeeb/ANALYSIS/ANALYSIS01_EXOME/lablog
@@ -1,4 +1,4 @@
-# module load Nextflow/22.10.1 singularity
+# module load Nextflow singularity
 
 ln -s ../00-reads/ .
 ln -s ../samples_id.txt .
@@ -28,7 +28,7 @@ cat <<EOF > sarek.sbatch
 
 export NXF_OPTS="-Xms500M -Xmx4G"
 
-nextflow run /data/bi/pipelines/nf-core-sarek/nf-core-sarek-3.4.2/workflow/main.nf \\
+nextflow run /data/bi/pipelines/nf-core-sarek/nf-core-sarek_3.4.4/3_4_4/main.nf \\
 	-c ../../DOC/hpc_slurm_sarek.config \\
 	--input 'samplesheet.csv' \\
 	--outdir 01-sarek \\

diff --git a/bu_isciii/templates/exometrio/ANALYSIS/ANALYSIS01_EXOME/lablog b/bu_isciii/templates/exometrio/ANALYSIS/ANALYSIS01_EXOME/lablog
@@ -42,7 +42,7 @@ cat <<EOF > sarek.sbatch
 
 export NXF_OPTS="-Xms500M -Xmx4G"
 
-nextflow run /data/bi/pipelines/nf-core-sarek/nf-core-sarek-3.4.2/workflow/main.nf \\
+nextflow run /data/bi/pipelines/nf-core-sarek/nf-core-sarek_3.4.4/3_4_4/main.nf \\
           -c ../../DOC/hpc_slurm_sarek.config \\
           --input 'samplesheet.csv' \\
           --outdir 01-sarek \\

diff --git a/bu_isciii/templates/wgstrio/ANALYSIS/ANALYSIS01_GENOME/lablog b/bu_isciii/templates/wgstrio/ANALYSIS/ANALYSIS01_GENOME/lablog
@@ -1,4 +1,4 @@
-# module load Nextflow/22.10.1 singularity
+# module load Nextflow singularity
 
 ln -s ../00-reads/ .
 ln -s ../samples_id.txt .
@@ -44,7 +44,7 @@ cat <<EOF > sarek.sbatch
 
 export NXF_OPTS="-Xms500M -Xmx4G"
 
-nextflow run /data/bi/pipelines/nf-core-sarek/nf-core-sarek-3.4.2/workflow/main.nf \\
+nextflow run /data/bi/pipelines/nf-core-sarek/nf-core-sarek_3.4.4/3_4_4/main.nf \\
           -c ../../DOC/hpc_slurm_sarek.config \\
           --input 'samplesheet.csv' \\
           --outdir 01-sarek \\