chore(release): publish [skip ci]

- @ohif/extension-vtk@1.3.5
 - @ohif/core@2.6.4
 - @ohif/viewer@3.8.8

.circleci/build-and-publish-docs.sh

@@ -62,7 +62,7 @@ echo "Done generating documentation output"
 echo 'STARTING PUBLISH'
 
 # WILL ALWAYS FAIL IF INITIATED FROM PR BRANCH
-./node_modules/.bin/gh-pages \
+npx gh-pages \
   --silent \
   --repo https://$GITHUB_TOKEN@github.com/OHIF/Viewers.git \
   --message 'Autogenerated Message: [ci skip]' \

.circleci/config.yml

@@ -13,21 +13,25 @@ version: 2.1
 ##
 orbs:
   codecov: codecov/codecov@1.0.5
-  cypress: cypress-io/cypress@1.10.0
+  cypress: cypress-io/cypress@1.13.0
 
 defaults: &defaults
   docker:
-    - image: circleci/node:10.16.0
+    - image: circleci/node:12.9.1
       environment:
         TERM: xterm # Enable colors in term
+        QUICK_BUILD: true
   working_directory: ~/repo
 
 jobs:
-  CHECKOUT:
+  ###
+  # Workflow: PR_CHECKS
+  ###
+  UNIT_TESTS:
     <<: *defaults
     steps:
-      # Enable yarn workspaces
-      - run: yarn config set workspaces-experimental true
+      # Update yarn
+      - run: yarn -v
       # Checkout code and ALL Git Tags
       - checkout:
           post:
@@ -36,9 +40,8 @@ jobs:
           name: Restore Yarn and Cypress Package Cache
           keys:
             # when lock file changes, use increasingly general patterns to restore cache
-            - yarn-packages-v1-{{ .Branch }}-{{ checksum "yarn.lock" }}
-            - yarn-packages-v1-{{ .Branch }}-
-            - yarn-packages-v1-
+            - yarn-packages-{{ checksum "yarn.lock" }}
+            - yarn-packages-
       - run:
           name: Install Dependencies
           command: yarn install --frozen-lockfile
@@ -46,23 +49,11 @@ jobs:
           name: Save Yarn Package Cache
           paths:
             - ~/.cache ## Cache yarn and Cypress
-          key: yarn-packages-v1-{{ .Branch }}-{{ checksum "yarn.lock" }}
-      # Persist :+1:
-      - persist_to_workspace:
-          root: ~/repo
-          paths: .
-
-  UNIT_TESTS:
-    <<: *defaults
-    steps:
-      - attach_workspace:
-          at: ~/repo
-
+          key: yarn-packages-{{ checksum "yarn.lock" }}
       # RUN TESTS
       - run:
           name: 'JavaScript Test Suite'
           command: yarn run test:unit:ci
-
       # PLATFORM/VIEWER
       - run:
           name: 'VIEWER: Combine report output'
@@ -76,7 +67,6 @@ jobs:
       - codecov/upload:
           file: '/home/circleci/repo/platform/viewer/coverage/reports'
           flags: 'viewer'
-
       # PLATFORM/CORE
       - run:
           name: 'CORE: Combine report output'
@@ -91,31 +81,177 @@ jobs:
           file: '/home/circleci/repo/platform/core/coverage/reports'
           flags: 'core'
 
+  ###
+  # Workflow: PR_OPTIONAL_DOCKER_PUBLISH
+  ###
+  DOCKER_PR_PUBLISH:
+    <<: *defaults
+    steps:
+      # Enable yarn workspaces
+      - run: yarn config set workspaces-experimental true
+
+      # Checkout code and ALL Git Tags
+      - checkout:
+          post:
+            - git fetch --all
+
+      - restore_cache:
+          name: Restore Yarn and Cypress Package Cache
+          keys:
+            # when lock file changes, use increasingly general patterns to restore cache
+            - yarn-packages-{{ checksum "yarn.lock" }}
+            - yarn-packages-
+
+      - run:
+          name: Install Dependencies
+          command: yarn install --frozen-lockfile
+
+      - setup_remote_docker:
+          docker_layer_caching: false
+
+      - run:
+          name: Build and push Docker image
+          command: |
+            # Remove npm config
+            rm -f ./.npmrc
+            # Set our version number using vars
+            echo $CIRCLE_BUILD_NUM
+            # Build our image, auth, and push
+            docker build --tag ohif/viewer:PR_BUILD-$CIRCLE_BUILD_NUM .
+            echo $DOCKER_PWD | docker login -u $DOCKER_LOGIN --password-stdin
+            docker push ohif/viewer:PR_BUILD-$CIRCLE_BUILD_NUM
+
+  ###
+  # Workflow: DEPLOY
+  ###
+  BUILD:
+    <<: *defaults
+    steps:
+      # Checkout code and ALL Git Tags
+      - checkout:
+          post:
+            - git fetch --all
+      - restore_cache:
+          name: Restore Yarn and Cypress Package Cache
+          keys:
+            # when lock file changes, use increasingly general patterns to restore cache
+            - yarn-packages-{{ checksum "yarn.lock" }}
+            - yarn-packages-
+      - run:
+          name: Install Dependencies
+          command: yarn install --frozen-lockfile
+      - save_cache:
+          name: Save Yarn Package Cache
+          paths:
+            - ~/.cache ## Cache yarn and Cypress
+          key: yarn-packages-{{ checksum "yarn.lock" }}
+      # Build & Test
+      - run:
+          name: 'Build the OHIF Viewer'
+          command: yarn run build
+          no_output_timeout: 45m
+      # - run:
+      #     name: 'Upload SourceMaps, Send Deploy Notification'
+      #     command: |
+      #       # export FILE_1=$(find ./build/static/js -type f -name "2.*.js" -exec basename {} \;)
+      #       # export FILE_MAIN=$(find ./build/static/js -type f -name "main.*.js" -exec basename {} \;)
+      #       # export FILE_RUNTIME_MAIN=$(find ./build/static/js -type f -name "runtime~main.*.js" -exec basename {} \;)
+      #       # curl https://api.rollbar.com/api/1/sourcemap -F source_map=@build/static/js/$FILE_1.map -F access_token=$ROLLBAR_TOKEN -F version=$CIRCLE_SHA1 -F minified_url=https://$GOOGLE_STORAGE_BUCKET/static/js/$FILE_1
+      #       # curl https://api.rollbar.com/api/1/sourcemap -F source_map=@build/static/js/$FILE_MAIN.map -F access_token=$ROLLBAR_TOKEN -F version=$CIRCLE_SHA1 -F minified_url=https://$GOOGLE_STORAGE_BUCKET/static/js/$FILE_MAIN
+      #       # curl https://api.rollbar.com/api/1/sourcemap -F source_map=@build/static/js/$FILE_RUNTIME_MAIN.map -F access_token=$ROLLBAR_TOKEN -F version=$CIRCLE_SHA1 -F minified_url=https://$GOOGLE_STORAGE_BUCKET/static/js/$FILE_RUNTIME_MAIN
+      #       curl --request POST https://api.rollbar.com/api/1/deploy/ -F access_token=$ROLLBAR_TOKEN -F environment=$GOOGLE_STORAGE_BUCKET -F revision=$CIRCLE_SHA1 -F local_username=CircleCI
       # Persist :+1:
       - persist_to_workspace:
           root: ~/repo
-          paths: .
+          paths:
+            - platform/viewer/dist
+            - netlify.toml
+            - .netlify
 
-  NPM_PUBLISH:
-    <<: *defaults
+  DEPLOY_TO_DEV:
+    docker:
+      - image: circleci/node:12.9.1
+        environment:
+          TERM: xterm
+          NETLIFY_SITE_ID: 32708787-c9b0-4634-b50f-7ca41952da77
+    working_directory: ~/repo
     steps:
       - attach_workspace:
           at: ~/repo
+      - run: cd .netlify && npm install
+      - run:
+          cp .netlify/deploy-workflow/_redirects platform/viewer/dist/_redirects
+      - run: cd .netlify && npm run deploy
+
+  DEPLOY_TO_STAGING:
+    docker:
+      - image: circleci/node:12.9.1
+        environment:
+          TERM: xterm
+          NETLIFY_SITE_ID: c7502ae3-b150-493c-8422-05701e44a969
+    working_directory: ~/repo
+    steps:
+      - attach_workspace:
+          at: ~/repo
+      - run: cd .netlify && npm install
+      - run:
+          cp .netlify/deploy-workflow/_redirects platform/viewer/dist/_redirects
+      - run: cd .netlify && npm run deploy
+
+  DEPLOY_TO_PRODUCTION:
+    docker:
+      - image: circleci/node:12.9.1
+        environment:
+          TERM: xterm
+          NETLIFY_SITE_ID: 79c4a5da-5c95-4dc9-84f7-45fd9dfe21b0
+    working_directory: ~/repo
+    steps:
+      - attach_workspace:
+          at: ~/repo
+      - run: cd .netlify && npm install
+      - run:
+          cp .netlify/deploy-workflow/_redirects platform/viewer/dist/_redirects
+      - run: cd .netlify && npm run deploy
+
+  ###
+  # Workflow: RELEASE
+  ###
+  NPM_PUBLISH:
+    <<: *defaults
+    steps:
+      - run: yarn -v
+      # Checkout code and ALL Git Tags
+      - checkout:
+          post:
+            - git fetch --all
+      # Use increasingly general patterns to restore cache
+      - restore_cache:
+          name: Restore Yarn and Cypress Package Cache
+          keys:
+            - yarn-packages-{{ checksum "yarn.lock" }}
+            - yarn-packages-
+      - run:
+          name: Install Dependencies
+          command: yarn install --frozen-lockfile
+      - save_cache:
+          name: Save Yarn Package Cache
+          paths:
+            - ~/.cache/yarn
+          key: yarn-packages-{{ checksum "yarn.lock" }}
       - run:
           name: Avoid hosts unknown for github
-          command:
-            mkdir ~/.ssh/ && echo -e "Host github.com\n\tStrictHostKeyChecking
-            no\n" > ~/.ssh/config
-      - run: git config --global user.email "danny.ri.brown+ohif-bot@gmail.com"
-      - run: git config --global user.name "ohif-bot"
+          command: |
+            rm -rf ~/.ssh
+            mkdir ~/.ssh/
+            echo -e "Host github.com\n\tStrictHostKeyChecking no\n" > ~/.ssh/config
+            git config --global user.email "danny.ri.brown+ohif-bot@gmail.com"
+            git config --global user.name "ohif-bot"
       - run:
-          name: Authenticate with registry
+          name: Authenticate with NPM registry
           command:
             echo "//registry.npmjs.org/:_authToken=$NPM_TOKEN" > ~/repo/.npmrc
       - run: npx lerna version
       - run: npx lerna publish from-package
-
-      # Persist :+1:
       - persist_to_workspace:
           root: ~/repo
           paths: .
@@ -123,32 +259,32 @@ jobs:
   DOCS_PUBLISH:
     <<: *defaults
     steps:
-      - attach_workspace:
-          at: ~/repo
+      - checkout
       - run:
           name: Avoid hosts unknown for github
-          command:
-            mkdir ~/.ssh/ && echo -e "Host github.com\n\tStrictHostKeyChecking
-            no\n" > ~/.ssh/config
-      - run: git config --global user.email "danny.ri.brown+ohif-bot@gmail.com"
-      - run: git config --global user.name "ohif-bot"
-      - run: yarn global add gitbook-cli
-      - run: yarn global add gh-pages
+          command: |
+            rm -rf ~/.ssh
+            mkdir ~/.ssh/
+            echo -e "Host github.com\n\tStrictHostKeyChecking no\n" > ~/.ssh/config
+            git config --global user.email "danny.ri.brown+ohif-bot@gmail.com"
+            git config --global user.name "ohif-bot"
+      - run: yarn global add gitbook-cli gh-pages
       - run: chmod +x ~/repo/.circleci/build-and-publish-docs.sh
       - run: ~/repo/.circleci/build-and-publish-docs.sh
 
-  DOCKER_PUBLISH:
+  DOCKER_MASTER_PUBLISH:
     <<: *defaults
     steps:
       - attach_workspace:
           at: ~/repo
       - setup_remote_docker:
-          docker_layer_caching: true
+          docker_layer_caching: false
       - run:
           name: Build and push Docker image
           command: |
             # This file will exist if a new version was published by
-            # our `semantic-release` command in the previous job
+            # our command in the previous job. Created in npm postpublish hook
+            # in the `platform/viewer` project.
             if [[ ! -e platform/viewer/success_version.txt ]]; then
               exit 0
             else
@@ -166,178 +302,176 @@ jobs:
               docker push ohif/$IMAGE_NAME:latest
             fi
 
-  VIEWER_DEMO_BUILD:
-    <<: *defaults
-    steps:
-      - attach_workspace:
-          at: ~/repo
-      # Build & Test
-      - run:
-          name: 'Build Demo Site'
-          command: yarn run build:demo
-          no_output_timeout: 30m
-      - run:
-          name: 'Upload SourceMaps, Send Deploy Notification'
-          command: |
-            # export FILE_1=$(find ./build/static/js -type f -name "2.*.js" -exec basename {} \;)
-            # export FILE_MAIN=$(find ./build/static/js -type f -name "main.*.js" -exec basename {} \;)
-            # export FILE_RUNTIME_MAIN=$(find ./build/static/js -type f -name "runtime~main.*.js" -exec basename {} \;)
-            # curl https://api.rollbar.com/api/1/sourcemap -F source_map=@build/static/js/$FILE_1.map -F access_token=$ROLLBAR_TOKEN -F version=$CIRCLE_SHA1 -F minified_url=https://$GOOGLE_STORAGE_BUCKET/static/js/$FILE_1
-            # curl https://api.rollbar.com/api/1/sourcemap -F source_map=@build/static/js/$FILE_MAIN.map -F access_token=$ROLLBAR_TOKEN -F version=$CIRCLE_SHA1 -F minified_url=https://$GOOGLE_STORAGE_BUCKET/static/js/$FILE_MAIN
-            # curl https://api.rollbar.com/api/1/sourcemap -F source_map=@build/static/js/$FILE_RUNTIME_MAIN.map -F access_token=$ROLLBAR_TOKEN -F version=$CIRCLE_SHA1 -F minified_url=https://$GOOGLE_STORAGE_BUCKET/static/js/$FILE_RUNTIME_MAIN
-            curl --request POST https://api.rollbar.com/api/1/deploy/ -F access_token=$ROLLBAR_TOKEN -F environment=$GOOGLE_STORAGE_BUCKET -F revision=$CIRCLE_SHA1 -F local_username=CircleCI
-      # Persist :+1:
-      - persist_to_workspace:
-          root: ~/repo
-          paths: .
-
-  VIEWER_DEMO_PUBLISH:
-    working_directory: ~/repo
-    docker:
-      - image: google/cloud-sdk
-    steps:
-      - attach_workspace:
-          at: ~/repo
-      - setup_remote_docker:
-          docker_layer_caching: true
-      - run:
-          name: Deploy latest version to viewer.ohif.org
-          command: |
-            # https://circleci.com/docs/2.0/google-auth/#authorization
-            echo $GCLOUD_SERVICE_KEY | gcloud auth activate-service-account --key-file=-
-            gcloud --quiet config set project ${GOOGLE_PROJECT_ID}
-            gcloud --quiet config set compute/zone ${GOOGLE_COMPUTE_ZONE}
-            # Remove all files in Storage Bucket; Push latest
-            gsutil -m rm gs://$GOOGLE_STORAGE_BUCKET/**
-            gsutil -m rsync -R platform/viewer/dist gs://$GOOGLE_STORAGE_BUCKET
-
 workflows:
   version: 2
 
-  # PULL REQUESTS
   PR_CHECKS:
     jobs:
-      - CHECKOUT:
+      - UNIT_TESTS:
           filters:
             branches:
               ignore:
                 - master
                 - feature/*
                 - hotfix/*
-      - UNIT_TESTS:
-          requires:
-            - CHECKOUT
       # E2E: PWA
       - cypress/run:
           name: 'E2E: PWA'
+          executor: cypress/browsers-chrome76
+          browser: chrome
           pre-steps:
             - run: 'rm -rf ~/.yarn && npm i -g yarn && yarn -v && yarn global
                 add wait-on' # Use yarn latest
           yarn: true
+          record: false
           store_artifacts: false
           working_directory: platform/viewer
-          build: yarn run build:e2e
-          start: yarn run test:e2e:dist
+          build: npx cross-env QUICK_BUILD=true yarn run build
+          start: yarn run test:e2e:serve
+          spec: 'cypress/integration/common/**/*,cypress/integration/pwa/**/*'
           wait-on: 'http://localhost:3000'
-          cache-key: 'yarn-packages-v1-{{ .Branch }}-{{ checksum "yarn.lock" }}'
+          cache-key: 'yarn-packages-{{ checksum "yarn.lock" }}'
           no-workspace: true # Don't persist workspace
           post-steps:
             - store_artifacts:
                 path: platform/viewer/cypress/screenshots
+            - store_artifacts:
+                path: platform/viewer/cypress/videos
           requires:
             - UNIT_TESTS
       # E2E: script-tag
       - cypress/run:
           name: 'E2E: Script Tag'
+          executor: cypress/browsers-chrome76
+          browser: chrome
           pre-steps:
             - run: 'rm -rf ~/.yarn && npm i -g yarn && yarn -v && yarn global
                 add wait-on' # Use yarn latest
           yarn: true
+          record: false
           store_artifacts: false
           working_directory: platform/viewer
-          build: yarn run build:package
-          start: yarn run test:e2e:dist
+          build: npx cross-env QUICK_BUILD=true yarn run build:package
+          start: yarn run test:e2e:serve
+          spec: 'cypress/integration/common/**/*,cypress/integration/script-tag/**/*'
           wait-on: 'http://localhost:3000'
-          cache-key: 'yarn-packages-v1-{{ .Branch }}-{{ checksum "yarn.lock" }}'
+          cache-key: 'yarn-packages-{{ checksum "yarn.lock" }}'
           no-workspace: true # Don't persist workspace
           post-steps:
             - store_artifacts:
                 path: platform/viewer/cypress/screenshots
+            - store_artifacts:
+                path: platform/viewer/cypress/videos
           requires:
             - UNIT_TESTS
 
