Merge pull request #273 from chrishah/master

docker container as executable
broadinstitute · Sep 8, 2015 · 187b948 · 187b948
2 parents f24c400 + fa19712
commit 187b948
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Showing 2 changed files with 6 additions and 2 deletions.
diff --git a/Dockerfile b/Dockerfile
@@ -28,4 +28,8 @@ RUN ant clean all && \
     rm -rf lib && \
     rm build.xml
 
-ENTRYPOINT ["./docker_helper.sh"]
+RUN mkdir /usr/working
+WORKDIR /usr/working
+
+ENTRYPOINT ["/usr/picard/docker_helper.sh"]
+CMD [""]
diff --git a/src/scripts/picard/docker_helper.sh b/src/scripts/picard/docker_helper.sh
@@ -24,4 +24,4 @@ done
 shift $(expr $OPTIND - 1)
 TOOL_WITH_ARGS=$@
 
-java ${JVM_ARGS} -jar picard.jar ${TOOL_WITH_ARGS}
+java ${JVM_ARGS} -jar /usr/picard/picard.jar ${TOOL_WITH_ARGS}