--- /dev/null
+#!/bin/bash
+
+set -e
+
+DEBUG=$1
+
+if [[ "$DEBUG" == "--debug" ]]; then
+ set -x
+fi
+
+testReady() {
+ set +e
+ ready=0
+ apiReady=0
+ keepProxyReady=0
+ curl --connect-timeout 1 -k -s -H "Authorization: Bearer $MANAGEMENTTOKEN" https://$GKE_IP:444/rails/_health/ping |grep -q OK
+ if [[ $? -eq 0 ]]; then
+ apiReady=1
+ else
+ return
+ fi
+ curl --connect-timeout 1 -k -s -H "Authorization: Bearer $MANAGEMENTTOKEN" https://$GKE_IP:25107/_health/ping |grep -q OK
+ if [[ $? -eq 0 ]]; then
+ keepProxyReady=1
+ fi
+ if [[ $apiReady -eq 1 ]] && [[ $keepProxyReady -eq 1 ]]; then
+ ready=1
+ fi
+ set -e
+}
+
+stopCluster() {
+ echo "Stopping Arvados cluster..."
+ cd $MY_PATH/../charts/arvados
+ helm delete arvados
+
+ echo "Stopping k8s cluster on GKE"
+ gcloud container clusters delete arvados --zone us-central1-a --quiet
+ gcloud compute addresses delete arvados-k8s-ip --region us-central1 --quiet
+}
+
+kubectlStatus() {
+ echo "Current k8s status:"
+ echo "services:"
+ kubectl get svc
+ echo "pods:"
+ kubectl get pods
+ echo
+}
+
+startCluster() {
+ echo "Starting k8s cluster on GKE"
+ if [[ -z "$GKE_IP" ]]; then
+ gcloud compute addresses create arvados-k8s-ip --region us-central1
+ GKE_IP=`gcloud compute addresses describe arvados-k8s-ip --region us-central1 --format="value(address)"`
+ fi
+ set +e
+ CLUSTER=`gcloud container clusters describe arvados --zone us-central1-a 2>/dev/null`
+ set -e
+ if [[ -z "$CLUSTER" ]]; then
+ gcloud container clusters create arvados --zone us-central1-a --machine-type n1-standard-2 --cluster-version 1.15
+ fi
+
+ set +e
+ helm get all arvados >/dev/null 2>&1
+ if [[ $? -eq 0 ]]; then
+ echo "Deleting running arvados helm chart..."
+ helm delete arvados
+ while [ "$SVC" != "2" ]; do
+ SVC=`kubectl get svc|wc -l`
+ echo "Waiting for services to disappear..."
+ kubectl get svc
+ sleep 2
+ done
+ fi
+ set -e
+
+ echo "Starting Arvados cluster..."
+ cd $MY_PATH/../charts/arvados
+ ./cert-gen.sh "$GKE_IP"
+
+ helm install arvados . --set externalIP="$GKE_IP"
+
+ echo "Waiting for cluster health OK..."
+ while [ $ready -ne 1 ]; do
+ testReady
+ kubectlStatus
+ sleep 10
+ done
+}
+
+main() {
+ MY_PATH=`pwd`
+ MANAGEMENTTOKEN=`cat $MY_PATH/../charts/arvados/config/config.yml |grep Management |cut -f2 -d ':' |sed -e 's/ //'`
+ set +e
+ GKE_IP=`gcloud compute addresses describe arvados-k8s-ip --region us-central1 --format="value(address)" 2>/dev/null`
+ set -e
+ date
+ # testReady needs $GKE_IP
+ testReady
+
+ if [[ $ready -ne 1 ]]; then
+ startCluster
+ else
+ # create the necessary kubectl context for the running cluster
+ gcloud container clusters get-credentials arvados --zone us-central1-a
+ kubectlStatus
+ fi
+ date
+ echo "cluster health OK"
+
+ export ARVADOS_API_HOST=$GKE_IP:444
+ export ARVADOS_API_HOST_INSECURE=true
+ export ARVADOS_API_TOKEN=`grep superUserSecret $MY_PATH/../charts/arvados/values.yaml |cut -f2 -d\"`
+
+ cd $MY_PATH/cwl-diagnostics-hasher/
+
+ echo "uploading requirements for CWL hasher"
+ arv-put 4xphq-8i9sb-fmwod1qn74cemdp.log.txt --no-resume
+ echo "uploading Arvados jobs image for CWL hasher"
+ # just in case, clear the arv-put cache first, arv-keepdocker doesn't pass through --no-resume
+ rm -rf ~/.cache/arvados/arv-put
+ echo "running CWL hasher"
+ cwl-runner hasher-workflow.cwl hasher-workflow-job.yml
+ if [[ $? -eq 0 ]]; then
+ echo "Success!"
+ else
+ echo "Test failed!"
+ fi
+
+ stopCluster
+}
+
+main