-  # MERGE TO MASTER
-  RELEASE:
+  PR_OPTIONAL_VISUAL_TESTS:
     jobs:
-      - CHECKOUT:
-          filters:
-            branches:
-              only: master
-      - UNIT_TESTS:
-          requires:
-            - CHECKOUT
-      # E2E: PWA + Persist
+      - AWAIT_APPROVAL:
+          type: approval
+      # Update hub.docker.org
       - cypress/run:
-          name: 'E2E: PWA'
-          pre-steps:
-            - run: 'rm -rf ~/.yarn && npm i -g yarn && yarn -v && yarn global
-                add wait-on' # Use yarn latest
-          yarn: true
-          record: true
-          store_artifacts: true
-          working_directory: platform/viewer
-          build: yarn run build:e2e
-          start: yarn run test:e2e:dist
-          wait-on: 'http://localhost:3000'
-          cache-key: 'yarn-packages-v1-{{ .Branch }}-{{ checksum "yarn.lock" }}'
-          no-workspace: true # Don't persist workspace
-          post-steps:
-            - store_artifacts:
-                path: platform/viewer/cypress/screenshots
-            - store_test_results:
-                path: cypress/results
-          requires:
-            - UNIT_TESTS
-      # E2E: script-tag
-      - cypress/run:
-          name: 'E2E: Script Tag'
+          name: 'Generate Percy Snapshots'
+          executor: cypress/browsers-chrome76
+          browser: chrome
           pre-steps:
             - run: 'rm -rf ~/.yarn && npm i -g yarn && yarn -v && yarn global
                 add wait-on' # Use yarn latest
           yarn: true
           store_artifacts: false
           working_directory: platform/viewer
-          build: yarn run build:package
-          start: yarn run test:e2e:dist
-          wait-on: 'http://localhost:3000'
-          cache-key: 'yarn-packages-v1-{{ .Branch }}-{{ checksum "yarn.lock" }}'
+          build: npx cross-env QUICK_BUILD=true yarn run build
+          # start server --> verify running --> percy + chrome + cypress
+          command: yarn run test:e2e:dist
+          cache-key: 'yarn-packages-{{ checksum "yarn.lock" }}'
           no-workspace: true # Don't persist workspace
           post-steps:
             - store_artifacts:
                 path: platform/viewer/cypress/screenshots
-            - store_test_results:
-                path: cypress/results
+            - store_artifacts:
+                path: platform/viewer/cypress/videos
           requires:
-            - UNIT_TESTS
-      # Update NPM
-      - NPM_PUBLISH:
-          requires:
-            - 'E2E: Script Tag'
-            - 'E2E: PWA'
-      # Update docs.ohif.org
-      - DOCS_PUBLISH:
-          requires:
-            - 'E2E: Script Tag'
-            - 'E2E: PWA'
-      - VIEWER_DEMO_BUILD:
-          requires:
-            - 'E2E: Script Tag'
-            - 'E2E: PWA'
-      # Update viewer.ohif.org
-      - VIEWER_DEMO_PUBLISH:
-          requires:
-            - VIEWER_DEMO_BUILD
+            - AWAIT_APPROVAL
+
+  PR_OPTIONAL_DOCKER_PUBLISH:
+    jobs:
+      # https://circleci.com/docs/2.0/workflows/#holding-a-workflow-for-a-manual-approval
+      - AWAIT_APPROVAL:
+          type: approval
       # Update hub.docker.org
-      - DOCKER_PUBLISH:
+      - DOCKER_PR_PUBLISH:
+          context: Docker Hub
+          requires:
+            - AWAIT_APPROVAL
+
+  ###
+  # Our workflow for building, deploying, and promoting builds across our
+  # development, staging, and production environments.
+  ###
+  DEPLOY:
+    jobs:
+      - BUILD:
+          filters:
+            branches:
+              only: master
+      - DEPLOY_TO_DEV:
+          requires:
+            - BUILD
+      - PROMOTE_TO_STAGING:
+          type: approval
+          requires:
+            - DEPLOY_TO_DEV
+      - DEPLOY_TO_STAGING:
+          requires:
+            - PROMOTE_TO_STAGING
+      - PROMOTE_TO_PRODUCTION:
+          type: approval
+          requires:
+            - DEPLOY_TO_STAGING
+      - DEPLOY_TO_PRODUCTION:
+          requires:
+            - PROMOTE_TO_PRODUCTION
+  ###
+  # Unit and E2E tests have already run for PR_CHECKS
+  # Re-running should not gain us any confidence here
+  ###
+  RELEASE:
+    jobs:
+      - NPM_PUBLISH:
+          filters:
+            branches:
+              only: master
+      - DOCS_PUBLISH:
+          filters:
+            branches:
+              only: master
+      # Update base branch snapshots
+      # and record a Cypress dashboard test run
+      - cypress/run:
+          name: 'Generate Percy Snapshots'
+          executor: cypress/browsers-chrome76
+          browser: chrome
+          pre-steps:
+            - run: 'rm -rf ~/.yarn && npm i -g yarn && yarn -v && yarn global
+                add wait-on' # Use yarn latest
+          yarn: true
+          store_artifacts: false
+          working_directory: platform/viewer
+          build: npx cross-env QUICK_BUILD=true yarn run build
+          # start server --> verify running --> percy + chrome + cypress
+          command: yarn run test:e2e:dist
+          cache-key: 'yarn-packages-{{ checksum "yarn.lock" }}'
+          no-workspace: true # Don't persist workspace
+          post-steps:
+            - store_artifacts:
+                path: platform/viewer/cypress/screenshots
+            - store_artifacts:
+                path: platform/viewer/cypress/videos
+            - store_test_results:
+                path: platform/viewer/cypress/results
+          filters:
+            branches:
+              only: master
+      - DOCKER_MASTER_PUBLISH:
           requires:
             - NPM_PUBLISH

.codecov.yml

@@ -8,11 +8,13 @@ coverage:
   status:
     project:
       default:
-        threshold: 0.10%
+        threshold: 0.5%
       core:
         flags: core
+        threshold: 0.5%
       viewer:
         flags: viewer
+        threshold: 0.5%
     patch: off
 flags:
   core:

.docker/Viewer-v2.x/entrypoint.sh

@@ -1,17 +1,31 @@
 #!/bin/bash
 
-# If CLIENT_ID is specified, use the google.js configuration with the modified ID
-if [ ! -z "$CLIENT_ID" ]
+if [ -n "$CLIENT_ID" ] || [ -n "$HEALTHCARE_API_ENDPOINT" ]
   then
-  	echo "Google Cloud Healthcare $CLIENT_ID has been provided: "
-  	echo $CLIENT_ID
-  	echo "Updating config..."
+    # If CLIENT_ID is specified, use the google.js configuration with the modified ID
+    if [ -n "$CLIENT_ID" ]
+      then
+  	    echo "Google Cloud Healthcare \$CLIENT_ID has been provided: "
+  	    echo "$CLIENT_ID"
+  	    echo "Updating config..."
 
-  	# - Use SED to replace the CLIENT_ID that is currently in google.js
-	sed -i -e "s/YOURCLIENTID.apps.googleusercontent.com/$CLIENT_ID/g" /usr/share/nginx/html/google.js
+  	    # - Use SED to replace the CLIENT_ID that is currently in google.js
+	      sed -i -e "s/YOURCLIENTID.apps.googleusercontent.com/$CLIENT_ID/g" /usr/share/nginx/html/google.js
+	  fi
 
-	# - Copy google.js to overwrite app-config.js
-	cp /usr/share/nginx/html/google.js /usr/share/nginx/html/app-config.js
+    # If HEALTHCARE_API_ENDPOINT is specified, use the google.js configuration with the modified endpoint
+    if [ -n "$HEALTHCARE_API_ENDPOINT" ]
+      then
+        echo "Google Cloud Healthcare \$HEALTHCARE_API_ENDPOINT has been provided: "
+        echo "$HEALTHCARE_API_ENDPOINT"
+        echo "Updating config..."
+
+        # - Use SED to replace the HEALTHCARE_API_ENDPOINT that is currently in google.js
+        sed -i -e "s+https://healthcare.googleapis.com/v1beta1+$HEALTHCARE_API_ENDPOINT+g" /usr/share/nginx/html/google.js
+    fi
+
+	  # - Copy google.js to overwrite app-config.js
+	  cp /usr/share/nginx/html/google.js /usr/share/nginx/html/app-config.js
 fi
 
 echo "Starting Nginx to serve the OHIF Viewer..."

.env.example

@@ -0,0 +1 @@
+PERCY_TOKEN=<your token here>

.eslintrc.json

@@ -16,6 +16,7 @@
   },
   "globals": {
     "cy": true,
+    "before": true,
     "context": true,
     "Cypress": true,
     "assert": true

.github/ISSUE_TEMPLATE/---bug-report.md

@@ -2,7 +2,7 @@
 name: "\U0001F41B Bug report"
 about: Create a report to help us improve
 title: ''
-labels: 'Community: Report :bug:'
+labels: 'Community: Report :bug:, Awaiting Reproduction, Triage :white_flag:'
 assignees: ''
 ---
 

.github/ISSUE_TEMPLATE/---feature-request.md

@@ -2,7 +2,7 @@
 name: "\U0001F680 Feature request"
 about: Suggest an idea for this project
 title: ''
-labels: 'Community: Request :hand:'
+labels: 'Community: Request :hand:, Triage :white_flag:'
 assignees: ''
 ---
 

.github/ISSUE_TEMPLATE/---support-question.md

@@ -2,7 +2,7 @@
 name: "\U0001F917 Support Question"
 about: "I have a question \U0001F4AC"
 title: ''
-labels: 'Community: Question :question:'
+labels: 'Community: Question :question:, Triage :white_flag:'
 assignees: ''
 ---
 

.github/pull_request_template.md

@@ -0,0 +1,16 @@
+### PR Checklist
+
+- [ ] Brief description of changes
+- [ ] Links to any relevant issues
+- [ ] Required status checks are passing
+- [ ] User cases if changes impact the user's experience
+- [ ] `@mention` a maintainer to request a review
+
+<!--
+  Links
+  -->
+
+<!-- prettier-ignore-start -->
+[blog]: https://circleci.com/blog/triggering-trusted-ci-jobs-on-untrusted-forks/
+[script]: https://github.com/jklukas/git-push-fork-to-upstream-branch
+<!-- prettier-ignore-end -->

.github/stale.yml

@@ -9,13 +9,14 @@ daysUntilClose: 7
 exemptLabels:
   - 'Story :raised_hands:'
   - 'Bug: Verified :bug:'
-  - 'Task: CI/Tooling 🤖'
+  - 'Task: CI/Tooling :robot:'
   - 'Task: Docs 📖'
   - 'Task: Docs :book:'
-  - 'Task: Refactor 🛠'
+  - 'Task: Refactor :hammer_and_wrench:'
   - 'Task: Tests :microscope:'
   - 'PR: Awaiting Review 👀'
-  - 'Triage 🏳️'
+  - 'Triage :white_flag:'
+  - 'Extension: Discussion'
   - 'Announcement 🎉'
 # Label to use when marking an issue as stale
 staleLabel: 'Stale :baguette_bread:'

.gitignore

@@ -21,6 +21,7 @@ npm-debug.log
 package-lock.json
 yarn-error.log
 .DS_Store
+.env
 
 # Common Example Data Directories
 sampledata/
@@ -29,6 +30,7 @@ docker/dcm4che/dcm4che-arc
 
 # Cypress test results
 videos/
+screenshots/
 
 # Locize settings
 .locize

.netlify/deploy-workflow/_redirects

@@ -0,0 +1,5 @@
+# Specific to our non-deploy-preview deploys
+# Confgure redirects using netlify.toml
+
+# PWA Redirect
+/* /index.html 200

.netlify/package.json

@@ -0,0 +1,15 @@
+{
+  "name": "root",
+  "private": true,
+  "engines": {
+    "node": ">=10",
+    "npm": ">=6",
+    "yarn": ">=1.16.0"
+  },
+  "scripts": {
+    "deploy": "netlify deploy --prod --dir ./../platform/viewer/dist"
+  },
+  "devDependencies": {
+    "netlify-cli": "^2.21.0"
+  }
+}

.vscode/settings.json

@@ -1,10 +1,8 @@
 {
   "editor.rulers": [80, 120],
-
   // ===
   // Spacing
   // ===
-
   "editor.insertSpaces": true,
   "editor.tabSize": 2,
   "editor.trimAutoWhitespace": true,
@@ -12,19 +10,26 @@
   "files.eol": "\n",
   "files.insertFinalNewline": true,
   "files.trimFinalNewlines": true,
-
   // ===
   // Event Triggers
   // ===
-
   "editor.formatOnSave": true,
   "eslint.autoFixOnSave": true,
   "eslint.run": "onSave",
   "eslint.validate": [
-    { "language": "javascript", "autoFix": true },
-    { "language": "javascriptreact", "autoFix": true }
+    {
+      "language": "javascript",
+      "autoFix": true
+    },
+    {
+      "language": "javascriptreact",
+      "autoFix": true
+    }
   ],
-  "prettier.disableLanguages": [],
+  "prettier.disableLanguages": ["html"],
   "prettier.endOfLine": "lf",
-  "workbench.colorCustomizations": {}
+  "workbench.colorCustomizations": {},
+  "editor.codeActionsOnSave": {
+    "source.fixAll.eslint": true
+  }
 }

.webpack/webpack.base.js

@@ -1,23 +1,54 @@
+// ~~ ENV
+const dotenv = require('dotenv');
+//
 const path = require('path');
 const webpack = require('webpack');
+const PACKAGE = require('../platform/viewer/package.json');
+// ~~ RULES
 const loadShadersRule = require('./rules/loadShaders.js');
 const loadWebWorkersRule = require('./rules/loadWebWorkers.js');
 const transpileJavaScriptRule = require('./rules/transpileJavaScript.js');
+// ~~ PLUGINS
+const TerserJSPlugin = require('terser-webpack-plugin');
+// ~~ ENV VARS
+const NODE_ENV = process.env.NODE_ENV;
+const QUICK_BUILD = process.env.QUICK_BUILD;
+const BUILD_NUM = process.env.CIRCLE_BUILD_NUM || '0';
+
+//
+dotenv.config();
 
 module.exports = (env, argv, { SRC_DIR, DIST_DIR }) => {
   if (!process.env.NODE_ENV) {
     throw new Error('process.env.NODE_ENV not set');
   }
 
-  const mode =
-    process.env.NODE_ENV === 'production' ? 'production' : 'development';
+  const mode = NODE_ENV === 'production' ? 'production' : 'development';
+  const isProdBuild = NODE_ENV === 'production';
+  const isQuickBuild = QUICK_BUILD === 'true';
 
-  return {
-    mode,
+  const config = {
+    mode: isProdBuild ? 'production' : 'development',
+    devtool: isProdBuild ? 'source-map' : 'cheap-module-eval-source-map',
     entry: {
       app: `${SRC_DIR}/index.js`,
     },
+    optimization: {
+      minimize: isProdBuild,
+      sideEffects: true,
+    },
     context: SRC_DIR,
+    stats: {
+      colors: true,
+      hash: true,
+      timings: true,
+      assets: true,
+      chunks: false,
+      chunkModules: false,
+      modules: false,
+      children: false,
+      warnings: true,
+    },
     module: {
       rules: [
         transpileJavaScriptRule(mode),
@@ -41,10 +72,17 @@ module.exports = (env, argv, { SRC_DIR, DIST_DIR }) => {
     },
     plugins: [
       new webpack.DefinePlugin({
+        /* Application */
         'process.env.NODE_ENV': JSON.stringify(process.env.NODE_ENV),
         'process.env.DEBUG': JSON.stringify(process.env.DEBUG),
         'process.env.APP_CONFIG': JSON.stringify(process.env.APP_CONFIG || ''),
         'process.env.PUBLIC_URL': JSON.stringify(process.env.PUBLIC_URL || '/'),
+        'process.env.VERSION_NUMBER': JSON.stringify(PACKAGE.version || ''),
+        'process.env.BUILD_NUM': JSON.stringify(BUILD_NUM),
+        /* i18n */
+        'process.env.USE_LOCIZE': JSON.stringify(process.env.USE_LOCIZE || ''),
+        'process.env.LOCIZE_PROJECTID': JSON.stringify(process.env.LOCIZE_PROJECTID || ''),
+        'process.env.LOCIZE_API_KEY': JSON.stringify(process.env.LOCIZE_API_KEY || ''),
       }),
     ],
     // Fix: https://github.com/webpack-contrib/css-loader/issues/447#issuecomment-285598881
@@ -53,4 +91,23 @@ module.exports = (env, argv, { SRC_DIR, DIST_DIR }) => {
       fs: 'empty',
     },
   };
+
+  if (isProdBuild) {
+    config.optimization.minimizer = [
+      new TerserJSPlugin({
+        // Supports:
+        // source-map and inline-source-map
+        sourceMap: isProdBuild && !isQuickBuild,
+        parallel: true,
+        terserOptions: {},
+      }),
+    ];
+  }
+
+  if (isQuickBuild) {
+    config.optimization.minimize = false;
+    config.devtool = false;
+  }
+
+  return config;
 };

CODE_OF_CONDUCT.md

@@ -0,0 +1,76 @@
+# Contributor Covenant Code of Conduct
+
+## Our Pledge
+
+In the interest of fostering an open and welcoming environment, we as
+contributors and maintainers pledge to making participation in our project and
+our community a harassment-free experience for everyone, regardless of age, body
+size, disability, ethnicity, sex characteristics, gender identity and expression,
+level of experience, education, socio-economic status, nationality, personal
+appearance, race, religion, or sexual identity and orientation.
+
+## Our Standards
+
+Examples of behavior that contributes to creating a positive environment
+include:
+
+* Using welcoming and inclusive language
+* Being respectful of differing viewpoints and experiences
+* Gracefully accepting constructive criticism
+* Focusing on what is best for the community
+* Showing empathy towards other community members
+
+Examples of unacceptable behavior by participants include:
+
+* The use of sexualized language or imagery and unwelcome sexual attention or
+ advances
+* Trolling, insulting/derogatory comments, and personal or political attacks
+* Public or private harassment
+* Publishing others' private information, such as a physical or electronic
+ address, without explicit permission
+* Other conduct which could reasonably be considered inappropriate in a
+ professional setting
+
+## Our Responsibilities
+
+Project maintainers are responsible for clarifying the standards of acceptable
+behavior and are expected to take appropriate and fair corrective action in
+response to any instances of unacceptable behavior.
+
+Project maintainers have the right and responsibility to remove, edit, or
+reject comments, commits, code, wiki edits, issues, and other contributions
+that are not aligned to this Code of Conduct, or to ban temporarily or
+permanently any contributor for other behaviors that they deem inappropriate,
+threatening, offensive, or harmful.
+
+## Scope
+
+This Code of Conduct applies both within project spaces and in public spaces
+when an individual is representing the project or its community. Examples of
+representing a project or community include using an official project e-mail
+address, posting via an official social media account, or acting as an appointed
+representative at an online or offline event. Representation of a project may be
+further defined and clarified by project maintainers.
+
+## Enforcement
+
+Instances of abusive, harassing, or otherwise unacceptable behavior may be
+reported by contacting the project team at danny.ri.brown+OHIFcoc@gmail.com. All
+complaints will be reviewed and investigated and will result in a response that
+is deemed necessary and appropriate to the circumstances. The project team is
+obligated to maintain confidentiality with regard to the reporter of an incident.
+Further details of specific enforcement policies may be posted separately.
+
+Project maintainers who do not follow or enforce the Code of Conduct in good
+faith may face temporary or permanent repercussions as determined by other
+members of the project's leadership.
+
+## Attribution
+
+This Code of Conduct is adapted from the [Contributor Covenant][homepage], version 1.4,
+available at https://www.contributor-covenant.org/version/1/4/code-of-conduct.html
+
+[homepage]: https://www.contributor-covenant.org
+
+For answers to common questions about this code of conduct, see
+https://www.contributor-covenant.org/faq

CONTRIBUTING.md

@@ -0,0 +1 @@
+See our contributing guidelines at [`https://docs.ohif.org`](https://docs.ohif.org/development/contributing.html)

Dockerfile

@@ -44,6 +44,7 @@ RUN yarn config set workspaces-experimental true
 RUN yarn install
 
 ENV PATH /usr/src/app/node_modules/.bin:$PATH
+ENV QUICK_BUILD true
 # ENV GENERATE_SOURCEMAP=false
 # ENV REACT_APP_CONFIG=config/default.js
 

README.md

@@ -22,10 +22,12 @@
 [![NPM downloads][npm-downloads-image]][npm-url]
 [![Pulls][docker-pulls-img]][docker-image-url]
 [![MIT License][license-image]][license-url]
+[![FOSSA Status](https://app.fossa.io/api/projects/git%2Bgithub.com%2FOHIF%2FViewers.svg?type=shield)](https://app.fossa.io/projects/git%2Bgithub.com%2FOHIF%2FViewers?ref=badge_shield)
 
 [![Netlify Status][netlify-image]][netlify-url]
 [![CircleCI][circleci-image]][circleci-url]
 [![codecov][codecov-image]][codecov-url]
+[![This project is using Percy.io for visual regression testing.][percy-image]](percy-url)
 [![All Contributors](https://img.shields.io/badge/all_contributors-10-orange.svg?style=flat-square)](#contributors)
 <!-- prettier-ignore-end -->
 
@@ -82,7 +84,7 @@ We offer support through
 
 For commercial support, academic collaberations, and answers to common
 questions; please read our
-[documented FAQ](https://docs.ohif.org/frequently-asked-questions.html#does-ohif-offer-commercial-support).
+[documented FAQ](https://docs.ohif.org/faq/index.html#does-ohif-offer-commercial-support).
 
