change scalpel's docker image from 0.5.3 to 0.5.3-1

bioinform · Oct 20, 2017 · 7f24bb3 · 7f24bb3
1 parent acc5359
commit 7f24bb3
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Showing 2 changed files with 4 additions and 4 deletions.
diff --git a/utilities/dockered_pipelines/mutation_callers/single_Scalpel.sh b/utilities/dockered_pipelines/mutation_callers/single_Scalpel.sh
@@ -107,7 +107,7 @@ fi
 echo 'echo -e "Start at `date +"%Y/%m/%d %H:%M:%S"`" 1>&2' >> $out_script
 echo "" >> $out_script
 
-echo "docker run --rm -v /:/mnt -u $UID --memory ${MEM}G lethalfang/scalpel:0.5.3 bash -c \\" >> $out_script
+echo "docker run --rm -v /:/mnt -u $UID --memory ${MEM}G lethalfang/scalpel:0.5.3-1 bash -c \\" >> $out_script
 echo "\"/opt/scalpel-0.5.3/scalpel-discovery --single \\" >> $out_script
 echo "--ref /mnt/${HUMAN_REFERENCE} \\" >> $out_script
 echo "--bed /mnt/${SELECTOR} \\" >> $out_script
@@ -123,7 +123,7 @@ echo "${extra_export_arguments} \\" >> $out_script
 echo "> /mnt/${outdir}/scalpel/scalpel.vcf\"" >> $out_script
 echo "" >> $out_script
 
-echo "docker run --rm -v /:/mnt -u $UID lethalfang/scalpel:0.5.3 bash -c \\" >> $out_script
+echo "docker run --rm -v /:/mnt -u $UID lethalfang/scalpel:0.5.3-1 bash -c \\" >> $out_script
 echo "\"cat /mnt/${outdir}/scalpel/scalpel.vcf | /opt/vcfsorter.pl /mnt/${HUMAN_REFERENCE%\.fa*}.dict - \\" >> $out_script
 echo "> /mnt/${outdir}/${outvcf}\"" >> $out_script
 

diff --git a/utilities/dockered_pipelines/mutation_callers/submit_Scalpel.sh b/utilities/dockered_pipelines/mutation_callers/submit_Scalpel.sh
@@ -113,7 +113,7 @@ fi
 echo 'echo -e "Start at `date +"%Y/%m/%d %H:%M:%S"`" 1>&2' >> $out_script
 echo "" >> $out_script
 
-echo "docker run --rm -v /:/mnt -u $UID --memory ${MEM}G lethalfang/scalpel:0.5.3 bash -c \\" >> $out_script
+echo "docker run --rm -v /:/mnt -u $UID --memory ${MEM}G lethalfang/scalpel:0.5.3-1 bash -c \\" >> $out_script
 echo "\"/opt/scalpel-0.5.3/scalpel-discovery --somatic \\" >> $out_script
 echo "--ref /mnt/${HUMAN_REFERENCE} \\" >> $out_script
 echo "--bed /mnt/${SELECTOR} \\" >> $out_script
@@ -131,7 +131,7 @@ echo "${extra_export_arguments} \\" >> $out_script
 echo "> /mnt/${outdir}/scalpel/scalpel.vcf\"" >> $out_script
 echo "" >> $out_script
 
-echo "docker run --rm -v /:/mnt -u $UID lethalfang/scalpel:0.5.3 bash -c \\" >> $out_script
+echo "docker run --rm -v /:/mnt -u $UID lethalfang/scalpel:0.5.3-1 bash -c \\" >> $out_script
 echo "\"cat /mnt/${outdir}/scalpel/scalpel.vcf | /opt/vcfsorter.pl /mnt/${HUMAN_REFERENCE%\.fa*}.dict - \\" >> $out_script
 echo "> /mnt/${outdir}/${outvcf}\"" >> $out_script