echo "Arvados project uuid is '${project_uuid}'"
-echo "Uploading arvados/jobs' docker image to the project"
-VERSION="2.1.1"
-arv-keepdocker --pull arvados/jobs "${VERSION}" --project-uuid "${project_uuid}"
-
# Create the initial user
echo "Creating initial user '__INITIAL_USER__'"
user_uuid=$(arv --format=uuid user list --filters '[["email", "=", "__INITIAL_USER_EMAIL__"], ["username", "=", "__INITIAL_USER__"]]')
arv user update --uuid "${user_uuid}" --user '{"is_active": true}'
echo "Getting the user API TOKEN"
-user_api_token=$(arv api_client_authorization list --filters "[[\"owner_uuid\", \"=\", \"${user_uuid}\"],[\"kind\", \"==\", \"arvados#apiClientAuthorization\"]]" --limit=1 |jq -r .items[].api_token)
+user_api_token=$(arv api_client_authorization list | jq -r ".items[] | select( .owner_uuid == \"${user_uuid}\" ).api_token" | head -1)
if [ "x${user_api_token}" = "x" ]; then
+ echo "No existing token found for user '__INITIAL_USER__' (user_uuid: '${user_uuid}'). Creating token"
user_api_token=$(arv api_client_authorization create --api-client-authorization "{\"owner_uuid\": \"${user_uuid}\"}" | jq -r .api_token)
fi
+echo "API TOKEN FOR user '__INITIAL_USER__': '${user_api_token}'."
+
# Change to the user's token and run the workflow
+echo "Switching to user '__INITIAL_USER__'"
export ARVADOS_API_TOKEN="${user_api_token}"
echo "Running test CWL workflow"
-cwl-runner hasher-workflow.cwl hasher-workflow-job.yml
+cwl-runner --debug hasher-workflow.cwl hasher-workflow-job.yml