 ## Quick Start Deployment
 
@@ -132,7 +134,7 @@ deployment recipe.
 ### Requirements
 
 - [Yarn 1.17.3+](https://yarnpkg.com/en/docs/install)
-- [Node 8+](https://nodejs.org/en/)
+- [Node 10+](https://nodejs.org/en/)
 - Yarn Workspaces should be enabled on your machine:
   - `yarn config set workspaces-experimental true`
 
@@ -269,8 +271,8 @@ MIT © [OHIF](https://github.com/OHIF)
 <!-- Badges -->
 [lerna-image]: https://img.shields.io/badge/maintained%20with-lerna-cc00ff.svg
 [lerna-url]: https://lerna.js.org/
-[netlify-image]: https://api.netlify.com/api/v1/badges/a5d369ab-18a6-41c3-bcde-83805205ac7f/deploy-status
-[netlify-url]: https://app.netlify.com/sites/ohif/deploys
+[netlify-image]: https://api.netlify.com/api/v1/badges/32708787-c9b0-4634-b50f-7ca41952da77/deploy-status
+[netlify-url]: https://app.netlify.com/sites/ohif-dev/deploys
 [all-contributors-image]: https://img.shields.io/badge/all_contributors-0-orange.svg?style=flat-square
 [circleci-image]: https://circleci.com/gh/OHIF/Viewers.svg?style=svg
 [circleci-url]: https://circleci.com/gh/OHIF/Viewers
@@ -288,18 +290,20 @@ MIT © [OHIF](https://github.com/OHIF)
 [docker-image-url]: https://hub.docker.com/r/ohif/viewer
 [license-image]: https://img.shields.io/badge/license-MIT-blue.svg?style=flat-square
 [license-url]: LICENSE
+[percy-image]: https://percy.io/static/images/percy-badge.svg
+[percy-url]: https://percy.io/Open-Health-Imaging-Foundation/OHIF-Viewer
 <!-- Links -->
 [monorepo]: https://en.wikipedia.org/wiki/Monorepo
 [how-to-fork]: https://help.github.com/en/articles/fork-a-repo
 [how-to-clone]: https://help.github.com/en/articles/fork-a-repo#step-2-create-a-local-clone-of-your-fork
-[ohif-architecture]: https://docs.ohif.org/advanced/architecture.html
-[ohif-extensions]: https://docs.ohif.org/advanced/architecture.html
+[ohif-architecture]: https://docs.ohif.org/architecture/index.html
+[ohif-extensions]: https://docs.ohif.org/architecture/index.html
 [deployment-docs]: https://docs.ohif.org/deployment/
 [react-url]: https://reactjs.org/
 [pwa-url]: https://developers.google.com/web/progressive-web-apps/
 [ohif-viewer-url]: https://www.npmjs.com/package/@ohif/viewer
-[configuration-url]: https://docs.ohif.org/essentials/configuration.html
-[extensions-url]: https://docs.ohif.org/advanced/extensions.html
+[configuration-url]: https://docs.ohif.org/configuring/
+[extensions-url]: https://docs.ohif.org/extensions/
 <!-- Platform -->
 [platform-core]: platform/core/README.md
 [core-npm]: https://www.npmjs.com/package/@ohif/core
@@ -321,3 +325,5 @@ MIT © [OHIF](https://github.com/OHIF)
 [extension-vtk]: extensions/vtk/README.md
 [vtk-npm]: https://www.npmjs.com/package/@ohif/extension-vtk
 <!-- prettier-ignore-end -->
+
+[![FOSSA Status](https://app.fossa.io/api/projects/git%2Bgithub.com%2FOHIF%2FViewers.svg?type=large)](https://app.fossa.io/projects/git%2Bgithub.com%2FOHIF%2FViewers?ref=badge_large)

docs/latest/README.md

@@ -38,9 +38,9 @@ our integration and extension points.
 Check out these helpful links:
 
 - Ready to dive into some code? Check out our
-  [Getting Started Guide](./essentials/getting-started.md).
+  [Getting Started Guide](./development/getting-started.md).
 - We're an active, vibrant community.
-  [Learn how you can be more involved.](./contributing/index.md)
+  [Learn how you can be more involved.](./development/contributing.md)
 - Feeling lost? Read our [help page](./help.md).
 
 <!--

docs/latest/SUMMARY.md

@@ -1,31 +1,39 @@
 # OHIF Viewers
 
-- Essentials
-  - [Getting Started](essentials/getting-started.md)
-  - [Installation](essentials/installation.md)
-  - [Data Source](essentials/data-source.md)
-  - [Configuration](essentials/configuration.md)
-  - [Themeing](essentials/themeing.md)
-  - [Translating](essentials/translating.md)
-  - [Troubleshooting](essentials/troubleshooting.md)
-- [Scope of Project](essentials/scope-of-project.md)
+- [Our Process](our-process.md)
+- Development
+  - [Getting Started](development/getting-started.md)
+  - [Contributing](development/contributing.md)
+  - [Continuous Integration](development/continous-integration.md)
+- [Configuring](configuring/index.md)
+  - [Data Source](configuring/data-source.md)
 
 ---
 
-- [Advanced](advanced/index.md)
-- [Architecture](advanced/architecture.md)
-  - [Overview](advanced/architecture.md#overview)
-  - [Business Logic](advanced/architecture.md#business-logic)
-  - [Component Library](advanced/architecture.md#react-component-library)
-  - [Extensions](advanced/architecture.md#misc-extensions)
-  - [Diagram](advanced/architecture.md#diagram)
-  - [Common Questions](advanced/architecture.md#common-questions)
-- [Extensions](advanced/extensions.md)
-  - [Overview](advanced/extensions.md#overview)
-  - [Modules](advanced/extensions.md#modules)
-  - [Registering](advanced/extensions.md#registering-extensions)
-  - [OHIF Maintained](advanced/extensions.md#ohif-maintained-extensions)
-- [Custom Tools](advanced/custom-tools.md)
+- [Architecture](architecture/index.md)
+- [Viewer](viewer/index.md)
+  - [Configuration](viewer/configuration.md)
+  - [Themeing](viewer/themeing.md)
+  - [Internationalization](viewer/internationalization.md)
+- [Extensions](extensions/index.md)
+  - [Registering](extensions/index.md#registering-an-extension)
+  - [Lifecycle Hooks](extensions/index.md#lifecycle-hooks)
+    - [preRegistration](extensions/lifecycle/pre-registration.md)
+  - [Modules](extensions/index.md#modules)
+    - [Commands](extensions/modules/commands.md)
+    - [Panel](extensions/modules/panel.md)
+    - [SOP Class Handler](extensions/modules/sop-class-handler.md)
+    - [Toolbar](extensions/modules/toolbar.md)
+    - [Viewport](extensions/modules/viewport.md)
+  - [Contexts](extensions/index.md#contexts)
+  - [ExtensionManager](extensions/index.md#extensionmanager)
+  - [OHIF Maintained](extensions/index.md#maintained-extensions)
+- [Services](services/index.md)
+  - [Default](services/default/index.md)
+  - [UI](services/ui/index.md)
+    - [Dialog Service](services/ui/ui-dialog-service.md)
+    - [Modal Service](services/ui/ui-modal-service.md)
+    - [Notification Service](services/ui/ui-notification-service.md)
 
 ---
 
@@ -45,7 +53,8 @@
 
 ---
 
-- [FAQ](frequently-asked-questions.md)
-- [Contributing](contributing/index.md)
-- [Browser Support](browser-support.md)
+- [FAQ](faq/index.md)
+  - [Scope of Project](faq/scope-of-project.md)
+  - [Browser Support](faq/browser-support.md)
+  - [PWA vs Packaged](faq/pwa-vs-packaged.md)
 - [Help](help.md)

docs/latest/advanced/custom-tools.md

@@ -1,8 +0,0 @@
-# Tool Management
-
-This is not yet exposed in an easy/convenient way. Most tools are currently
-added by creating new Viewport, Toolbar, and SOPInstanceHandler extension
-modules. You can read more about that approach in [extensions](./extensions.md).
-
-In the near future, we intend to improve the extensibility of tools for existing
-Viewports (like our Cornerstone.js and VTK.js viewports).

docs/latest/advanced/extensions.md

@@ -1,256 +0,0 @@
-# Extensions
-
-Extensions add new functionality to the viewer by registering one or more
-modules. They go one step further than configuration in that they allow us to
-inject custom React components, so long as they adhere to the module's
-interface. This can be something as simple as adding a new button to the
-toolbar, or as complex as a new viewport capable of rendering volumes in 3D.
-
-- [Overview](#overview)
-- [Modules](#modules)
-  - [Commands](#commands)
-  - [Hotkeys](#hotkeys)
-  - [Toolbar](#toolbar)
-  - [Panel](#panel)
-  - [Viewport](#viewport)
-  - [SOP Class Handler](#sopclasshandler)
-
-## Overview
-
-At a glance, an extension is a javascript object that has an `id` property, and
-one or more "module" methods. You can find an abbreviated extension below, or
-[view the source][example-ext-src] of our example extension.
-
-```js
-export default {
-    /**
-     * Only required property. Should be a unique value across all extensions.
-     */
-    id: 'example-extension',
-
-    /**
-     * Registers one or more named commands scoped to a context. Commands are
-     * the primary means for...
-     */
-    getCommandsModule() {
-        return {
-            defaultContext: 'VIEWER'
-            actions: { ... },
-            definitions: { ... }
-        }
-    },
-
-    /**
-     * Allows you to provide toolbar definitions that will be merged with any
-     * existing application toolbar configuration. Used to determine which
-     * buttons should be visible when, their order, what happens when they're
-     * clicked, etc.
-     */
-    getToolbarModule() {
-        return {
-            definitions: [ ... ],
-            defaultContext: 'ACTIVE_VIEWPORT::CORNERSTONE'
-        }
-    }
-
-    /**
-     * Not yet implemented
-     */
-    getPanelModule: () => null,
-
-    /**
-     * Registers a ReactComponent that should be used to render data in a
-     * Viewport. The first registered viewport is our "default viewport". If
-     * more than one viewport is registered, we use `SopClassHandlers` to
-     * determine which viewport should be used.
-    */
-    getViewportModule: () => reactViewportComponent,
-
-    /** Provides a whitelist of SOPClassUIDs the viewport is capable of rendering.
-     *  Can modify default behavior for methods like `getDisplaySetFromSeries` */
-    getSopClassHandler: () => {
-        id: 'some-other-unique-id',
-        sopClassUids: [ ... ],
-        getDisplaySetFromSeries: (series, study, dicomWebClient, authorizationHeaders) => { ... }
-    },
-}
-```
-
-### Modules
-
-There are a few different module types. Each module type allows us to extend the
-viewer in a different way, and provides a consistent API for us to do so. You
-can find a full list of the different types of modules
-[`in ohif-core`][module-types]. Information on each type of module, it's API,
-and how we determine when/where it should be used is included below.
-
-> NOTE: Modifying the extensions/modules registered to the OHIF Viewer currently
-> requires us to import and pass extensions to the ExtensionManager in
-> `src/App.js`, then rebuild the application. Long-term, we intend to make it
-> possible to accomplish this without a build step.
-
-#### Commands
-
-The Commands Module allows us to register one or more commands scoped to
-specific contexts. Commands can be run by [hotkeys][#], [toolbar buttons][#],
-and any registered custom react component (like a [viewport][#] or [panel][#]).
-Here is a simple example commands module:
-
-```js
-{
-    getCommandsModule() {
-        return {
-            actions: {
-                speak: ({ viewports, words }) => {
-                    console.log(viewports, words);
-                },
-            },
-            definitions: {
-                rotateViewportCW: {
-                    commandFn: actions.rotateViewport,
-                    storeContexts: ['viewports'],
-                    options: { rotation: 90 }
-                },
-                rotateViewportCCW: {
-                    commandFn: actions.rotateViewport,
-                    storeContexts: ['viewports'],
-                    options: { rotation: -90 },
-                    context: 'ACTIVE_VIEWER::CORNERSTONE'
-                },
-            },
-            defaultContext: 'VIEWER'
-        }
-    }
-}
-```
-
-#### Viewport
-
-An extension can register a Viewport Module by providing a `getViewportModule()`
-method that returns a React Component. The React component will receive the
-following props:
-
-```js
-children: PropTypes.arrayOf(PropTypes.element)
-studies: PropTypes.object,
-displaySet: PropTypes.object,
-viewportData: PropTypes.object, // { studies, displaySet }
-viewportIndex: PropTypes.number,
-children: PropTypes.node,
-customProps: PropTypes.object
-```
-
-Viewport components are managed by the `LayoutManager`. Which Viewport component
-is used depends on:
-
-- The Layout Configuration
-- Registered SopClassHandlers
-- The SopClassUID for visible/selected datasets
-
-![Cornerstone Viewport](../assets/img/extensions-viewport.png)
-
-<center><i>An example of three Viewports</i></center>
-
-For a complete example implementation,
-[check out the OHIFCornerstoneViewport](https://github.com/OHIF/Viewers/blob/master/extensions/cornerstone/src/OHIFCornerstoneViewport.js).
-
-#### Toolbar
-
-An extension can register a Toolbar Module by providing a `getToolbarModule()`
-method that returns a React Component. The component does not receive any props.
-If you want to modify or react to state, you will need to connect to the redux
-store.
-The given toolbar must determine its set of elements and the context of them. The set of elements will be listed on toolbar `definitions`.
-
-![Toolbar Extension](../assets/img/extensions-toolbar.gif)
-
-<center><i>A toolbar extension example</i></center>
-
-Toolbar components are rendered in the `ToolbarRow` component.
-
-For a complete example implementation,
-[check out the OHIFCornerstoneViewport's Toolbar Module](https://github.com/OHIF/Viewers/blob/master/extensions/cornerstone/src/toolbarModule.js).
-
-##### Toolbar Custom Component
-
-Toolbar elements can define its own custom react component to be consumed when rendering it. So far, it accepts `Functional` and `Class` Components. For that, you just need to expose your `CustomToolbarComponent` as the value of key `CustomComponent`. In case the property `CustomComponent` is not present, a default toolbar component will be used to render it. See bellow
-
-```js
-definitions: [
-...
-    {
-        id: 'Custom',
-        label: 'Custom',
-        icon: 'custom-icon',
-        CustomComponent: CustomToolbarComponent,
-    }
-...
-]
-
-```
-`CustomComponent` components will receive the following props:
-- parentContext: parent context. (In most of the cases it will be a ToolbarRow instance)
-- toolbarClickCallback: callback method when clicking on toolbar
-- button: its own definition object
-- key: react key prop
-- activeButtons: list of active elements
-- isActive: if current
-
-#### SopClassHandler
-
-...
-
-#### Panel
-
-> The panel module is not yet in use.
-
-#### Hotkeys
-
-...
-
-### Registering Extensions
-
-Extensions are registered for the application at startup. The
-`ExtensionManager`, exposed by `ohif-core`, registers a list of extensions with
-our application's store. Each module provided by the extension becomes available
-via `state.plugins.availablePlugins`, and consists of three parts: id, type
-([PLUGIN_TYPE](https://github.com/OHIF/ohif-core/blob/43c08a29eff3fb646a0e83a03a236ddd84f4a6e8/src/plugins.js#L1-L6)),
-and the return value of the module method.
-
-In a future version, we will likely expose a way to provide the extensions you
-would like included at startup.
-
-_app.js_
-
-```js
-import { createStore, combineReducers } from 'redux';
-import OHIF from '@ohif/core';
-import OHIFCornerstoneExtension from 'ohif-cornerstone-extension';
-
-const combined = combineReducers(OHIF.redux.reducers);
-const store = createStore(combined);
-const extensions = [new OHIFCornerstoneExtension()];
-
-// Dispatches the `addPlugin` action to the store
-// Adding extension modules to `state.plugins.availablePlugins`
-ExtensionManager.registerExtensions(store, extensions);
-```
-
-## OHIF Maintained Extensions
-
-A small number of powerful extensions for popular use cases are maintained by
-OHIF. They're co-located in the
-[`OHIF/Viewers`](https://github.com/OHIF/Viewers) repository, in the top level
-[`extensions/`](https://github.com/OHIF/Viewers/tree/master/extensions)
-directory.
-
-{% include "./_maintained-extensions-table.md" %}
-
-<!--
-    Links
--->
-
-<!-- prettier-ignore-start -->
-[example-ext-src]: https://github.com/OHIF/Viewers/tree/master/extensions/_example/src
-[module-types]: https://github.com/OHIF/Viewers/blob/master/platform/core/src/extensions/MODULE_TYPES.js
-<!-- prettier-ignore-end -->

docs/latest/advanced/index.md

@@ -1,3 +0,0 @@
-# Advanced
-
-Advanced topics go beyond basic configuration and deployment. Their goal is to provide insight into this project's architecture and guidance on leveraging extensions.

docs/latest/advanced/monorepos-a-crash-courese.md

@@ -1,23 +0,0 @@
-# MonoRepos: A Crash Course
-
-- [Lerna][lerna]
-
-Solutions:
-
-## Semantic-Release
-
-- [Semantic-Release](https://github.com/semantic-release/semantic-release/issues/193#issuecomment-462063871)
-- [Multi-semantic-release](https://github.com/dhoulb/multi-semantic-release)
-- [semantic-release-monorepo](https://github.com/Updater/semantic-release-monorepo)
-
-# Netlify
-
-- https://community.netlify.com/t/best-practices-for-deploying-sites-from-monorepos/818
-
-<!--
-  Links
-  -->
-
-<!-- prettier-ignore-start -->
-[lerna]: https://github.com/lerna/lerna
-<!-- prettier-ignore-end -->

docs/latest/architecture/index.md

@@ -10,6 +10,13 @@ allows our code to be used in more ways, it also increases complexity. Below, we
 aim to demistify that complexity by providing insight into how our Viewer is
 architected, and the role each of it's dependent libraries plays.
 
