Load Sample Cancer Study

Once you have initialized MySQL with the seed database, you are ready to import a sample cancer study. This is recommended, so that you can verify everything is working.

Download the Sample Study

To get started, download the sample study: brca-example-study.tar.gz.

Then, unpack and move the directory into your root cbio portal development directory. The directory should be called portal-study.

Import the Sample Study

This is done in a few steps:

First, load the meta-data for the sample study:

$PORTAL_HOME/core/src/main/scripts/cbioportalImporter.py --jvm-args "-cp $CATALINA_HOME/lib/mysql-connector-java-5.0.8-bin.jar:$PORTAL_HOME/core/target/core-1.0-SNAPSHOT.jar" --command import-study --meta-filename portal-study/meta_study.txt