Load SNP data from a downloaded data file.
First you will need the variation data from Ensembl, which are available via MySQL databases. Download the Ensembl file from their FTP site:
Download and unzip the file.
<source name="ensembl-snp" type="ensembl-snp"> <property name="src.data.dir" location="/data/variation/ensembl/current" /> <property name="ensembl-snp.includes" value="Homo_sapiens_incl_consequences.gvf" /> </source>
Run a build. The entry in project.xml will instruct the build process to load the GVF file you downloaded in the previous step into the database. For example, run this command in MINE_NAME/integrate:
$ ant -v -Dsource=ensembl-snp