+- [Overview](#overview)
+- [Business Logic](#business-logic)
+- [Component Library](#react-component-library)
+- [Internationalization](#internationalization-i18n)
+- [Extensions & Configuration](#extensions--configuration)
+- [Common Questions](#common-questions)
+
 ## Overview
 
 The [OHIF Medical Image Viewing Platform][viewers-project] is maintained as a
@@ -39,27 +46,47 @@ you'll see the following:
 └── README.md
 ```
 
-Continue reading to see how these libraries work together to create the OHIF
-Viewer.
+The `platform` directory contains the business logic library, component library,
+and the application library that combines them to create a powerful medical
+imaging viewer.
 
-### Business Logic
+The `extensions` directory contains many packages that can be registered with
+`@ohif/core`'s `ExtensionManager` to expand an application's supported features
+and functionality.
+
+![Architecture Diagram](../assets/img/architecture-diagram.png)
+
+<center><i>architecture diagram</i></center>
+
+This diagram is a conceptual illustration of how the Viewer is architected.
+
+1. (optional) `extensions` can be registered with `@ohif/core`'s
+   `ExtensionManager`
+2. `@ohif/core` provides bussiness logic and a way for `@ohif/viewer` to access
+   registered extensions
+3. The `@ohif/viewer` composes and provides data to components from our
+   component library (`@ohif/ui`)
+4. The `@ohif/viewer` can be built and served as a stand-alone PWA, or as an
+   embeddable package ([`@ohif/viewer`][viewer-npm])
+
+## Business Logic
 
 The [`@ohif/core`][core-github] project offers pre-packaged solutions for
 features common to Web-based medical imaging viewers. For example:
 
-- Hotkeys
+- [Hotkeys](#)
 - DICOM Web requests
 - Hanging Protocols
-- Managing a study's measurements
+- [Managing a study's measurements](../services/default/measurements.md)
 - Managing a study's DICOM metadata
-- A flexible pattern for extensions
+- [A flexible pattern for extensions](../extensions/index.md)
 - And many others
 
 It does this while remaining decoupled from any particular view library or
 rendering logic. While we use it to power our React Viewer, it can be used with
 Vue, React, Vanilla JS, or any number of other frameworks.
 
-### React Component Library
+## React Component Library
 
 [`@ohif/ui`][ui-github] is a React Component library that contains the reusable
 components that power the OHIF Viewer. It allows us to build, compose, and test
@@ -72,15 +99,11 @@ application.
 
 [Check out our component library!](https://react.ohif.org/)
 
-### Internationalization (i18n)
+## Internationalization (i18n)
 
 ...
 
-### The Viewer
-
-...
-
-### Extensions & Configuration
+## Extensions & Configuration
 
 While OHIF maintains several high value and commonly requested features in its
 own extensions, there are many instances where one may wish to further extend
@@ -94,33 +117,16 @@ the viewer. Some common use cases include:
 - Adding surgical templating tools and reports
 - and many others
 
-We expose common integration points via [extensions](./extensions.md) to make
-this possible. The viewer and many of our own extensions also offer
+We expose common integration points via [extensions](../extensions/index.md) to
+make this possible. The viewer and many of our own extensions also offer
 [configuration][configuration]. For a list of extensions maintained by OHIF,
-[check out this helpful table](./extensions.html#ohif-maintained-extensions).
+[check out this helpful table](../extensions/index.mdl#maintained-extensions).
 
 If you find yourself thinking "I wish the Viewer could do X", and you can't
 accomplish it with an extension today, create a GitHub issue! We're actively
 looking for ways to improve our extensibility ^\_^
 
-[Click here to read more about extensions!](./extensions.md)
-
-### Diagram
-
-This diagram is a conceptual illustration of how the Viewer is architected.
-
-1. (optional) `extensions` can be registered with `@ohif/core`'s extension
-   manager
-2. `@ohif/core` provides bussiness logic and a way for `@ohif/viewer` to access
-   registered extensions
-3. The `@ohif/viewer` composes and provides data to components from our
-   component library (`@ohif/ui`)
-4. The `@ohif/viewer` can be built and served as a stand-alone PWA, or as an
-   embeddable package ([`@ohif/viewer`][viewer-npm])
-
-![Architecture Diagram](../assets/img/architecture-diagram.png)
-
-<center><i>architecture diagram</i></center>
+[Click here to read more about extensions!](../extensions/index.md)
 
 ## Common Questions
 
@@ -141,11 +147,12 @@ you would need to recreate.
   -->
 
 <!-- prettier-ignore-start -->
+[monorepo]: #
 [viewers-project]: https://github.com/OHIF/Viewers
 [viewer-npm]: https://www.npmjs.com/package/@ohif/viewer
 [pwa]: https://developers.google.com/web/progressive-web-apps/
-[configuration]: ../essentials/configuration.md
-[extensions]: ./extensions.md
+[configuration]: ../configuring/index.md
+[extensions]: ../extensions/index.md
 [core-github]: https://github.com/OHIF/viewers/platform/core
 [ui-github]: https://github.com/OHIF/Viewers/platform/ui
 <!-- prettier-ignore-end -->

docs/latest/assets/img/canny-logo-name.svg

@@ -1,12 +0,0 @@
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-<!-- Generator: Adobe Illustrator 18.0.0, SVG Export Plug-In . SVG Version: 6.00 Build 0)  -->
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-<g>
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-</g>
-</svg>

docs/latest/assets/img/canny-logo.svg

@@ -1,19 +0,0 @@
-<?xml version="1.0" encoding="utf-8"?>
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docs/latest/configuring/data-source.md

@@ -1,8 +1,9 @@
 # Data Source
 
-After following the steps outlined in [Getting Started](./getting-started.md),
-you'll notice that the OHIF Viewer has data for several studies and their
-images. You didn't add this data, so where is it coming from?
+After following the steps outlined in
+[Getting Started](./../development/getting-started.md), you'll notice that the
+OHIF Viewer has data for several studies and their images. You didn't add this
+data, so where is it coming from?
 
 By default, the viewer is configured to connect to a remote server hosted by the
 nice folks over at [dcmjs.org][dcmjs-org]. While convenient for getting started,
@@ -84,7 +85,7 @@ yarn run dev:orthanc
 #### Configuration: Learn More
 
 > For more configuration fun, check out the
-> [Essentials Configuration](./configuration.md) guide.
+> [Essentials Configuration](./index.md) guide.
 
 Let's take a look at what's going on under the hood here. `yarn run dev:orthanc`
 is running the `dev:orthanc` script in our project's `package.json`. That script
@@ -130,7 +131,7 @@ window.config = {
 ```
 
 To learn more about how you can configure the OHIF Viewer, check out our
-[Configuration Guide](./configuration.md).
+[Configuration Guide](./index.md).
 
 ## Open Source DICOM Image Archives
 

docs/latest/configuring/index.md

@@ -2,7 +2,12 @@
 
 > This step assumes you have an imaging archive. If you need assistance setting
 > one up, check out the [`Data Source` Guide](./data-source.md) or a deployment
-> recipe that contains an open source Image Archive
+> recipe that contains an open Image Archive
+
+- [Overview](#overview)
+  - [Configuration Files](#configuration-files)
+  - [Environment Variables](#environment-variables)
+- [How do I configure my project?](#how-do-i-configure-my-project)
 
 ## Overview
 
@@ -16,8 +21,8 @@ and registered extension's features, are configured using this file.
 
 **Embedded Use Note:**
 
-Alternatively, when using the `commonjs` bundle for embedded use cases, these
-same values are what you'll pass to `installViewer` method:
+Alternatively, when using the `umd` bundle for embedded use cases, these same
+values are what you'll pass to `installViewer` method:
 
 `OHIFStandaloneViewer.installViewer(window.config)`
 
@@ -36,10 +41,6 @@ alternative data source (or even specify different default hotkeys).
 | `PROXY_TARGET`       | When developing, proxy requests that match this pattern to `PROXY_DOMAIN`                          | `undefined`         |
 | `PROXY_DOMAIN`       | When developing, proxy requests from `PROXY_TARGET` to `PROXY_DOMAIN`                              | `undefined`         |
 
-### Registering Extensions
-
-> :warn: Instructions coming soon
-
 ## How do I configure my project?
 
 The simplest way is to update the existing default config:
@@ -65,6 +66,39 @@ window.config = {
 };
 ```
 
+The configuration can also be written as a JS Function in case you need to inject dependencies like external services:
+
+```js
+window.config = ({ servicesManager } = {}) => {
+  const { UIDialogService } = servicesManager.services;
+  return {
+    cornerstoneExtensionConfig: {
+      tools: {
+        ArrowAnnotate: {
+          configuration: {
+            getTextCallback: (callback, eventDetails) => UIDialogService.create({...
+          }
+        }
+      },
+    },
+    routerBasename: '/',
+    servers: {
+      dicomWeb: [
+        {
+          name: 'DCM4CHEE',
+          wadoUriRoot: 'https://server.dcmjs.org/dcm4chee-arc/aets/DCM4CHEE/wado',
+          qidoRoot: 'https://server.dcmjs.org/dcm4chee-arc/aets/DCM4CHEE/rs',
+          wadoRoot: 'https://server.dcmjs.org/dcm4chee-arc/aets/DCM4CHEE/rs',
+          qidoSupportsIncludeField: true,
+          imageRendering: 'wadors',
+          thumbnailRendering: 'wadors',
+        },
+      ],
+    },
+  };
+};
+```
+
 You can also create a new config file and specify its path relative to the build
 output's root by setting the `APP_CONFIG` environment variable. You can set the
 value of this environment variable a few different ways:

docs/latest/deployment/index.md

@@ -10,9 +10,9 @@ your Viewer will display).
 ## Overview
 
 Our goal is to make deployment as simple and painless as possible; however,
-there is an inherent amount of complexity in customizing, optimizing, and
-deploying web applications. If you find yourself a little lost, please don't
-hesitate to [reach out for help](/help.md)
+there is an inherent amount of complexity in configuring and deploying web
+applications. If you find yourself a little lost, please don't hesitate to
+[reach out for help](/help.md)
 
 ## Deployment Scenarios
 
@@ -35,8 +35,7 @@ benefits, but comes at the cost of time and complexity. Some benefits include:
 
 _Today:_
 
-- Leverage [extensions](/advanced/extensions.md) to drop-in powerful new
-  features
+- Leverage [extensions](/extensions/index.md) to drop-in powerful new features
 - Add routes and customize the viewer's workflow
 - Finer control over styling and whitelabeling
 
@@ -97,12 +96,12 @@ support it yet, but it is gaining wider adoption.
 If you have an existing archive and intend to host the OHIF Viewer at the same
 domain name as your archive, then connecting the two is as simple as following
 the steps layed out in our
-[Configuration Essentials Guide](./../essentials/configuration.md).
+[Configuration Essentials Guide](./../configuring/index.md).
 
 #### What if I don't have an imaging archive?
 
 We provide some guidance on configuring a local image archive in our
-[Data Source Essentials](./../essentials/data-source.md) guide. Hosting an
+[Data Source Essentials](./../configuring/data-source.md) guide. Hosting an
 archive remotely is a little trickier. You can check out some of our
 [advanced recipes](#recipes) for modeled setups that may work for you.
 
@@ -143,7 +142,7 @@ The OHIF Viewer can be configured to work with authorization servers that
 support one or more of the OpenID-Connect authorization flows. The Viewer finds
 it's OpenID-Connect settings on the `oidc` configuration key. You can set these
 values following the instructions laid out in the
-[Configuration Essentials Guide](./../essentials/configuration.md).
+[Configuration Essentials Guide](./../configuring/index.md).
 
 _Example OpenID-Connect Settings:_
 

docs/latest/deployment/recipes/build-for-production.md

@@ -1,7 +1,7 @@
 # Build for Production
 
 > If you've already followed the
-> ["Getting Started" Guide](/essentials/getting-started.md), you can skip ahead
+> ["Getting Started" Guide](/development/getting-started.md), you can skip ahead
 > to [Configuration](#configuration)
 
 ## Overview
@@ -48,7 +48,7 @@ If everything worked as expected, you should have a new `dist/` directory in the
 project's folder. It should roughly resemble the following:
 
 ```bash
-dist/
+<root>platform/viewer/dist/
 ├── app-config.js
 ├── app.bundle.js
 ├── app.css
@@ -73,7 +73,7 @@ and registered extension's features, are configured using this file.
 
 The easiest way to apply your own configuration is to modify the `default.js`
 file. For more advanced cofiguration options, check out our
-[configuration essentials guide](/essentials/configuration.md).
+[configuration essentials guide](/configuring/index.md).
 
 ## Next Steps
 

docs/latest/deployment/recipes/embedded-viewer.md

@@ -24,12 +24,12 @@ include tags. Here's how it works:
 </ul>
 
 <ol start="2">
-  <li>Create a JS Object to hold the OHIF Viewer's configuration. Here are some
+  <li>Create a JS Object or Function to hold the OHIF Viewer's configuration. Here are some
    example values that would allow the viewer to hit our public PACS:</li>
 </ol>
 
 ```js
-// Set before importing `ohif-viewer`
+// Set before importing `ohif-viewer` (JS Object)
 window.config = {
   // default: '/'
   routerBasename: '/',
@@ -49,6 +49,9 @@ window.config = {
 };
 ```
 
+To learn more about how you can configure the OHIF Viewer, check out our
+[Configuration Guide](./index.md).
+
 <ol start="3"><li>
   Render the viewer in the web page's target <code>div</code>
 </li></ol>
@@ -98,7 +101,7 @@ extension enabled here][whole-slide-ext-demo] ([source code][ext-code-sandbox])
 and [without it here][whole-slide-base-demo] ([source code][code-sandbox]).
 
 You can read more about extensions and how to create your own in our
-[extensions guide](/advanced/extensions.md).
+[extensions guide](/extensions/index.md).
 
 #### FAQ
 

docs/latest/development/continous-integration.md

@@ -0,0 +1,109 @@
+# Continous Integration (CI)
+
+This repository uses `CircleCI` and `Netlify` for continous integration.
+
+## Deploy Previews
+
+[Netlify Deploy previews][deploy-previews] are generated for every pull request.
+They allow pull request authors and reviewers to "Preview" the OHIF Viewer as if
+the changes had been merged.
+
+Deploy previews can be configured by modifying the `netlify.toml` file in the
+root of the repository. Some additional scripts/assets for netlify are included
+in the root `.netlify` directory.
+
+## Workflows
+
+[CircleCI Workflows][circleci-workflows] are a set of rules for defining a
+collection of jobs and their run order. They are self-documenting and their
+configuration can be found in our CircleCI configuration file:
+`.circleci/config.yml`.
+
+### Workflow: PR_CHECKS
+
+The PR_CHECKS workflow (Pull Request Checks) runs our automated unit and
+end-to-end tests for every code check-in. These tests must all pass before code
+can be merged to our `master` branch.
+
+<div style="text-align: center;">
+  <a href="/assets/img/WORKFLOW_PR_CHECKS.png">
+    <img src="/assets/img/WORKFLOW_PR_CHECKS.png" alt="workflow diagram" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>Workflow diagram for PR_CHECKS</i></div>
+</div>
+
+### Workflow: PR_OPTIONAL_DOCKER_PUBLISH
+
+The PR_OPTIONAL_DOCKER_PUBLISH workflow allows for "manual approval" to publish
+the pull request as a tagged docker image. This is helpful when changes need to
+be tested with the Google Adapter before merging to `master`.
+
+<div style="text-align: center;">
+  <a href="/assets/img/WORKFLOW_PR_OPTIONAL_DOCKER_PUBLISH.png">
+    <img src="/assets/img/WORKFLOW_PR_OPTIONAL_DOCKER_PUBLISH.png" alt="workflow diagram" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>Workflow diagram for PR_WORKFLOW_PR_OPTIONAL_DOCKER_PUBLISH</i></div>
+</div>
+
+> NOTE: This workflow will fail unless it's for a branch on our `upstream`
+> repository. If you need this functionality, but the branch is from a fork,
+> merge the changes to a short-lived `feature/` branch on `upstream`
+
+### Workflow: DEPLOY
+
+The DEPLOY workflow deploys the OHIF Viewer when changes are merged to master.
+It uses the Netlify CLI to deploy assets created as part of the repository's PWA
+Build process (`yarn run build`). The workflow allows for "Manual Approval" to
+promote the build to `STAGING` and `PRODUCTION` environments.
+
+<div style="text-align: center;">
+  <a href="/assets/img/WORKFLOW_DEPLOY.png">
+    <img src="/assets/img/WORKFLOW_DEPLOY.png" alt="workflow diagram" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>Workflow diagram for WORKFLOW_DEPLOY</i></div>
+</div>
+
+| Environment | Description                                                                        | URL                                           |
+| ----------- | ---------------------------------------------------------------------------------- | --------------------------------------------- |
+| Development | Always reflects latest changes on `master` branch.                                 | [Netlify][netlify-dev] / [OHIF][ohif-dev]     |
+| Staging     | For manual testing before promotion to prod. Keeps development workflow unblocked. | [Netlify][netlify-stage] / [OHIF][ohif-stage] |
+| Production  | Stable, tested, updated less frequently.                                           | [Netlify][netlify-prod] / [OHIF][ohif-prod]   |
+
+### Workflow: RELEASE
+
+The RELEASE workflow publishes our `npm` packages, updated documentation, and
+`docker` image when changes are merged to master. `Lerna` and "Semantic Commit
+Syntax" are used to independently version and publish the many packages in our
+monorepository. If a new version is cut/released, a Docker image is created.
+Documentation is generated with `gitbook` and pushed to our `gh-pages` branch.
+GitHub hosts the `gh-pages` branch with GitHub Pages.
+
+- Platform Packages: https://github.com/ohif/viewers/#platform
+- Extension Packages: https://github.com/ohif/viewers/#extensions
+- Documentation: https://docs.ohif.org/
+
+<div style="text-align: center;">
+  <a href="/assets/img/WORKFLOW_RELEASE.png">
+    <img src="/assets/img/WORKFLOW_RELEASE.png" alt="workflow diagram" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>Workflow diagram for WORKFLOW_RELEASE</i></div>
+</div>
+
+### HOTFIX
+
+_Not yet implemented_
+
+<!--
+  LINKS
+-->
+
+<!-- prettier-ignore-start -->
+[deploy-previews]: https://www.netlify.com/blog/2016/07/20/introducing-deploy-previews-in-netlify/
+[circleci-workflows]: https://circleci.com/docs/2.0/workflows/
+[netlify-dev]: https://ohif-dev.netlify.com
+[netlify-stage]: https://ohif-stage.netlify.com
+[netlify-prod]: https://ohif-prod.netlify.com
+[ohif-dev]: https://viewer-dev.ohif.org
+[ohif-stage]: https://viewer-stage.ohif.org
+[ohif-prod]: https://viewer-prod.ohif.org
+<!-- prettier-ignore-end -->

docs/latest/development/contributing.md

@@ -7,8 +7,8 @@ like to discuss the changes you intend to make to clarify where or how they
 should be implemented, please don't hesitate to create a new issue. At a
 minimum, you may want to read the following documentation:
 
-- [Essentials: Getting Started](./essentials/getting-started.md)
-- [Advanced: Architecture](./advanced/architecture.md)
+- [Getting Started](/development/getting-started.md)
+- [Architecture](/architecture/index.md)
 
 Pull requests that are:
 

