Connecting to Google Cloud Healthcare API - dcm4che/dcm4chee-arc-light GitHub Wiki

This guide walks through a minimal example of connecting dcm4chee-arc-light to the Google Cloud Healthcare API by leveraging the DICOM -> DICOMweb Adapter.

This guide is a combination of the instructions in Run-minimum-set-of-archive-services-on-a-single-host and the DICOM -> DICOMweb Adapter README, so instructions in those files should take precedent.

1. Copy the follow configuration into a local file called docker-compose.yml:

   version: "3"
   services:
     ldap:
       image: dcm4che/slapd-dcm4chee:2.4.48-21.0
       logging:
         driver: json-file
         options:
           max-size: "10m"
       ports:
         - "389:389"
         - "636:636"
       env_file: docker-compose.env
       volumes:
         - /etc/localtime:/etc/localtime:ro
         - /etc/timezone:/etc/timezone:ro
         - /var/local/dcm4chee-arc/ldap:/var/lib/openldap/openldap-data
         - /var/local/dcm4chee-arc/slapd.d:/etc/openldap/slapd.d
         - ./adapter-config.ldif:/var/local/adapter-config.ldif
     db:
       image: dcm4che/postgres-dcm4chee:12.2-22
       logging:
         driver: json-file
         options:
           max-size: "10m"
       ports:
         - "5432:5432"
       env_file: docker-compose.env
       volumes:
         - /etc/localtime:/etc/localtime:ro
         - /etc/timezone:/etc/timezone:ro
         - /var/local/dcm4chee-arc/db:/var/lib/postgresql/data
     arc:
       image: dcm4che/dcm4chee-arc-psql:5.22.0
       logging:
         driver: json-file
         options:
           max-size: "10m"
       ports:
         - "8080:8080"
         - "8443:8443"
         - "9990:9990"
         - "9993:9993"
         - "11112:11112"
         - "2762:2762"
         - "2575:2575"
         - "12575:12575"
       env_file: docker-compose.env
       environment:
         WILDFLY_CHOWN: /opt/wildfly/standalone /storage
         WILDFLY_WAIT_FOR: ldap:389 db:5432
       depends_on:
         - ldap
         - db
       volumes:
         - /etc/localtime:/etc/localtime:ro
         - /etc/timezone:/etc/timezone:ro
         - /var/local/dcm4chee-arc/wildfly:/opt/wildfly/standalone
         - /var/local/dcm4chee-arc/storage:/storage
     adapter:
       image: gcr.io/cloud-healthcare-containers/healthcare-api-dicom-dicomweb-adapter-import:0.1.21
       logging:
         driver: json-file
         options:
           max-size: "10m"
       command: 
        - '--dimse_aet=HEALTHCARE_API'
        - '--dimse_port=2676'
        - '--dicomweb_address=$DICOMWEB_ADDRESS'
        - '--oauth_scopes=https://www.googleapis.com/auth/cloud-platform'
        - '--aet_dictionary_inline="[{"name":"DCM4CHEE","host":arc,"port":11112}]"'
        - '--verbose'
       ports: 
        - "2676:2676"
       volumes:
         - ${GOOGLE_APPLICATION_CREDENTIALS}:/credentials
       environment:
         GOOGLE_APPLICATION_CREDENTIALS: /credentials
       depends_on: 
         - arc

NOTE: For MacOS you need to prefix /private to any local /var paths. So for example, use /private/var/local/dcm4chee-arc/ldap:/var/lib/openldap/openldap-data instead of /var/local/dcm4chee-arc/ldap:/var/lib/openldap/openldap-data.

2. Specify the ldap configuration in the file adapter-config.ldif alternitavly same configuration may be done in UI after service is started:

   version: 1
   
   dn: dicomAETitle=HEALTHCARE_API,cn=Unique AE Titles Registry,cn=DICOM Configuration,dc=dcm4che,dc=org
   objectClass: dicomUniqueAETitle
   dicomAETitle: HEALTHCARE_API
   
   dn: dicomDeviceName=HEALTHCARE_API,cn=Devices,cn=DICOM Configuration,dc=dcm4che,dc=org
   objectClass: dicomDevice
   dicomDeviceName: HEALTHCARE_API
   dicomInstalled: TRUE
   
