cleanPipeline.sh

ADMIN_EMAIL=`fgrep ADMIN_EMAIL pipeline.config | sed 's/ //g' | cut -f 2 -d =`
SMTP_HOST=`fgrep SMTP_HOST pipeline.config | sed 's/ //g' | cut -f 2 -d =`
XNAT_URL=`fgrep PIPELINE_REST_MAIL_SVC pipeline.config | sed 's/ //g' | sed 's#/data/.*$##' | cut -f 2 -d =`

echo Removing existing pipeline artifacts, re-running set up with admin ${ADMIN_EMAIL}, mail host ${SMTP_HOST}, and XNAT URL ${XNAT_URL}
rm -r ant-tools/ bin/ catalog/ cluster_utils/ image-tools/ log4j.properties logs/ nrg-tools/ pipeline-tools/ pipeline.config sample_pipelines/ validation-tools/ xnat-tools/
hg pull -u
./setup.sh ${ADMIN_EMAIL} ${SMTP_HOST} ${XNAT_URL}
unset ADMIN_EMAIL SMTP_HOST XNAT_URL