docs/latest/development/getting-started.md

@@ -85,20 +85,12 @@ yarn run build
 yarn run build:package
 ```
 
-## Next Steps
-
-Take a look at the sidebar. Depending on how you intend to use The OHIF Viewer,
-different topics may be more pertinent than others. At a minimum, reading "The
-Essentials" and the deployment recipes should be a good starting point.
-
 ## Troubleshooting
 
 - If you receive a _"No Studies Found"_ message and do not see your studies, try
   changing the Study Date filters to a wider range.
 - If you see a 'Loading' message which never resolves, check your browser
   JavaScript console inside the Developer Tools to identify any errors.
-- If you see any errors in your server console, check the
-  [Troubleshooting](./troubleshooting.md) page for more in depth advice.
 
 <!--
   Links

docs/latest/essentials/troubleshooting.md

@@ -1,20 +0,0 @@
-# Troubleshooting
-
-Common GitHub issues that are not easily remedied with cleaner code or
-documentation will be recorded here. Please feel free to make PRs to update this
-page.
-
-## Common Problems
-
-| Problem                                      | Most Common Reasons                                                                                                                                         |
-| -------------------------------------------- | ----------------------------------------------------------------------------------------------------------------------------------------------------------- |
-| ** Can't retrieve Study List over DICOMWeb** | 1. QIDO root URL is incorrect<br> 2. DICOM Web is not enabled on PACS                                                                                       |
-| ** Can't retrieve images**                   | 1. WADO Root URL is incorrect<br> 2. DICOM Web is not enabled on PACS<br> 3. HTTP Basic Authentication username and password are incorrect or not provided. |
-
-## Debugging Steps
-
-### Can't retrieve Study List over DICOMWeb
-
-1. Check that you can query your PACS using an alternative DICOM Web client
-   (e.g. cURL, or a Web Browser). If you cannot, then your PACS is configured
-   incorrectly. Refer to the documentation of the image archive.

docs/latest/extensions/index.md

@@ -0,0 +1,237 @@
+# Extensions
+
+- [Overview](#overview)
+- [Concepts](#concepts)
+  - [Extension Skeleton](#extension-skeleton)
+  - [Registering an Extension](#registering-an-extension)
+  - [Lifecylce Hooks](#lifecycle-hooks)
+  - [Modules](#modules)
+  - [Contexts](#contexts)
+- [Consuming Extensions](#consuming-extensions)
+  - [Extension Manager](#extensionmanager)
+- [Maintained Extensions](#maintained-extensions)
+
+## Overview
+
+We use extensions to help us isolate and package groups of related features.
+Extensions provide functionality, ui components, and new behaviors. Ideally,
+they're built in a way that allows them to extend entirely different
+implementations of the `@ohif/viewer` project.
+
+<div style="text-align: center;">
+  <a href="/assets/img/extensions-diagram.png">
+    <img src="/assets/img/extensions-diagram.png" alt="Extensions Diagram" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>Diagram showing how extensions are configured and accessed.</i></div>
+</div>
+
+The `@ohif/viewer`'s application level configuration gives us the ability to add
+and configure extensions. When the application starts, extensions are registered
+with the `ExtensionManager`. Different portions of the `@ohif/viewer` project
+will use registered extensions to influence application behavior.
+
+Extensions allow us to:
+
+- Wrap and integrate functionality of 3rd party dependencies in a reusable way
+- Change how application data is mapped and transformed
+- Display a consistent/cohesive UI
+- Inject custom components to override built-in components
+
+Practical examples of extensions include:
+
+- A set of segmentation tools that build on top of the `cornerstone` viewport
+- Showing ML/AI report summaries for the selected study/series/image
+- Support for parsing DICOM structured reports and displaying them in a user
+  friendly way
+- [See our maintained extensions for more examples of what's possible](#maintained-extensions)
+
+## Concepts
+
+### Extension Skeleton
+
+An extension is a plain JavaScript object that has an `id` property, and one or
+more [modules](#modules) and/or [lifecycle hooks](#lifecycle-hooks).
+
+```js
+// prettier-ignore
+export default {
+  /**
+   * Only required property. Should be a unique value across all extensions.
+   */
+  id: 'example-extension',
+
+  // Lifecyle
+  preRegistration() { /* */ },
+  // Modules
+  getCommandsModule() { /* */ },
+  getToolbarModule() { /* */ },
+  getPanelModule() { /* */ },
+  getSopClassHandler() { /* */ },
+  getViewportModule() { /* */ },
+}
+```
+
+### Registering an Extension
+
+There are two different ways to register and configure extensions: At
+[runtime](#runtime-extensions) and at [build time](#bundled-extensions).
+
+You can leverage one or both strategies. Which one(s) you choose depend on your
+application's requirements. Each [module](#modules) defined by the extension
+becomes available to the core application via the `ExtensionManager`.
+
+#### Registering at Runtime
+
+The `@ohif/viewer` uses a [configuration file](#) at startup. The schema for
+that file includes an `Extensions` key that supports an array of extensions to
+register.
+
+```js
+// prettier-ignore
+const config = {
+  extensions: [
+    MyFirstExtension,
+    [
+      MySecondExtension,
+      { /* MySecondExtensions Configuration */ },
+    ],
+  ];
+}
+```
+
+#### Registering at Build Time
+
+The `@ohif/viewer` works best when built as a "Progressive Web Application"
+(PWA). If you know the extensions your application will need, you can specify
+them at "build time" to leverage advantages afforded to us by modern tooling:
+
+- Code Splitting (dynamic imports)
+- Tree Shaking
+- Dependency deduplication
+
+You can update the list of bundled extensions by:
+
+1. Having your `@ohif/viewer` project depend on the extension
+2. Importing and adding it to the list of extensions in the
+   `<repo-root>/platform/src/index.js` entrypoint.
+
+### Lifecycle Hooks
+
+Currently, there is only a single lifecycle hook for extensions:
+[`preRegistration`](./lifecycle/pre-registration.md)
+
+If an extension defines the [`preRegistration`](./lifecycle/pre-registration.md)
+lifecycle hook, it is called before any modules are registered in the
+`ExtensionManager`. It's most commonly used to wire up extensions to
+[services](./../services/index.md) and [commands](./modules/commands.md), and to
+bootstrap 3rd party libraries.
+
+### Modules
+
+Modules are the meat of extensions. They provide "definitions", components, and
+filtering/mapping logic that are then made available by various managers and
+services.
+
+Each module type has a special purpose, and is consumed by our viewer
+differently.
+
+| Type                                              | Description                                                      | Examples                                          |
+| ------------------------------------------------- | ---------------------------------------------------------------- | ------------------------------------------------- |
+| [Commands](./modules/commands.md)                 | Adds named commands, scoped to a context, to the CommandsManager | `setToolActive()`, `nextSeries()`                 |
+| [Panel](./modules/panel.md)                       | Adds left or right hand side panels                              | `<ThumbnailList />`, `<MeasurementsTable />`      |
+| [SOPClassHandler](./modules/sop-class-handler.md) | Determines how retrieved study data is split into "DisplaySets"  | `getDisplaySetFromSeries()`                       |
+| [Toolbar](./modules/toolbar.md)                   | Adds buttons or custom components to the toolbar                 | Toolbar button, nested buttons, custom            |
+| [Viewport](./modules/viewport.md)                 | Adds a component responsible for rendering a "DisplaySet"        | `<CornerstoneViewport />`, `<DicomPdfViewport />` |
+
+<figure style="text-align: center; font-style: italic;">Tbl. Module types with abridged descriptions and examples. Each module links to a dedicated documentation page.</figure>
+
+### Contexts
+
+The `@ohif/viewer` tracks "active contexts" that extensions can use to scope
+their functionality. Some example contexts being:
+
+- Route: `ROUTE:VIEWER`, `ROUTE:STUDY_LIST`
+- Active Viewport: `ACTIVE_VIEWPORT:CORNERSTONE`, `ACTIVE_VIEWPORT:VTK`
+
+An extension module can use these to say "Only show this Toolbar Button if the
+active viewport is a Cornerstone viewport." This helps us use the appropriate UI
+and behaviors depending on the current contexts.
+
+For example, if we have hotkey that "rotates the active viewport", each Viewport
+module that supports this behavior can add a command with the same name, scoped
+to the appropriate context. When the `command` is fired, the "active contexts"
+are used to determine the appropriate implementation of the rotate behavior.
+
+## Consuming Extensions
+
+We consume extensions, via the `ExtensionManager`, in our `@ohif/viewer`
+project.
+
+```js
+const extensionManager = new ExtensionManager({
+  commandsManager,
+  servicesManager,
+});
+
+// prettier-ignore
+extensionManager.registerExtensions([ /** **/ ]);
+```
+
+The `@ohif/viewer` project handles data fetching, basic routing, wires up UI
+services, and is the home to the more bespoke application logic that doesn't
+make as much sense to make reusable.
+
+Long-term, replacing the `@ohif/viewer` application and consuming extensions
+(and the `ExtensionManager`) in your own project is the ideal path for
+applications requiring a high degree of customization that can't be achieved
+with current theming, configuration, extension, and services support.
+
+If you're not sure how to achieve your goals with the extensibility available
+today, create a GitHub issue!
+
+### `ExtensionManager`
+
+The `ExtensionManager` is a class made available to us via the `@ohif/core`
+project (platform/core). Our application instantiates a single instance of it,
+and provides a `ServicesManager` and `CommandsManager` along with the application's
+configuration through the appConfig key (optional).
+
+```js
+const commandsManager = new CommandsManager();
+const servicesManager = new ServicesManager();
+const extensionManager = new ExtensionManager({
+  commandsManager,
+  servicesManager,
+  appConfig
+});
+```
+
+The `ExtensionManager` only has a few public members:
+
+- `registerExtension` - Registers a single extension
+- `registerExtensions` - Registers an array of extensions
+- `modules` - An object containing registered extensions by `MODULE_TYPE`
+
+During registration, lifecycle hooks and modules have access to the extension's config,
+the application's config and `ExtensionManager`'s `ServicesManager` and `CommandsManager` instances.
+
+Our `@ohif/viewer` uses the `modules` member to access registered extensions at
+appropriate places in our application.
+
+## Maintained Extensions
+
+A small number of powerful extensions for popular use cases are maintained by
+OHIF. They're co-located in the [`OHIF/Viewers`][viewers-repo] repository, in
+the top level [`extensions/`][ext-source] directory.
+
+{% include "./_maintained-extensions-table.md" %}
+
+<!--
+  LINKS
+-->
+
+<!-- prettier-ignore-start -->
+[viewers-repo]: https://github.com/OHIF/Viewers
+[ext-source]: https://github.com/OHIF/Viewers/tree/master/extensions
+[module-types]: https://github.com/OHIF/Viewers/blob/master/platform/core/src/extensions/MODULE_TYPES.js
+<!-- prettier-ignore-end -->

docs/latest/extensions/lifecycle/pre-registration.md

@@ -0,0 +1,40 @@
+# Lifecylce Hook: preRegistration
+
+If an extension defines the `preRegistration` lifecycle hook, it is called
+before any modules are registered in the `ExtensionManager`. This hook can be
+used to:
+
+- initialize 3rd party libraries
+- register event listeners
+- add or call services
+- add or call commands
+
+The `preRegistration` hook receives an object containing the
+`ExtensionManager`'s associated `ServicesManager`, `CommandsManager`, and any
+`configuration` that was provided with the extension at time of registration.
+
+_Example `preRegistration` hook implementation_
+
+```js
+export default {
+  id: 'MyExampleExtension',
+
+  /**
+   * @param {object} params
+   * @param {object} params.configuration
+   * @param {ServicesManager} params.servicesManager
+   * @param {CommandsManager} params.commandsManager
+   * @returns void
+   */
+  preRegistration({ servicesManager, commandsManager, configuration }) {
+    console.log('Wiring up important stuff.');
+
+    window.importantStuff = () => {
+      console.log(configuration);
+    };
+
+    console.log('Important stuff has been wired.');
+    window.importantStuff();
+  },
+};
+```

docs/latest/extensions/modules/commands.md

@@ -0,0 +1,158 @@
+# Module: Commands
+
+- [Overview](#overview)
+- [Command Definitions](#command-definitions)
+- [Commands Manager](#commands-manager)
+  - [Instantiating](#instatiating)
+  - [Public API](#public-api)
+  - [Contexts](#contexts)
+
+## Overview
+
+An extension can register a Commands Module by defining a `getCommandsModule`
+method. The Commands Module allows us to register one or more commands scoped to
+specific [contexts](./../index.md#contexts). Commands have several unique
+characteristics that make them tremendously powerful:
+
+- Multiple implementations for the same command can be defined
+- Only the correct command's implementation will be run, dependent on the
+  application's "context"
+- Commands can be called from extensions, modules, and the consuming application
+
+Here is a simple example commands module:
+
+```js
+export default {
+  id: 'example-commands-module',
+
+  /**
+   * @param {object} params
+   * @param {ServicesManager} params.servicesManager
+   * @param {CommandsManager} params.commandsManager
+   */
+  getCommandsModule({ servicesManager, commandsManager }) {
+    return {
+      definitions: {
+        sayHello: {
+          commandFn: ({ words }) => {
+            console.log(words);
+          },
+          options: { words: 'Hello!' },
+        },
+      },
+      defaultContext: 'VIEWER',
+    };
+  },
+};
+```
+
+Each definition returned by the Commands Module is registered to the
+`ExtensionManager`'s `CommandsManager`.
+
+## Command Definitions
+
+The command definition consists of a named command (`myCommandName` below) and a
+`commandFn`. The command name is used to call the command, and the `commandFn`
+is the "command" that is actioned.
+
+```js
+myCommandName: {
+	commandFn: ({ viewports, other, options }) => { },
+	storeContexts: ['viewports'],
+	options: { words: 'Just kidding! Goodbye!' },
+	context: 'ACTIVE_VIEWPORT::CORNERSTONE',
+}
+```
+
+| Property        | Type               | Description                                                                                                                             |
+| --------------- | ------------------ | --------------------------------------------------------------------------------------------------------------------------------------- |
+| `commandFn`     | func               | The function to call when command is run. Receives `options` and `storeContexts`.                                                       |
+| `storeContexts` | string[]           | (optional) Expected state objects to be passed in as props. Located using `getAppState` fn defined at `CommandsManager`'s instatiation. |
+| `options`       | object             | (optional) Arguments to pass at the time of calling to the `commandFn`                                                                  |
+| `context`       | string[] or string | (optional) Overrides the `defaultContext`. Let's us know if command is currently "available" to be run.                                 |
+
+## Command Behavior
+
+**I have many similar commands. How can I share their `commandFn` and make it
+reusable?**
+
+This is where `storeContexts` and `options` come in. We use these in our
+`setToolActive` command. `storeContexts` helps us identify our `activeViewport`,
+and `options` allow us to pass in the name of a tool we would like to set as
+active.
+
+**If there are multiple valid commands for the application's active contexts**
+
+- What happens: all commands are run
+- When to use: A `clearData` command that cleans up state for multiple
+  extensions
+
+**If no commands are valid for the application's active contexts**
+
+- What happens: a warning is printed to the console
+- When to use: a `hotkey` (like "invert") that doesn't make sense for the
+  current viewport (PDF or HTML)
+
+## `CommandsManager`
+
+The `CommandsManager` is a class defined in the `@ohif/core` project. A single
+instance of it should be defined in the consuming application, and it should be
+used when constructing the `ExtensionManager`.
+
+### Instantiating
+
+When we instantiate the `CommandsManager`, we need to pass it two methods:
+
+- `getAppState` - Should return the application's state when called
+- `getActiveContexts` - Should return the application's active contexts when
+  called
+
+These methods are used internally to help determine which commands are currently
+valid, and how to provide them with any state they may need at the time they are
+called.
+
+```js
+const commandsManager = new CommandsManager({
+  getAppState,
+  getActiveContexts,
+});
+```
+
+### Public API
+
+If you would like to run a command in the consuming app or an extension, you can
+use one of the following methods:
+
+```js
+// Returns all commands for a given context
+commandsManager.getContext('string');
+
+// Attempts to run a command
+commandsManager.runCommand('speak', { command: 'hello' });
+
+// Run command, but override the active contexts
+commandsManager.runCommand('speak', { command: 'hello' }, ['VIEWER']);
+```
+
+The `ExtensionManager` handles registering commands and creating contexts, so
+most consumer's won't need these methods. If you find yourself using these, ask
+yourself "why can't I register these commands via an extension?"
+
+```js
+// Used by the `ExtensionManager` to register new commands
+commandsManager.registerCommand('context', 'name', commandDefinition);
+
+// Creates a new context; clears the context if it already exists
+commandsManager.createContext('string');
+```
+
+### Contexts
+
+It is up to the consuming application to define what contexts are possible, and
+which ones are currently active. As extensions depend heavily on these, we will
+likely publish guidance around creating contexts, and ways to override extension
+defined contexts in the near future. If you would like to discuss potential
+changes to how contexts work, please don't hesistate to createa new GitHub
+issue.
+
+[Some additional information on Contexts can be found here.](./../index.md#contexts)

docs/latest/extensions/modules/panel.md

@@ -0,0 +1,61 @@
+# Module: Panel
+
+An extension can register a Panel Module by defining a `getPanelModule` method.
+The panel module provides the ability to define `menuOptions` and `components`
+that can be used by the consuming application. `components` are React Components
+that can be displayed in the consuming application's "Panel" Component.
+
+![Panel Extension](../../assets/img/extensions-panel.gif)
+
+<center><i>A panel extension example</i></center>
+
+The `menuOptions`'s `target` key points to a registered `components`'s `id`. A
+`defaultContext` is applied to all `menuOption`s; however, each `menuOption` can
+optional provide it's own `context` value.
+
+The `getPanelModule` receives an object containing the `ExtensionManager`'s
+associated `ServicesManager` and `CommandsManager`.
+
+```js
+import MyComponent from './MyComponent.js';
+
+export default {
+  id: 'example-panel-module',
+
+  /**
+   * @param {object} params
+   * @param {ServicesManager} params.servicesManager
+   * @param {CommandsManager} params.commandsManager
+   */
+  getPanelModule({ servicesManager, commandsManager }) {
+    return {
+      menuOptions: [
+        {
+          // A suggested icon
+          // Available icons determined by consuming app
+          icon: 'list',
+          // A suggested label
+          label: 'Magic',
+          // 'right' or 'left'
+          from: 'right',
+          // The target component to toggle open/close
+          target: 'target-component-id',
+          // UI Hint; If the target panel is in a "disabled" state