   dn: cn=dicom,dicomDeviceName=HEALTHCARE_API,cn=Devices,cn=DICOM Configuration,dc=dcm4che,dc=org
   objectClass: dicomNetworkConnection
   cn: dicom
   dicomHostname: adapter
   dicomPort: 2676
   
   dn: dicomAETitle=HEALTHCARE_API,dicomDeviceName=HEALTHCARE_API,cn=Devices,cn=DICOM Configuration,dc=dcm4che,dc=org
   objectClass: dicomNetworkAE
   dicomAETitle: HEALTHCARE_API
   dicomNetworkConnectionReference: cn=dicom,dicomDeviceName=HEALTHCARE_API,cn=Devices,cn=DICOM Configuration,dc=dcm4che,dc=org
   dicomAssociationInitiator: TRUE
   dicomAssociationAcceptor: TRUE
   
   dn: dcmExporterID=HEALTHCARE_API,dicomDeviceName=dcm4chee-arc,cn=Devices,cn=DICOM Configuration,dc=dcm4che,dc=org
   objectClass: dcmExporter
   dcmExporterID: HEALTHCARE_API
   dcmURI: dicom:HEALTHCARE_API
   dicomAETitle: DCM4CHEE
   dcmQueueName: Export1
   dicomDescription: HEALTHCARE_API
   
   dn: cn=Forward to HEALTHCARE_API,dicomDeviceName=dcm4chee-arc,cn=Devices,cn=DICOM Configuration,dc=dcm4che,dc=org
   objectClass: dcmExportRule
   cn: Forward to HEALTHCARE_API
   dcmEntity: Series
   dcmDuration: PT1M
   dcmExporterID: HEALTHCARE_API
   

3. Specify the environment variables in the referenced file docker-compose.env (e.g.):

   IMPORT_LDIF=/var/local/adapter-config.ldif
   STORAGE_DIR=/storage/fs1
   POSTGRES_DB=pacsdb
   POSTGRES_USER=pacs
   POSTGRES_PASSWORD=pacs

4. Specify the environment variables for adapter configuration. See Creating and Managing Service Account Keys to get the credentials if you don't already have a service account set up.

   $ export GOOGLE_APPLICATION_CREDENTIALS=path/to/credentials.json
   $ export DICOMWEB_ADDRESS=https://healthcare.googleapis.com/v1beta1/projects/$PROJECT/locations/$LOCATION/datasets/$DATASET/dicomStores/$STORE/dicomWeb

5. Create and start the 4 containers by invoking

   $ docker-compose -p dcm4chee up

   in the directory containing docker-compose.yml adapter-config.ldif and docker-compose.env. This command will bring up all the docker binaries and run dcm4chee starter scripts to initialize the database and ldap servers. The command won't terminate, but will continue printing server logs after it has finished bringing up the environment.

• stowrs sends multiple dicom files or directories containing DICOM files to STOW-RS receiver at a time.
• movescu implements both an SCU for the Query/Retrieve Service Class and an SCP for the Storage Service Class

• stowrs --url "http://localhost:8080/dcm4chee-arc/aets/DCM4CHEE/rs/studies/" /path/to/test/file.dcm
• Open http://localhost:8080/dcm4chee-arc/ui2/#/monitoring/export
• Submit search request
• "HEALTHCARE_API" should have status "COMPLETED" in 1 minute after file is uploaded

• movescu -c HEALTHCARE_API@localhost:2676 -m SOPInstanceUID=$UID --relational -L IMAGE --dest DCM4CHEE
• Open http://localhost:8080/dcm4chee-arc/ui2/#/study/study
• Submit search request
• Expected $UID should be in search results

If you can successfully send an image to dcm4chee-arc-light, but don't see any HEALTHCARE_API entries in the /monitoring/export UI. You can double check the configuration in the adapter-config.ldif was correctly applied:

• Check http://localhost:8080/dcm4chee-arc/ui2/#/device/devicelist to ensure HEALTHCARE_API is listed as a device. If not, you can create it on that page using the same settings as in the adapter-config.ldif file.
• Follow the instructions in Adding an Export Rule to check whether the "Forward to IMPORT" export rule has been applied to the dcm4chee-arc device. If not, you can manually add it there.