Updated GRIDSS version in example scripts

PapenfussLab · Aug 6, 2018 · 775d2d9 · 775d2d9
1 parent 7b1fedf
commit 775d2d9
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Showing 3 changed files with 3 additions and 3 deletions.
diff --git a/example/example_pipeline.sh b/example/example_pipeline.sh
@@ -19,7 +19,7 @@ REFERENCE=~/reference_genomes/human/hg19.fa
 INPUT=pipelined.example.input.bam
 OUTPUT=pipelined.example.sv.vcf
 RAW_GRIDSS_ASSEMBLY=${OUTPUT/.sv.vcf/.gridss.assembly.bam}
-GRIDSS_JAR=~/bin/gridss-1.8.0-SNAPSHOT-jar-with-dependencies.jar
+GRIDSS_JAR=~/bin/gridss-1.8.1-jar-with-dependencies.jar
 GRIDSS_JVM_ARGS="
 	-Dsamjdk.use_async_io_read_samtools=true 
 	-Dsamjdk.use_async_io_write_samtools=true 

diff --git a/example/gridss.sh b/example/gridss.sh
@@ -7,7 +7,7 @@ BLACKLIST=wgEncodeDacMapabilityConsensusExcludable.bed
 REFERENCE=hg19.fa
 OUTPUT=${INPUT/.bam/.sv.vcf}
 ASSEMBLY=${OUTPUT/.sv.vcf/.gridss.assembly.bam}
-GRIDSS_JAR=../target/gridss-1.8.0-gridss-jar-with-dependencies.jar
+GRIDSS_JAR=../target/gridss-1.8.1-gridss-jar-with-dependencies.jar
 
 if [[ ! -f "$INPUT" ]] ; then
 	echo "Missing $INPUT input file."

diff --git a/example/somatic.sh b/example/somatic.sh
@@ -8,7 +8,7 @@ BLACKLIST=wgEncodeDacMapabilityConsensusExcludable.bed
 REFERENCE=~/reference_genomes/human/hg19.fa
 OUTPUT=somatic.sv.vcf
 ASSEMBLY=${OUTPUT/.sv.vcf/.gridss.assembly.bam}
-GRIDSS_JAR=~/bin/gridss-1.8.0-jar-with-dependencies.jar
+GRIDSS_JAR=~/bin/gridss-1.8.1-jar-with-dependencies.jar
 
 if [[ ! -f "$NORMAL" ]] ; then
 	echo "Missing $NORMAL input file."