+          isDisabled: studies => {
+            return false;
+          },
+          // Overrides `defaultContext`, if specified
+          context: ['ACTIVE_VIEWPORT:MAGIC'],
+        },
+      ],
+      components: [
+        {
+          id: 'target-component-id',
+          component: MyComponent,
+        },
+      ],
+      defaultContext: ['ROUTE:VIEWER'],
+    };
+  },
+};
+```

docs/latest/extensions/modules/sop-class-handler.md

@@ -0,0 +1,90 @@
+# Module: SOP Class Handler
+
+An extension can register a SOP Class Handler Module by defining a
+`getSopClassHandlerModule` method. The SOP Class Handler is a bit different from
+the other modules, as it doesn't provide a `1:1` schema for UI or provide it's
+own components. It instead defines:
+
+- `sopClassUIDs`: an array of string SOP Class UIDs that the
+  `getDisplaySetFromSeries` method should be applied to.
+- `getDisplaySetFromSeries`: a method that maps series and study metadata to a
+  display set
+
+A `displaySet` has the following shape:
+
+```js
+return {
+  plugin: 'html',
+  Modality: 'SR',
+  displaySetInstanceUID: 0,
+  wadoRoot: study.getData().wadoRoot,
+  wadoUri: instance.getData().wadouri,
+  SOPInstanceUID: instance.getSOPInstanceUID(),
+  SeriesInstanceUID: series.getSeriesInstanceUID(),
+  StudyInstanceUID: study.getStudyInstanceUID(),
+  authorizationHeaders,
+};
+```
+
+Where the `plugin` key is used to influence the default `ViewportComponent` for
+rendering the `displaySet`. Additional properties are passed to the
+`ViewportComponent` and used by the default `StudyBrowser` to render
+"thumbnails" for each `displaySet`
+
+## Example SOP Class Handler Module
+
+```js
+const SOP_CLASS_UIDS = {
+  BASIC_TEXT_SR: '1.2.840.10008.5.1.4.1.1.88.11',
+  ENHANCED_SR: '1.2.840.10008.5.1.4.1.1.88.22',
+};
+
+export default {
+  id: 'example-sop-class-handler-module',
+
+/**
+ * @param {object} params
+ * @param {ServicesManager} params.servicesManager
+ * @param {CommandsManager} params.commandsManager
+ */
+getSopClassHandlerModule({ servicesManager, commandsManager }) {
+  return {
+    id: 'OHIFDicomHtmlSopClassHandler',
+    sopClassUIDs: Object.values(SOP_CLASS_UIDS),
+
+    /**
+     * @param {object} series -
+     * @param {object} study -
+     * @param {object} dicomWebClient -
+     * @param {object} authorizationHeaders -
+     */
+    getDisplaySetFromSeries(series, study, dicomWebClient, authorizationHeaders) {
+      const instance = series.getFirstInstance();
+
+      return {
+        plugin: 'html',
+        displaySetInstanceUID: 0,
+        wadoRoot: study.getData().wadoRoot,
+        wadoUri: instance.getData().wadouri,
+        SOPInstanceUID: instance.getSOPInstanceUID(),
+        SeriesInstanceUID: series.getSeriesInstanceUID(),
+        StudyInstanceUID: study.getStudyInstanceUID(),
+        authorizationHeaders,
+      };
+    },
+  }
+};
+```
+
+## `@ohif/viewer` usage
+
+We use the `sopClassHandlerModule`s in three different places:
+
+- `ViewerLocalFileData.js`
+- `ViewerRetrieveStudyData.js`
+- `StandaloneRouting.js`
+
+Each time, it is used to map study and series data to `displaySets`. It does
+this by working alongside the `StudyMetadataManager` in `@ohif/core`. That
+manager has the method `createDisplaySets` that takes an array of
+`sopClassHandlerModules`.

docs/latest/extensions/modules/toolbar.md

@@ -0,0 +1,130 @@
+# Module: Toolbar
+
+An extension can register a Toolbar Module by defining a `getToolbarModule`
+method. This module is commonly used to define:
+
+- [Toolbar buttons](#button-definitions)
+- [Nested toolbar menus](#nested-toolbar-menus)
+- [Custom components](#custom-components)
+
+![Toolbar Extension](../../assets/img/extensions-toolbar.gif)
+
+<center><i>Example toolbar button using the Dialog Service to show CINE controls.</i></center>
+
+## Example Toolbar Module
+
+The Toolbar Module should return an array of `definitions` and a
+`defaultContext`. There are currently a few different variations of definitions,
+each one is detailed further down.
+
+```js
+export default {
+  id: 'example-toolbar-module',
+
+  /**
+   * @param {object} params
+   * @param {ServicesManager} params.servicesManager
+   * @param {CommandsManager} params.commandsManager
+   */
+  getToolbarModule({ servicesManager, commandsManager }) {
+    return {
+      definitions: [
+        /* Array of definitions */
+      ],
+      defaultContext: ['ROUTE:VIEWER'],
+    };
+  },
+};
+```
+
+## Button Definitions
+
+The simplest definition has the following properties:
+
+```js
+{
+  id: 'StackScroll',
+  label: 'Stack Scroll',
+  icon: 'bars',
+  type: 'setToolActive',
+  commandName: 'setToolActive',
+  commandOptions: { toolName: 'StackScroll' },
+},
+```
+
+| property         | description                                                       | values                                    |
+| ---------------- | ----------------------------------------------------------------- | ----------------------------------------- |
+| `id`             | Unique string identifier for the definition                       | \*                                        |
+| `label`          | User/display friendly to show in UI                               | \*                                        |
+| `icon`           | A string name for an icon supported by the consuming application. | \*                                        |
+| `type`           | Used to determine the button's component and behavior             | `"setToolActive"`, `"command"`            |
+| `commandName`    | (optional) The command to run when the button is used.            | Any command registed by a `CommandModule` |
+| `commandOptions` | (optional) Options to pass the target `commandName`               | \*                                        |
+| `context`        | (optional) Overrides module's `defaultContext`                    | Array of string context names             |
+
+Where a button with a `type` of `setToolActive` has an "active" styling applied
+when clicked; removing the active styling from all other buttons.
+
+## Nested Toolbar Menus
+
+You can indicate that buttons should be grouped and nested in a submenu by
+including `buttons` property in a definition:
+
+```js
+{
+  id: 'More',
+  label: 'More',
+  icon: 'ellipse-circle',
+  buttons: [
+    {
+      id: 'cstInvert',
+      label: 'Invert',
+      icon: 'circle',
+      type: 'command',
+      commandName: 'invertViewport',
+    },
+  ],
+},
+```
+
+![Toolbar Extension](../../assets/img/extensions-toolbar-nested.gif)
+
+<center><i>Example toolbar button demonstrating nested buttons.</i></center>
+
+## Custom Components
+
+The Toolbar Modules supports rendering custom components in place of the
+application's default. In place of the `type`, `commandName`, and
+`commandOptions` properties, we instead specify a `CustomComponent`.
+
+```js
+{
+  id: 'Custom',
+  label: 'Custom',
+  icon: 'custom-icon',
+  CustomComponent: CustomToolbarComponent,
+}
+
+```
+
+The `CustomComponent` components will receive the following props:
+
+```html
+<CustomComponent
+  parentContext="{parentContext}"
+  toolbarClickCallback="{_handleToolbarButtonClick.bind(this)}"
+  button="{button}"
+  key="{button.id}"
+  activeButtons="{activeButtonsIds}"
+  isActive="{isActive}"
+/>
+```
+
+| Property               | Type     | Description                     |
+| ---------------------- | -------- | ------------------------------- |
+| `activeButtons`        | string[] | list of active buttons          |
+| `button`               | object   | its own definition object       |
+| `key`                  | string   | React key prop                  |
+| `isActive`             | boolean  | If current button is active     |
+| `parentContext`        | ?        | The parent component's context? |
+| `toolbarClickCallback` | func     | Callback method for clicks      |

docs/latest/extensions/modules/viewport.md

@@ -0,0 +1,46 @@
+# Module: Viewport
+
+An extension can register a Viewport Module by defining a `getViewportModule`
+method that returns a React component. Currently, we use viewport components to
+add support for:
+
+- 2D Medical Image Viewing (cornerstone ext.)
+- Structured Reports as HTML (dicom html ext.)
+- Encapsulated PDFs as PDFs (dicom pdf ext.)
+- Whole Slide Microscopy Viewing (whole slide ext.)
+- etc.
+
+The general pattern is, the [`sopClassHandlerModule`](#) helps us determine
+which Viewport Component a set of `sopClassUIDs` should default to. The Viewport
+Component receives props containing a display set it should know how to render.
+
+## Viewport Component Props
+
+Each `ViewportComponent` will receive the following props:
+
+```html
+<viewportComponent
+  viewportData="{viewportData}"
+  viewportIndex="{viewportIndex}"
+  children="{[children]}"
+/>
+```
+
+| Property        | Type            | Description                       |
+| --------------- | --------------- | --------------------------------- |
+| `children`      | React.element[] |                                   |
+| `viewportData`  | object          | `viewportSpecificData` (probably) |
+| `viewportIndex` | number          |                                   |
+
+### `@ohif/viewer`
+
+Viewport components are managed by the `ViewportGrid` Component. Which Viewport
+component is used depends on:
+
+- The Layout Configuration
+- Registered SopClassHandlers
+- The SopClassUID for visible/selected datasets
+
+![Cornerstone Viewport](../../assets/img/extensions-viewport.png)
+
+<center><i>An example of three cornerstone Viewports</i></center>

docs/latest/faq/index.md

@@ -19,10 +19,10 @@ Follow the steps outlined in the [Bug Report Template][bug-report-template].
 At the moment we are in the process of defining our roadmap and will do our best
 to communicate this to the community. If your requested feature is on the
 roadmap, then it will most likely be built at some point. If it is not, you are
-welcome to build it yourself and [contribute it](contributing/index.md). If you
-have resources and would like to fund the development of a feature, please
-[contact us](http://www.ohif.org) or work with community members that offer
-[consulting services][commercial-support].
+welcome to build it yourself and [contribute it](development/contributing.md).
+If you have resources and would like to fund the development of a feature,
+please [contact us](http://www.ohif.org) or work with community members that
+offer [consulting services][commercial-support].
 
 ### Who should I contact about Academic Collaborations?
 

docs/latest/faq/pwa-vs-packaged.md

@@ -1,4 +1,4 @@
-# Installation
+# PWA vs Packaged
 
 It's important to know that the OHIF Viewer project provides two different build
 processes:

docs/latest/faq/scope-of-project.md

@@ -36,7 +36,7 @@ many data sources. The OHIF Viewer's scope **DOES** include configuration and
 support for services that are protected with OpenID-Connect.
 
 In an effort to aide our users and contributors, we attempt to provide several
-[deployment and hosting recipes](./../deployment/index.md) as potential starting
+[deployment and hosting recipes](./deployment/index.md) as potential starting
 points. These are not meant to be rock solid, production ready, solutions; like
 most recipes, they should be augmented to best fit you and your organization's
 taste, preferences, etc.

docs/latest/our-process.md

@@ -0,0 +1,160 @@
+# Our Process
+
+Our process is a living, breathing thing. We strive to have regular
+[retrospectives][retrospective] that help us shape and adapt our process to our
+team's current needs. This document attempts to capture the broad strokes of
+that process in an effort to:
+
+- Strengthen community member involvement and understanding
+- Welcome feedback and helpful suggestions
+
+## Overview
+
+- [Issue Triage](#issue-triage)
+- [Issue Curation ("backlog grooming")](#issue-curation-backlog-grooming)
+- [Contributions (Pull Requests)](#contributions-pull-requests)
+- [Releases](#releases)
+
+_Include issue lifecycle diagram_
+
+## Issue Triage
+
+[GitHub issues][gh-issues] are the best way to provide feedback, ask questions,
+and suggest changes to the OHIF Viewer's core team. Community issues generally
+fall into one of three categories, and are marked with a `triage` label when
+created.
+
+| Issue Template Name    | Description                                                                              |
+| ---------------------- | ---------------------------------------------------------------------------------------- |
+| Community: Report 🐛   | Describe a new issue; Provide steps to reproduce; Expected versus actual result?         |
+| Community: Request ✋  | Describe a proposed new feature. Why should it be implemented? What is the impact/value? |
+| Community: Question ❓ | Seek clarification or assistance relevant to the repository.                             |
+
+_table 1. issue template names and descriptions_
+
+Issues that require `triage` are akin to support tickets. As this is often our
+first contact with would-be adopters and contributors, it's important that we
+strive for timely responses and satisfactory resolutions. We attempt to
+accomplish this by:
+
+1. Responding to issues requiring `triage` at least once a week
+2. Create new "official issues" from "community issues"
+3. Provide clear guidance and next steps (when applicable)
+4. Regularly clean up old (stale) issues
+
+> :pencil: Less obviously, patterns in the issues being reported can highlight
+> areas that need improvement. For example, users often have difficulty
+> navigating CORS issues when deploying the OHIF Viewer -- how do we best reduce
+> our ticket volume for this issue?
+
+### Backlogged Issues
+
+Community issues serve as vehicles of discussion that lead us to "backlogged
+issues". Backlogged issues are the distilled and actionable information
+extracted from community issues. They contain the scope and requirements
+necessary for hand-off to a core-team (or community) contributor ^\_^
+
+| Category | Description                                                                              | Labels                                                                                                                               |
+| -------- | ---------------------------------------------------------------------------------------- | ------------------------------------------------------------------------------------------------------------------------------------ |
+| Bugs     | An issue with steps that produce a bug (an unexpected result).                           | [Bug: Verified 🐛][label-bug]                                                                                                        |
+| Stories  | A feature/enhancement with a clear benefit, boundaries, and requirements.                | [Story 🙌][label-story]                                                                                                              |
+| Tasks    | Changes that improve [UX], [DX], or test coverage; but don't impact application behavior | [Task: CI/Tooling 🤖][label-tooling], [Task: Docs 📖][label-docs], [Task: Refactor 🛠][label-refactor], [Task: Tests 🔬][label-tests] |
+
+_table 2. backlogged issue types ([full list of labels][gh-labels])_
+
+## Issue Curation (["backlog grooming"][groom-backlog])
+
+If a [GitHub issue][gh-issues] has a `bug`, `story`, or `task` label; it's on
+our backlog. If an issue is on our backlog, it means we are, at the very least,
+committed to reviewing any community drafted Pull Requests to complete the
+issue. If you're interested in seeing an issue completed but don't know where to
+start, please don't hesitate to leave a comment!
+
+While we don't yet have a long-term or quarterly road map, we do regularly add
+items to our ["Active Development" GitHub Project Board][gh-board]. Items on
+this project board are either in active development by Core Team members, or
+queued up for development as in-progress items are completed.
+
+> :pencil: Want to contribute but not sure where to start? Check out [Up for
+> grabs][label-grabs] issues and our [Contributing
+> documentation][contributing-docs]
+
+## Contributions (Pull Requests)
+
+Incoming Pull Requests (PRs) are triaged using the following labels. Code review
+is performed on all PRs where the bug fix or added functionality is deemed
+appropriate:
+
+| Labels                                         | Description                                                                                                 |
+| ---------------------------------------------- | ----------------------------------------------------------------------------------------------------------- |
+| **Classification**                             |                                                                                                             |
+| [PR: Bug Fix][label-bug]                       | Filed to address a Bug.                                                                                     |
+| [PR: Draft][draft]                             | Filed to gather early feedback from the core team, but which is not intended for merging in the short term. |
+| **Review Workflow**                            |                                                                                                             |
+| [PR: Awaiting Response 💬][awaiting-response]  | The core team is waiting for additional information from the author.                                        |
+| [PR: Awaiting Review 👀][awaiting-review]      | The core team has not yet performed a code review.                                                          |
+| [PR: Awaiting Revisions 🖊][awaiting-revisions] | Following code review, this label is applied until the author has made sufficient changes.                  |
+| **QA**                                         |                                                                                                             |
+| [PR: Awaiting User Cases 💃][awaiting-stories] | The PR code changes need common language descriptions of impact to end users before the review can start    |
+| [PR: No UX Impact 🙃][no-ux-impact]            | The PR code changes do not impact the user's experience                                                     |
+
+We rely on GitHub Checks and integrations with third party services to evaluate
+changes in code quality and test coverage. Tests must pass and User cases must
+be present (when applicable) before a PR can be merged to master, and code
+quality and test coverage must not changed by a significant margin. For some
+repositories, visual screenshot-based tests are also included, and video
+recordings of end-to-end tests are stored for later review.
+
+[You can read more about our continous integration efforts here](/development/continous-integration.md)
+
+## Releases
+
+Releases are made automatically based on the type of commits which have been
+merged (major.minor.patch). Releases are automatically pushed to NPM. Release
+notes are automatically generated. Users can subscribe to GitHub and NPM
+releases.
+
+We host development, staging, and production environments for the Progressive
+Web Application version of the OHIF Viewer. [Development][ohif-dev] always
+reflects the latest changes on our master branch. [Staging][ohif-stage] is used
+to regression test a release before a bi-weekly deploy to our [Production
+environment][ohif-prod].
+
+Important announcements are made on GitHub, tagged as Announcement, and pinned
+so that they remain at the top of the Issue page.
+
+The Core team occasionally performs full manual testing to begin the process of
+releasing a Stable version. Once testing is complete, the known issues are
+addressed and a Stable version is released.
+
+<!--
+  LINKS
+-->
+
+<!-- prettier-ignore-start -->
+[groom-backlog]: https://www.agilealliance.org/glossary/backlog-grooming
+[retrospective]: https://www.atlassian.com/team-playbook/plays/retrospective
+[gh-issues]: https://github.com/OHIF/Viewers/issues/new/choose
+[gh-labels]: https://github.com/OHIF/Viewers/labels
+<!-- Issue Labels -->
+[label-story]: https://github.com/OHIF/Viewers/labels/Story%20%3Araised_hands%3A
+[label-tooling]: https://github.com/OHIF/Viewers/labels/Task%3A%20CI%2FTooling%20%3Arobot%3A
+[label-docs]: https://github.com/OHIF/Viewers/labels/Task%3A%20Docs%20%3Abook%3A
+[label-refactor]: https://github.com/OHIF/Viewers/labels/Task%3A%20Refactor%20%3Ahammer_and_wrench%3A
+[label-tests]: https://github.com/OHIF/Viewers/labels/Task%3A%20Tests%20%3Amicroscope%3A
