X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/a1fc48d0bdba5062da9d8ea57e2cda805421aab8..f4ca9ad94a6bb006d1f3c7ba207837f1736d1247:/docker/java-bwa-samtools/Dockerfile

diff --git a/docker/java-bwa-samtools/Dockerfile b/docker/java-bwa-samtools/Dockerfile
index e10f94f6c1..2a73977c52 100644
--- a/docker/java-bwa-samtools/Dockerfile
+++ b/docker/java-bwa-samtools/Dockerfile
@@ -3,20 +3,21 @@ MAINTAINER Peter Amstutz <peter.amstutz@curoverse.com>
 
 USER root
 
-RUN apt-get install -y -q openjdk-7-jre-headless && \
+RUN apt-get update -q
+RUN apt-get install -qy openjdk-7-jre-headless && \
     cd /tmp && \
-    curl --location http://downloads.sourceforge.net/project/bio-bwa/bwa-0.7.9a.tar.bz2 -o bwa-0.7.9a.tar.bz2 && \
+    curl --location http://cache.arvados.org/sourceforge.net/project/bio-bwa/bwa-0.7.9a.tar.bz2 -o bwa-0.7.9a.tar.bz2 && \
     tar xjf bwa-0.7.9a.tar.bz2 && \
     cd bwa-0.7.9a && \
     make && \
     (find . -executable -type f -print0 | xargs -0 -I {} mv {} /usr/local/bin) && \
     rm -r /tmp/bwa-0.7.9a* && \
     cd /tmp && \
-    curl --location http://downloads.sourceforge.net/project/samtools/samtools/0.1.19/samtools-0.1.19.tar.bz2 -o samtools-0.1.19.tar.bz2 && \
+    curl --location http://cache.arvados.org/sourceforge.net/project/samtools/samtools/0.1.19/samtools-0.1.19.tar.bz2 -o samtools-0.1.19.tar.bz2 && \
     tar xjf samtools-0.1.19.tar.bz2 && \
     cd samtools-0.1.19 && \
     make && \
     (find . -executable -type f -print0 | xargs -0 -I {} mv {} /usr/local/bin) && \
     rm -r /tmp/samtools-0.1.19*
 
-USER crunch
\ No newline at end of file
+USER crunch