+[label-bug]: https://github.com/OHIF/Viewers/labels/Bug%3A%20Verified%20%3Abug%3A
+<!-- PR Labels -->
+[draft]: https://github.com/OHIF/Viewers/labels/PR%3A%20Draft
+[awaiting-response]: https://github.com/OHIF/Viewers/labels/PR%3A%20Awaiting%20Response%20%3Aspeech_balloon%3A
+[awaiting-review]: https://github.com/OHIF/Viewers/labels/PR%3A%20Awaiting%20Review%20%3Aeyes%3A
+[awaiting-stories]: https://github.com/OHIF/Viewers/labels/PR%3A%20Awaiting%20UX%20Stories%20%3Adancer%3A
+[awaiting-revisions]: https://github.com/OHIF/Viewers/labels/PR%3A%20Awaiting%20Revisions%20%3Apen%3A
+[no-ux-impact]: https://github.com/OHIF/Viewers/labels/PR%3A%20No%20UX%20Impact%20%3Aupside_down_face%3A
+<!-- -->
+[ohif-dev]: https://viewer-dev.ohif.org
+[ohif-stage]: https://viewer-stage.ohif.org
+[ohif-prod]: https://viewer.ohif.org
+[gh-board]: https://github.com/OHIF/Viewers/projects/4
+[label-grabs]: https://github.com/OHIF/Viewers/issues?q=is%3Aissue+is%3Aopen+label%3A%22Up+For+Grabs+%3Araising_hand_woman%3A%22
+[contributing-docs]: https://docs.ohif.org/contributing/
+<!-- prettier-ignore-end -->

docs/latest/quick-start.md

@@ -0,0 +1,28 @@
+# Quick Start
+
+This page details how to get an instance of the OHIF Viewer up and running as
+fast as possible. It shows how to grab a pre-built version of the application,
+point it at your data source (PACS), and plop it on a web server.
+
+## Options
+
+### 1. Pre-built PWA
+
+...
+
+### 2. Script-Tag
+
+...
+
+### 3. Docker
+
+...
+
+## Security Concerns
+
+- Secure your data
+
+## Common Issues
+
+- Missing server rewrite rules
+- CORS issues when requesting data from PACS

docs/latest/services/default/index.md

@@ -0,0 +1,65 @@
+# Services (default)
+
+- [Overview](#overview)
+- [Example](#example)
+
+## Overview
+
+Services are a work in progress. As we are still in the progress of creating a
+non-ui maintained service, this usage may change.
+
+<div style="text-align: center;">
+  <a href="/assets/img/services.png">
+    <img src="/assets/img/services.png" alt="UI Services Diagram" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>Diagram showing relationship between React Context and UI Service</i></div>
+</div>
+
+## Example
+
+The simplest service return a new object that has a `name` property, and
+methods/properties that give the service its functionality. The "Factory
+Function" that creates the service is provided with the implementation (this is
+slightly different for UI Services).
+
+```js
+const _speak = () => {
+  console.warn('Speak is not implemented');
+};
+
+/**
+ * Factory function to create `HelloWorldService`
+ *
+ * @param {object} implementation
+ * @param {function} implementation.speak - Speak's implementation
+ * @returns HelloWorldService
+ */
+export default function createHelloWorldService({ speak }) {
+  return {
+    name: 'HelloWorldService',
+    speak: speak || _speak,
+  };
+}
+```
+
+A service, once created, can be registered with the `ServicesManager` to make it
+accessible to extensions. Similarly, the application code can access named
+services from the `ServicesManager`.
+
+```js
+// In the application
+const speak = () => {
+  window.alert('HELLO WORLD');
+};
+const HelloWorldService = createHelloWorldService({ speak });
+const servicesManager = new ServicesManager();
+
+servicesManager.registerService(HelloWorldService);
+
+// In an extension
+const { HelloWorldService } = servicesManager.services;
+
+if (HelloWorldService) {
+  HelloWorldService.speak();
+}
+```

docs/latest/services/default/measurements.md

@@ -1,6 +1,6 @@
-# Measurements Package (ohif-measurements)
+# Service: Measurements
 
-## Package design
+...
 
 ## Usage
 

docs/latest/services/index.md

@@ -0,0 +1,69 @@
+# Services Overview
+
+- [Overview](#overview)
+- [Kinds of Services](#kinds-of-services)
+  - [Services (default)](#services-default)
+  - [UI Services](#ui-services)
+- [Related Patterns](#related-patterns)
+
+## Overview
+
+Services are a beefier version of [commands][commands]. They provide a set of
+operations, often tied to some shared state, and are made available to
+extensions via the `ServicesManager`. Services are particularly well suited to
+address [cross-cutting concerns][cross-cutting-concerns].
+
+Each service should be:
+
+- self-contained
+- able to fail and/or be removed without breaking the application
+- completely interchangeable with another module implementing the same interface
+
+## Kinds of Services
+
+Depending on the kind of service, we follow slightly different conventions. For
+example, a UI service often receives its implementation from a React Context
+Provider. You can read more about the different kinds of services and what makes
+them different below:
+
+### Services (default)
+
+Services are a work in progress. As we are still in the progress of creating a
+non-ui maintained service, this usage may change.
+
+[You can read more about default services: here](./default/index.md)
+
+### UI Services
+
+A typical web application will have components and state for common UI like
+modals, notifications, dialogs, etc. A UI service makes it possible to leverage
+these components from an extension.
+
+We maintain the following UI Services:
+
+- [UIDialogService](./ui/ui-dialog-service.md)
+- [UIModalService](./ui/ui-modal-service.md)
+- [UINotificationService](./ui/ui-notification-service.md)
+
+You can read more about a specific service by selecting it in the above list,
+and more about [UI services in general: here](./ui/index.md)
+
+## Related Patterns
+
+Services are "concern-specific" code modules that can be consumed across layers.
+We try to minimize the coupling they introduce by authoring services that are
+able to fail or be removed. Related patterns that may reduce coupling include:
+
+- Pub/Sub
+- Commands
+
+<!--
+  LINKS
+  -->
+
+<!-- prettier-ignore-start -->
+[commands]: #/
+[core-services]: https://github.com/OHIF/Viewers/tree/master/platform/core/src/services
+[services-manager]: https://github.com/OHIF/Viewers/blob/master/platform/core/src/services/ServicesManager.js
+[cross-cutting-concerns]: https://en.wikipedia.org/wiki/Cross-cutting_concern
+<!-- prettier-ignore-end -->

docs/latest/services/ui/index.md

@@ -0,0 +1,106 @@
+# UI Services
+
+- [Overview](#overview)
+- [Example](#example)
+- [Tips & Tricks](#/)
+- [Maintained Services](#/)
+
+## Overview
+
+A typical web application will have components and state for common UI like
+modals, notifications, dialogs, etc. A UI service makes it possible to leverage
+these components from an extension.
+
+<div style="text-align: center;">
+  <a href="/assets/img/ui-services.png">
+    <img src="/assets/img/ui-services.png" alt="UI Services Diagram" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>Diagram showing relationship between React Context and UI Service</i></div>
+</div>
+
+In `@ohif/core`, we have a collection of service factories. We select one we
+would like our application to support, create an instance of it, and pass that
+instance to our `ServicesManager` AND to a React component (in this example,
+`ModalContext`'s provider).
+
+The `ModalContext`'s provider:
+
+- Exposes context values
+- Exposes methods that leverage `useCallback` hooks
+- Sets the service's implementation in a `useEffect` hook
+
+The `ServicesManager` is:
+
+- Passed to the `ExtensionManager`
+- The `ExtensionManager` makes the `ServicesManager` available to:
+  - All of it's lifecycle hooks (`preRegistration`)
+  - Each "getModuleFunction" (`getToolbarModule`, `getPanelModule`, etc.)
+
+## Example
+
+That's all fine and good, but it's still a little too abstract. What does this
+translate to in practice?
+
+```js
+// In the application
+import UINotificationService from '@ohif/core';
+const servicesManager = new ServicesManager();
+
+servicesManager.registerService(UINotificationService);
+
+// UI Service Provider
+useEffect(() => {
+  if (service) {
+    service.setServiceImplementation({ hide, show });
+  }
+}, [service, hide, show]);
+
+// In an extension
+const { UINotificationService } = servicesManager.services;
+
+if (UINotificationService) {
+  UINotificationService.show('Hello from the other side 👋');
+}
+```
+
+<div style="text-align: center;">
+  <a href="/assets/img/notification-example.gif">
+    <img src="/assets/img/notification-example.gif" alt="UI Notification Service Example" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>GIF showing successful call of UINotificationService from an extension.</i></div>
+</div>
+
+## Tips & Tricks
+
+It's important to remember that all we're doing is making it possible to control
+bits of the application's UI from an extension. Here are a few non-obvious
+takeaways worth mentioning:
+
+- Your application code should continue to use React context
+  (consumers/providers) as it normally would
+- You can substitute our "out of the box" UI implementations with your own
+- You can create and register your own UI services
+- You can choose not to register a service or provide a service implementation
+- In extensions, you can provide fallback/alternative behavior if an expected
+  service is not registered
+  - No `UIModalService`? Use the `UINotificationService` to notify users.
+- While we don't have an examples of this, you can technically register a
+  service in an extension and expose it to the core application
+
+> Note: These are recommended patterns, not hard and fast rules. Following them
+> will help reduce confusion and interoperability with the larger OHIF
+> community, but they're not silver bullets. Please speak up, create an issue,
+> if you would like to discuss new services or improvements to this pattern.
+
+## Maintained Services
+
+Our `@ohif/viewer` project is an example of how to glue together the different
+parts and pieces of the OHIF Platform to create a polished and powerful product.
+To accomplish that, we maintain several UI Services that you can use in your own
+project, or provide alternative implementations for:
+
+| Name                  | Docs                                 |
+| --------------------- | ------------------------------------ |
+| UIDialogService       | [Here](./ui-dialog-service.md)       |
+| UIModalService        | [Here](./ui-modal-service.md)        |
+| UINotificationService | [Here](./ui-notification-service.md) |

docs/latest/services/ui/ui-dialog-service.md

@@ -0,0 +1,49 @@
+# UI Dialog Service
+
+Dialogs have similar characteristics to that of Modals, but often with a
+streamlined focus. They can be helpful when:
+
+- We need to grab the user's attention
+- We need user input
+- We need to show additional information
+
+If you're curious about the DOs and DON'Ts of dialogs and modals, check out this
+article: ["Best Practices for Modals / Overlays / Dialog Windows"][ux-article]
+
+<div style="text-align: center;">
+  <a href="/assets/img/dialog-example.gif">
+    <img src="/assets/img/dialog-example.gif" alt="UI Dialog Service Example" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>GIF showing successful call of UIDialogService from an extension.</i></div>
+</div>
+
+## Interface
+
+For a more detailed look on the options and return values each of these methods
+is expected to support, [check out it's interface in `@ohif/core`][interface]
+
+| API Member     | Description                                            |
+| -------------- | ------------------------------------------------------ |
+| `create()`     | Creates a new Dialog that is displayed until dismissed |
+| `dismiss()`    | Dismisses the specified dialog                         |
+| `dismissAll()` | Dismisses all dialogs                                  |
+
+## Implementations
+
+| Implementation                       | Consumer                   |
+| ------------------------------------ | -------------------------- |
+| [Dialog Provider][dialog-provider]\* | Baked into Dialog Provider |
+
+`*` - Denotes maintained by OHIF
+
+> 3rd Party implementers may be added to this table via pull requests.
+
+<!--
+  LINKS
+-->
+
+<!-- prettier-ignore-start -->
+[interface]: https://github.com/OHIF/Viewers/blob/master/platform/core/src/services/UIDialogService/index.js
+[dialog-provider]: https://github.com/OHIF/Viewers/blob/master/platform/ui/src/contextProviders/DialogProvider.js
+[ux-article]: https://uxplanet.org/best-practices-for-modals-overlays-dialog-windows-c00c66cddd8c
+<!-- prettier-ignore-end -->

docs/latest/services/ui/ui-modal-service.md

@@ -0,0 +1,50 @@
+# UI Modal Service
+
+Modals have similar characteristics to that of Dialogs, but are often larger,
+and only allow for a single instance to be viewable at once. They also tend to
+be centered, and not draggable. They're commonly used when:
+
+- We need to grab the user's attention
+- We need user input
+- We need to show additional information
+
+If you're curious about the DOs and DON'Ts of dialogs and modals, check out this
+article: ["Best Practices for Modals / Overlays / Dialog Windows"][ux-article]
+
+<div style="text-align: center;">
+  <a href="/assets/img/modal-example.gif">
+    <img src="/assets/img/modal-example.gif" alt="UI Modal Service Example" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>GIF showing successful call of UIModalService from an extension.</i></div>
+</div>
+
+## Interface
+
+For a more detailed look on the options and return values each of these methods
+is expected to support, [check out it's interface in `@ohif/core`][interface]
+
+| API Member | Description                           |
+| ---------- | ------------------------------------- |
+| `hide()`   | Hides the open modal                  |
+| `show()`   | Shows the provided content in a modal |
+
+## Implementations
+
+| Implementation                     | Consumer                      |
+| ---------------------------------- | ----------------------------- |
+| [Modal Provider][modal-provider]\* | [OHIFModal][modal-consumer]\* |
+
+`*` - Denotes maintained by OHIF
+
+> 3rd Party implementers may be added to this table via pull requests.
+
+<!--
+  LINKS
+-->
+
+<!-- prettier-ignore-start -->
+[interface]: https://github.com/OHIF/Viewers/blob/master/platform/core/src/services/UIModalService/index.js
+[modal-provider]: https://github.com/OHIF/Viewers/blob/master/platform/ui/src/contextProviders/ModalProvider.js
+[modal-consumer]: https://github.com/OHIF/Viewers/tree/master/platform/ui/src/components/ohifModal
+[ux-article]: https://uxplanet.org/best-practices-for-modals-overlays-dialog-windows-c00c66cddd8c
+<!-- prettier-ignore-end -->

docs/latest/services/ui/ui-notification-service.md

@@ -0,0 +1,51 @@
+# UI Notification Service
+
+Notifications can be annoying and disruptive. They can also deliver timely
+helpful information, or expedite the user's workflow. Here is some high level
+guidance on when and how to use them:
+
+- Notifications should be non-interfering (timely, relevant, important)
+- We should only show small/brief notifications
+- Notifications should be contextual to current behavior/actions
+- Notifications can serve warnings (acting as a confirmation)
+
+If you're curious about the DOs and DON'Ts of notifications, check out this
+article: ["How To Design Notifications For Better UX"][ux-article]
+
+<div style="text-align: center;">
+  <a href="/assets/img/notification-example.gif">
+    <img src="/assets/img/notification-example.gif" alt="UI Notification Service Example" style="margin: 0 auto; max-width: 500px;" />
+  </a>
+  <div><i>GIF showing successful call of UINotificationService from an extension.</i></div>
+</div>
+
+## Interface
+
+For a more detailed look on the options and return values each of these methods
+is expected to support, [check out it's interface in `@ohif/core`][interface]
+
+| API Member | Description                             |
+| ---------- | --------------------------------------- |
+| `hide()`   | Hides the specified notification        |
+| `show()`   | Creates and displays a new notification |
+
+## Implementations
+
+| Implementation                           | Consumer                                  |
+| ---------------------------------------- | ----------------------------------------- |
+| [Snackbar Provider][snackbar-provider]\* | [SnackbarContainer][snackbar-container]\* |
+
+`*` - Denotes maintained by OHIF
+
+> 3rd Party implementers may be added to this table via pull requests.
+
+<!--
+  LINKS
+-->
+
+<!-- prettier-ignore-start -->
+[interface]: https://github.com/OHIF/Viewers/blob/master/platform/core/src/services/UINotificationService/index.js
+[snackbar-provider]: https://github.com/OHIF/Viewers/blob/master/platform/ui/src/contextProviders/SnackbarProvider.js
+[snackbar-container]: https://github.com/OHIF/Viewers/blob/master/platform/ui/src/components/snackbar/SnackbarContainer.js
+[ux-article]: https://uxplanet.org/how-to-design-notifications-for-better-ux-6fb0711be54d
+<!-- prettier-ignore-end -->

docs/latest/viewer/configuration.md

@@ -0,0 +1,67 @@
+# Viewer: Configuration
+
+We maintain a number of common viewer application configurations at
+[`<root>/platform/viewer/public/configs`][config-dir]. How these values are
+passed to the viewer depend on how it's deployed, but the two most common paths
+are:
+
+- `index.html` looks for `https://your-website.com/app-config.js` OR
+- `index.html` passes the values to `OHIF.installViewer()`
+
+```js
+window.config = {
+  routerBasename: '/',
+  whiteLabelling: {},
+  extensions: [],
+  showStudyList: true,
+  filterQueryParam: false,
+  servers: {
+    dicomWeb: [
+      {
+        name: 'DCM4CHEE',
+        wadoUriRoot: 'https://server.dcmjs.org/dcm4chee-arc/aets/DCM4CHEE/wado',
+        qidoRoot: 'https://server.dcmjs.org/dcm4chee-arc/aets/DCM4CHEE/rs',
+        wadoRoot: 'https://server.dcmjs.org/dcm4chee-arc/aets/DCM4CHEE/rs',
+        qidoSupportsIncludeField: true,
+        imageRendering: 'wadors',
+        thumbnailRendering: 'wadors',
+        enableStudyLazyLoad: true,
+      },
+    ],
+  },
+  // Supported Keys: https://craig.is/killing/mice
+  hotkeys: [
+    { commandName: 'rotateViewportCW', label: 'Rotate Right', keys: ['r'] },
+    { commandName: 'rotateViewportCCW', label: 'Rotate Left', keys: ['l'] },
+    { commandName: 'invertViewport', label: 'Invert', keys: ['i'] },
+    {
+      commandName: 'flipViewportVertical',
+      label: 'Flip Horizontally',
+      keys: ['h'],
+    },
+    {
+      commandName: 'flipViewportHorizontal',
+      label: 'Flip Vertically',
+      keys: ['v'],
+    },
+  ],
+  /* Configuration passed to the bundled cornerstone extension
+   *
+   * The cornerstone extension is currently tightly coupled to the platform.
+   * Until we're able to decouple it, this key will serve as a workaround to
+   * pass it configuration.
+   */
+  cornerstoneExtensionConfig: {
+    /* Whether to show/hide annotation "handles" */
+    hideHandles: true,
+  },
+};
+```
+
+<!--
+  LINKS
+-->
+
+<!-- prettier-ignore-start -->
+[config-dir]: https://github.com/OHIF/Viewers/tree/master/platform/viewer/public/config
+<!-- prettier-ignore-end -->

docs/latest/viewer/environment-variables.md

@@ -0,0 +1,23 @@
+# Environment Variables
+
+There are a number of environment variables we use at build time to influence the output application's behavior.
+
+```bash
+# Application
+NODE_ENV=< production | development >
+DEBUG=< true | false >
+APP_CONFIG=< relative path to application configuration file >
+PUBLIC_URL=<>
+VERSION_NUMBER=<Set by CircleCI>
+BUILD_NUM=<Set by CircleCI>
+# i18n
+USE_LOCIZE=<false>
+LOCIZE_PROJECTID=<ProjectID to pull translations for>
+LOCIZE_API_KEY=<To enable Locize live editing of translations>
+```
+
+## Setting Environment Variables
+
+- `npx cross-env`
+- `.env` files
+- env variables on build machine, or for terminal session

docs/latest/viewer/hotkeys.md

@@ -0,0 +1,3 @@
+# Hotkeys
+
+...

docs/latest/viewer/index.md

@@ -0,0 +1,9 @@
+# Viewer
+
+The OHIF Viewing Platform strives to be highly configurable and extensible. This
+makes it easier for our community members to keep their "secret sauce" private,
+and incentivises contributions back to the platform. The `@ohif/viewer` project
+of the platform is the lynchpin that combines everything to create our
+application.
+
+- When configuration and themeing aren't enough

docs/latest/viewer/internationalization.md

@@ -1,4 +1,4 @@
-# Translating
+# Viewer: Internationalization
 
 OHIF supports internationalization using [i18next](https://www.i18next.com/)
 through the npm package [@ohif/i18n](https://www.npmjs.com/package/@ohif/i18n),
@@ -15,7 +15,7 @@ where is the main instance of i18n containing several languages and tools.
   </div>
 </div>
 
-### Installing
+## Installing
 
 ```bash
 yarn add @ohif/i18n
@@ -25,7 +25,7 @@ yarn add @ohif/i18n
 npm install --save @ohif/i18n
 ```
 
-### How it works
+## How it works
 
 After installing `@ohif/i18n` npm package, the translation function
 [t](https://www.i18next.com/overview/api#t) can be used [with](#with-react) or
@@ -57,13 +57,13 @@ If the translation.json file contains a key that matches the HTML content e.g.
 
 ---
 
-#### With React
+### With React
 
 This section will introduce you to [react-i18next](https://react.i18next.com/)
 basics and show how to implement the [t](https://www.i18next.com/overview/api#t)
 function easily.
 
-##### Using HOCs
+#### Using HOCs
 
 In most cases we used
 [High Order Components](https://react.i18next.com/latest/withtranslation-hoc) to
@@ -86,13 +86,13 @@ export default withTranslation('MyNameSpace')(MyComponent);
 > [I18nextProvider](#using-outside-of-ohif-viewer) section, `withTranslation`
 > HOC doesnt works without a I18nextProvider
 
-##### Using Hooks
+#### Using Hooks
 
 Also, it's possible to get the `t` tool using
 [React Hooks](https://react.i18next.com/latest/usetranslation-hook), but it
 requires at least React > 16.8 😉
 
-#### Using outside of OHIF viewer
+### Using outside of OHIF viewer
 
 OHIF Viewer already sets a main
 [I18nextProvider](https://react.i18next.com/latest/i18nextprovider) connected to
@@ -119,7 +119,7 @@ usage.
 
 ---
 
-#### Without React
+### Without React
 
 When needed, you can also use available translations _without React_.
 

docs/latest/viewer/themeing.md

@@ -1,4 +1,4 @@
-# Themeing
+# Viewer: Themeing
 
 Themeing is currently accomplished with color variables that are defined within
 the [`:root`](https://css-tricks.com/almanac/selectors/r/root/) selector

docs/v1/lesion-tracker/audit-trail.md

@@ -1,6 +1,7 @@
 # Lesion Tracker - Audit Trail
 
 1. To view Audit Trails, select **View Audit Log** on the Configuration menu.
-2. To filter audit logs for a column or multiple columns, type or select in the related column or columns.
+2. To filter audit logs for a column or multiple columns, type or select in the
+   related column or columns.
 
 ![Audit Trails](../assets/img/LesionTracker/LT_Audit_Trails.png)

docs/v1/lesion-tracker/study-and-timepoint-management.md

@@ -2,50 +2,74 @@
 
 ![Study List](../assets/img/LesionTracker/LT_StudyList.png)
 
-1. Study List allows to sort each column. To sort studies, click the desired column header.
-2. Study List is filterable for each column and you can filter by more than one column by typing in the column field. To filter a column, type the text in the desired column header field and press Enter.
-3. Pagination is provided for the Study List at the bottom of the page. You can change the number of rows per page or the current page.
+1. Study List allows to sort each column. To sort studies, click the desired
+   column header.
+2. Study List is filterable for each column and you can filter by more than one
+   column by typing in the column field. To filter a column, type the text in
+   the desired column header field and press Enter.
+3. Pagination is provided for the Study List at the bottom of the page. You can
+   change the number of rows per page or the current page.
 
 ## Study List Context Menu
 
-When you right-click on the study row, Study Context Menu will pop up. Study Context Menu includes operations at the study level.
+When you right-click on the study row, Study Context Menu will pop up. Study
+Context Menu includes operations at the study level.
 
 There are a couple of ways to view a study:
 
-* Simply double-click on the study row.
-* Select **View** option on the Study Context Menu, then you will be redirected to Viewer page.
+- Simply double-click on the study row.
+- Select **View** option on the Study Context Menu, then you will be redirected
+  to Viewer page.
 
 ![View Study](../assets/img/LesionTracker/LT_View_Study.png)
 
 ### Timepoint Association
 
-1. To link a study with a timepoint, right-click on the study row and select **Associate** option on the Study Context Menu. You will see Study Association dialog.
-2. To link multiple studies at the same time, hold Shift key and select studies you would like to associate, then right-click and select Associate on the Study Context Menu
+1. To link a study with a timepoint, right-click on the study row and select
+   **Associate** option on the Study Context Menu. You will see Study
+   Association dialog.
+2. To link multiple studies at the same time, hold Shift key and select studies
+   you would like to associate, then right-click and select Associate on the
+   Study Context Menu
 
 ![Select Associate](../assets/img/LesionTracker/LT_Select_Associate.png)
 
-The Study Association dialog allows you to select and unselect Timepoint Type for the selected study or studies. Also, it will include all studies within 14 days of your selected studies, in case you forgot to select a study. After you identify timepoints for the selected study or studies, click **Save** to save the association.
+The Study Association dialog allows you to select and unselect Timepoint Type
+for the selected study or studies. Also, it will include all studies within 14
+days of your selected studies, in case you forgot to select a study. After you
+identify timepoints for the selected study or studies, click **Save** to save
+the association.
 
 ![Association Dialog](../assets/img/LesionTracker/LT_Association_Dialog.png)
 
 ### Remove Timepoint Association
-To unlink a timepoint association with a study, right-click on the study row and select **Remove Association** option on the Study Context Menu. Remove Association will be disabled if the study is already dissociated.
+
+To unlink a timepoint association with a study, right-click on the study row and
+select **Remove Association** option on the Study Context Menu. Remove
+Association will be disabled if the study is already dissociated.
 
 ![Remove Associate](../assets/img/LesionTracker/LT_Remove_Associate.png)
 
 ### View Series Details
-To view details of related series, right-click on the study row and select **View Series Details** option on the Study Context Menu, then Series Details dialog will pop up. Series Details dialog gives a summary of the selected study.
+
+To view details of related series, right-click on the study row and select
+**View Series Details** option on the Study Context Menu, then Series Details
+dialog will pop up. Series Details dialog gives a summary of the selected study.
 
 ![View Series Details](../assets/img/LesionTracker/LT_View_Series_Details.png)
 
 ### Anonymize (Under Development)
+
 ...
 
 ### Send (Under Development)
+
 ...
 
 ### Export (Under Development)
+
 ...
 
 ### Delete (Under Development)
+
 ...

extensions/_example/src/index.js

@@ -11,12 +11,16 @@ export default {
    * LIFECYCLE HOOKS
    */
 
-  preRegistration(extensionConfiguration) {},
+  preRegistration({
+    servicesManager = {},
+    commandsManager = {},
+    appConfig = {},
+    configuration = {},
+  }) {},
 
   /**
    * MODULE GETTERS
    */
-
   getViewportModule() {
     return '... react component ...';
   },
@@ -59,7 +63,7 @@ const commandsModule = {
  */
 const sopClassHandlerModule = {
   id: 'OHIFDicomHtmlSopClassHandler',
-  sopClassUids: Object.values({
+  sopClassUIDs: Object.values({
     BASIC_TEXT_SR: '1.2.840.10008.5.1.4.1.1.88.11',
     ENHANCED_SR: '1.2.840.10008.5.1.4.1.1.88.22',
     COMPREHENSIVE_SR: '1.2.840.10008.5.1.4.1.1.88.33',
@@ -73,12 +77,12 @@ const sopClassHandlerModule = {
 
     return {
       plugin: 'html',
-      displaySetInstanceUid: 0, //utils.guid(),
+      displaySetInstanceUID: 0, //utils.guid(),
       wadoRoot: study.getData().wadoRoot,
       wadoUri: instance.getData().wadouri,
-      sopInstanceUid: instance.getSOPInstanceUID(),
-      seriesInstanceUid: series.getSeriesInstanceUID(),
-      studyInstanceUid: study.getStudyInstanceUID(),
+      SOPInstanceUID: instance.getSOPInstanceUID(),
+      SeriesInstanceUID: series.getSeriesInstanceUID(),
+      StudyInstanceUID: study.getStudyInstanceUID(),
       authorizationHeaders,
     };
   },
@@ -93,6 +97,9 @@ const panelModule = {
       icon: 'th-list',
       label: 'Segments',
       target: 'segment-panel',
+      isDisabled: studies => {
+        return false;
+      },
     },
   ],
   components: [

extensions/cornerstone/CHANGELOG.md

@@ -3,6 +3,274 @@
 All notable changes to this project will be documented in this file.
 See [Conventional Commits](https://conventionalcommits.org) for commit guidelines.
 
+# [2.5.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.4.3...@ohif/extension-cornerstone@2.5.0) (2020-03-13)
+
+
+### Features
+
+* Segmentations Settings UI - Phase 1 [#1391](https://github.com/OHIF/Viewers/issues/1391) ([#1392](https://github.com/OHIF/Viewers/issues/1392)) ([e8842cf](https://github.com/OHIF/Viewers/commit/e8842cf8aebde98db7fc123e4867c8288552331f)), closes [#1423](https://github.com/OHIF/Viewers/issues/1423)
+
+
+
+
+
+## [2.4.3](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.4.2...@ohif/extension-cornerstone@2.4.3) (2020-03-09)
+
+**Note:** Version bump only for package @ohif/extension-cornerstone
+
+
+
+
+
+## [2.4.2](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.4.1...@ohif/extension-cornerstone@2.4.2) (2020-03-09)
+
+
+### Bug Fixes
+
+* Remove Eraser and ROI Window ([6c950a9](https://github.com/OHIF/Viewers/commit/6c950a9669f7fbf3c46e48679fa26ee514824156))
+
+
+
+
+
+## [2.4.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.4.0...@ohif/extension-cornerstone@2.4.1) (2020-03-03)
+
+
+### Bug Fixes
+
+* bump react-cornerstone-viewport version to address critical issue ([#1473](https://github.com/OHIF/Viewers/issues/1473)) ([ee80e02](https://github.com/OHIF/Viewers/commit/ee80e026610442e94caf5e4e3e4d193220cd0ece))
+
+
+
+
+
+# [2.4.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.3.1...@ohif/extension-cornerstone@2.4.0) (2020-02-20)
+
+
+### Features
+
+* [#1342](https://github.com/OHIF/Viewers/issues/1342) - Window level tab ([#1429](https://github.com/OHIF/Viewers/issues/1429)) ([ebc01a8](https://github.com/OHIF/Viewers/commit/ebc01a8ca238d5a3437b44d81f75aa8a5e8d0574))
+
+
+
+
+
+## [2.3.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.3.0...@ohif/extension-cornerstone@2.3.1) (2020-02-14)
+
+
+### Bug Fixes
+
+* Creating 2 commands to activate zoom tool and also to move between displaySets ([#1446](https://github.com/OHIF/Viewers/issues/1446)) ([06a4af0](https://github.com/OHIF/Viewers/commit/06a4af06faaecf6fa06ccd90cdfa879ee8d53053))
+
+
+
+
+
+# [2.3.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.2.2...@ohif/extension-cornerstone@2.3.0) (2020-02-10)
+
+
+### Features
+
+* 🎸 MeasurementService ([#1314](https://github.com/OHIF/Viewers/issues/1314)) ([0c37a40](https://github.com/OHIF/Viewers/commit/0c37a406d963569af8c3be24c697dafd42712dfc))
+
+
+
+
+
+## [2.2.2](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.2.1...@ohif/extension-cornerstone@2.2.2) (2020-01-28)
+
+**Note:** Version bump only for package @ohif/extension-cornerstone
+
+
+
+
+
+## [2.2.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.2.0...@ohif/extension-cornerstone@2.2.1) (2019-12-20)
+
+
+### Bug Fixes
+
+* 🐛 1241: Make Plugin switch part of ToolbarModule ([#1322](https://github.com/OHIF/Viewers/issues/1322)) ([6540e36](https://github.com/OHIF/Viewers/commit/6540e36818944ac2eccc696186366ae495b33a04)), closes [#1241](https://github.com/OHIF/Viewers/issues/1241)
+
+
+
+
+
+# [2.2.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.1.1...@ohif/extension-cornerstone@2.2.0) (2019-12-20)
+
+
+### Features
+
+* 🎸 Configuration so viewer tools can nix handles ([#1304](https://github.com/OHIF/Viewers/issues/1304)) ([63594d3](https://github.com/OHIF/Viewers/commit/63594d36b0bdba59f0901095aed70b75fb05172d)), closes [#1223](https://github.com/OHIF/Viewers/issues/1223)
+
+
+
+
+
+## [2.1.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.1.0...@ohif/extension-cornerstone@2.1.1) (2019-12-16)
+
+
+### Bug Fixes
+
+* 🐛 add WwwcRegionTool to cornerstone tools initialization ([#1302](https://github.com/OHIF/Viewers/issues/1302)) ([d5bf728](https://github.com/OHIF/Viewers/commit/d5bf72851a32dff9fd3fc09332ea5250bc7e6114))
+
+
+
+
+
+# [2.1.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.0.2...@ohif/extension-cornerstone@2.1.0) (2019-12-11)
+
+
+### Features
+
+* 🎸 DICOM SR STOW on MeasurementAPI ([#954](https://github.com/OHIF/Viewers/issues/954)) ([ebe1af8](https://github.com/OHIF/Viewers/commit/ebe1af8d4f75d2483eba869655906d7829bd9666)), closes [#758](https://github.com/OHIF/Viewers/issues/758)
+
+
+
+
+
+## [2.0.2](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.0.1...@ohif/extension-cornerstone@2.0.2) (2019-12-11)
+
+**Note:** Version bump only for package @ohif/extension-cornerstone
+
+
+
+
+
+## [2.0.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@2.0.0...@ohif/extension-cornerstone@2.0.1) (2019-12-09)
+
+**Note:** Version bump only for package @ohif/extension-cornerstone
+
+
+
+
+
+# [2.0.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.7.2...@ohif/extension-cornerstone@2.0.0) (2019-12-09)
+
+
+* feat!: Ability to configure cornerstone tools via extension configuration (#1229) ([55a5806](https://github.com/OHIF/Viewers/commit/55a580659ecb74ca6433461d8f9a05c2a2b69533)), closes [#1229](https://github.com/OHIF/Viewers/issues/1229)
+
+
+### BREAKING CHANGES
+
+* modifies the exposed react <App /> components props. The contract for providing configuration for the app has changed. Please reference updated documentation for guidance.
+
+
+
+
+
+## [1.7.2](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.7.1...@ohif/extension-cornerstone@1.7.2) (2019-12-02)
+
+**Note:** Version bump only for package @ohif/extension-cornerstone
+
+
+
+
+
+## [1.7.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.7.0...@ohif/extension-cornerstone@1.7.1) (2019-12-02)
+
+**Note:** Version bump only for package @ohif/extension-cornerstone
+
+
+
+
+
+# [1.7.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.6.0...@ohif/extension-cornerstone@1.7.0) (2019-11-25)
+
+
+### Features
+
+* Add new annotate tool using new dialog service ([#1211](https://github.com/OHIF/Viewers/issues/1211)) ([8fd3af1](https://github.com/OHIF/Viewers/commit/8fd3af1e137e793f1b482760a22591c64a072047))
+
+
+
+
+
+# [1.6.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.5.1...@ohif/extension-cornerstone@1.6.0) (2019-11-19)
+
+
+### Features
+
+* New dialog service ([#1202](https://github.com/OHIF/Viewers/issues/1202)) ([f65639c](https://github.com/OHIF/Viewers/commit/f65639c2b0dab01decd20cab2cef4263cb4fab37))
+
+
+
+
+
+## [1.5.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.5.0...@ohif/extension-cornerstone@1.5.1) (2019-11-15)
+
+**Note:** Version bump only for package @ohif/extension-cornerstone
+
+
+
+
+
+# [1.5.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.4.1...@ohif/extension-cornerstone@1.5.0) (2019-11-13)
+
+
+### Features
+
+* expose UiNotifications service ([#1172](https://github.com/OHIF/Viewers/issues/1172)) ([5c04e34](https://github.com/OHIF/Viewers/commit/5c04e34c8fb2394ab7acd9eb4f2ab12afeb2f255))
+
+
+
+
+
+## [1.4.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.4.0...@ohif/extension-cornerstone@1.4.1) (2019-11-08)
+
+
+### Bug Fixes
+
+* Add a fallback metadata provider which pulls metadata from WADO-… ([#1158](https://github.com/OHIF/Viewers/issues/1158)) ([31b1adf](https://github.com/OHIF/Viewers/commit/31b1adfa5993d6c8e3e9c8b03fa9856f2621b037))
+
+
+
+
+
+# [1.4.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.3.1...@ohif/extension-cornerstone@1.4.0) (2019-10-26)
+
+
+### Features
+
+* Snapshot Download Tool ([#840](https://github.com/OHIF/Viewers/issues/840)) ([450e098](https://github.com/OHIF/Viewers/commit/450e0981a5ba054fcfcb85eeaeb18371af9088f8))
+
+
+
+
+
+## [1.3.1](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.3.0...@ohif/extension-cornerstone@1.3.1) (2019-10-09)
+
+
+### Bug Fixes
+
+* 🐛 set tools bidirectional, eraser and annotate command ([#1020](https://github.com/OHIF/Viewers/issues/1020)) ([a28984e](https://github.com/OHIF/Viewers/commit/a28984e))
+
+
+
+
+
+# [1.3.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.2.5...@ohif/extension-cornerstone@1.3.0) (2019-10-09)
+
+
+### Features
+
+* Multiple fixes and implementation changes to react-cornerstone-viewport ([1cc94f3](https://github.com/OHIF/Viewers/commit/1cc94f3))
+
+
+
+
+
+## [1.2.5](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.2.4...@ohif/extension-cornerstone@1.2.5) (2019-09-27)
+
+
+### Bug Fixes
+
+* version bump issue ([#963](https://github.com/OHIF/Viewers/issues/963)) ([e607ed2](https://github.com/OHIF/Viewers/commit/e607ed2)), closes [#962](https://github.com/OHIF/Viewers/issues/962)
+
+
+
+
+
 # [2.0.0](https://github.com/OHIF/Viewers/compare/@ohif/extension-cornerstone@1.2.2...@ohif/extension-cornerstone@2.0.0) (2019-09-27)
 
 

extensions/cornerstone/README.md

@@ -67,6 +67,38 @@ Our Viewport wraps [cornerstonejs/react-cornerstone-viewport][react-viewport]
 and is connected the redux store. This module is the most prone to change as we
 hammer out our Viewport interface.
 
+## Tool Configuration
+
+Tools can be configured through extension configuration using the tools key:
+
+```js
+  ...
+  cornerstoneExtensionConfig: {
+    tools: {
+      ArrowAnnotate: {
+        configuration: {
+          getTextCallback: (callback, eventDetails) => callback(prompt('Enter your custom annotation')),
+        },
+      },
+    },
+  },
+  ...
+```
+
+## Annotate Tools Configuration
+
+*We currently support one property for annotation tools.*
+
+### Hide handles
+This extension configuration allows you to toggle on/off handle rendering for all annotate tools:
+
+```js
+  ...
+  cornerstoneExtensionConfig: {
+    hideHandles: true,
+  },
+  ...
+
 ## Resources
 
 ### Repositories

extensions/cornerstone/babel.config.js

@@ -0,0 +1 @@
+module.exports = require("../../babel.config.js");

extensions/cornerstone/jest.config.js

@@ -0,0 +1,13 @@
+const base = require('../../jest.config.base.js');
+const pkg = require('./package');
+
+module.exports = {
+  ...base,
+  name: pkg.name,
+  displayName: pkg.name,
+  // rootDir: "../.."
+  // testMatch: [
+  //   //`<rootDir>/platform/${pack.name}/**/*.spec.js`
+  //   "<rootDir>/platform/viewer/**/*.test.js"
+  // ]
+};

extensions/cornerstone/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@ohif/extension-cornerstone",
-  "version": "2.0.0",
+  "version": "2.5.0",
   "description": "OHIF extension for Cornerstone",
   "author": "OHIF",
   "license": "MIT",
@@ -25,16 +25,18 @@
     "build": "cross-env NODE_ENV=production webpack --config .webpack/webpack.prod.js",
     "build:package": "yarn run build",
     "prepublishOnly": "yarn run build",
-    "start": "yarn run dev"
+    "start": "yarn run dev",
+    "test:unit": "jest --watchAll",
+    "test:unit:ci": "jest --ci --runInBand --collectCoverage"
   },
   "peerDependencies": {
     "@ohif/core": "^0.50.0",
     "@ohif/ui": "^0.50.0",
     "cornerstone-core": "^2.2.8",
     "cornerstone-math": "^0.1.8",
-    "cornerstone-tools": "^4.0.9",
+    "cornerstone-tools": "4.12.5",
     "cornerstone-wado-image-loader": "^3.0.0",
-    "dcmjs": "^0.6.1",
+    "dcmjs": "^0.10.1",
     "dicom-parser": "^1.8.3",
     "hammerjs": "^2.0.8",
     "prop-types": "^15.6.2",
@@ -47,7 +49,8 @@
   "dependencies": {
     "@babel/runtime": "^7.5.5",
     "classnames": "^2.2.6",
+    "lodash.merge": "^4.6.2",
     "lodash.throttle": "^4.1.1",
-    "react-cornerstone-viewport": "0.1.30"
+    "react-cornerstone-viewport": "^2.3.6"
   }
 }

extensions/cornerstone/src/ConnectedCornerstoneViewport.js

@@ -2,6 +2,7 @@ import CornerstoneViewport from 'react-cornerstone-viewport';
 import OHIF from '@ohif/core';
 import { connect } from 'react-redux';
 import throttle from 'lodash.throttle';
+import { setEnabledElement } from './state';
 
 const { setViewportActive, setViewportSpecificData } = OHIF.redux.actions;
 const {
@@ -23,36 +24,40 @@ const MEASUREMENT_ACTION_MAP = {
 const mapStateToProps = (state, ownProps) => {
   let dataFromStore;
 
+  // TODO: This may not be updated anymore :thinking:
   if (state.extensions && state.extensions.cornerstone) {
     dataFromStore = state.extensions.cornerstone;
   }
 
-  // TODO: This should be extension configuration
-  // ...dataFromStore -->
-  // availableTools,
-  // onNewImage,
-  // onRightClick,
-  // onTouchPress,
-  // onTouchStart,
-  // onMouseClick,
-
   // If this is the active viewport, enable prefetching.
   const { viewportIndex } = ownProps; //.viewportData;
   const isActive = viewportIndex === state.viewports.activeViewportIndex;
   const viewportSpecificData =
     state.viewports.viewportSpecificData[viewportIndex] || {};
 
+  // CINE
+  let isPlaying = false;
+  let frameRate = 24;
+
+  if (viewportSpecificData && viewportSpecificData.cine) {
+    const cine = viewportSpecificData.cine;
+
+    isPlaying = cine.isPlaying === true;
+    frameRate = cine.cineFrameRate || frameRate;
+  }
+
   return {
-    layout: state.viewports.layout,
+    // layout: state.viewports.layout,
     isActive,
     // TODO: Need a cleaner and more versatile way.
     // Currently justing using escape hatch + commands
     // activeTool: activeButton && activeButton.command,
     ...dataFromStore,
-    enableStackPrefetch: isActive,
+    isStackPrefetchEnabled: isActive,
+    isPlaying,
+    frameRate,
     //stack: viewportSpecificData.stack,
-    cineToolData: viewportSpecificData.cine,
-    viewport: viewportSpecificData.viewport,
+    // viewport: viewportSpecificData.viewport,
   };
 };
 
@@ -76,11 +81,11 @@ const mapDispatchToProps = (dispatch, ownProps) => {
      */
     onElementEnabled: event => {
       const enabledElement = event.detail.element;
+      setEnabledElement(viewportIndex, enabledElement);
       dispatch(
         setViewportSpecificData(viewportIndex, {
           // TODO: Hack to make sure our plugin info is available from the outset
           plugin: 'cornerstone',
-          dom: enabledElement,
         })
       );
     },

extensions/cornerstone/src/CornerstoneViewportDownloadForm.js

@@ -0,0 +1,148 @@
+import React from 'react';
+import cornerstone from 'cornerstone-core';
+import cornerstoneTools from 'cornerstone-tools';
+import PropTypes from 'prop-types';
+
+import { ViewportDownloadForm } from '@ohif/ui';
+import { utils } from '@ohif/core';
+
+import { getEnabledElement } from './state';
+
+const MINIMUM_SIZE = 100;
+const DEFAULT_SIZE = 512;
+const MAX_TEXTURE_SIZE = 10000;
+
+const CornerstoneViewportDownloadForm = ({ onClose, activeViewportIndex }) => {
+  const activeEnabledElement = getEnabledElement(activeViewportIndex);
+
+  const enableViewport = viewportElement => {
+    if (viewportElement) {
+      cornerstone.enable(viewportElement);
+    }
+  };
+
+  const disableViewport = viewportElement => {
+    if (viewportElement) {
+      cornerstone.disable(viewportElement);
+    }
+  };
+
+  const updateViewportPreview = (viewportElement, downloadCanvas, fileType) =>
+    new Promise(resolve => {
+      cornerstone.fitToWindow(viewportElement);
+
+      viewportElement.addEventListener(
+        'cornerstoneimagerendered',
+        function updateViewport(event) {
+          const enabledElement = cornerstone.getEnabledElement(event.target)
+            .element;
+          const type = 'image/' + fileType;
+          const dataUrl = downloadCanvas.toDataURL(type, 1);
+
+          let newWidth = enabledElement.offsetHeight;
+          let newHeight = enabledElement.offsetWidth;
+
+          if (newWidth > DEFAULT_SIZE || newHeight > DEFAULT_SIZE) {
+            const multiplier = DEFAULT_SIZE / Math.max(newWidth, newHeight);
+            newHeight *= multiplier;
+            newWidth *= multiplier;
+          }
+
+          resolve({ dataUrl, width: newWidth, height: newHeight });
+
+          viewportElement.removeEventListener(
+            'cornerstoneimagerendered',
+            updateViewport
+          );
+        }
+      );
+    });
+
+  const loadImage = (activeViewport, viewportElement, width, height) =>
+    new Promise(resolve => {
+      if (activeViewport && viewportElement) {
+        const enabledElement = cornerstone.getEnabledElement(activeViewport);
+        const viewport = Object.assign({}, enabledElement.viewport);
+        delete viewport.scale;
+        viewport.translation = {
+          x: 0,
+          y: 0,
+        };
+
+        cornerstone.loadImage(enabledElement.image.imageId).then(image => {
+          cornerstone.displayImage(viewportElement, image);
+          cornerstone.setViewport(viewportElement, viewport);
+          cornerstone.resize(viewportElement, true);
+
+          const newWidth = Math.min(width || image.width, MAX_TEXTURE_SIZE);
+          const newHeight = Math.min(height || image.height, MAX_TEXTURE_SIZE);
+
+          resolve({ image, width: newWidth, height: newHeight });
+        });
+      }
+    });
+
+  const toggleAnnotations = (toggle, viewportElement) => {
+    cornerstoneTools.store.state.tools.forEach(({ name }) => {
+      if (toggle) {
+        cornerstoneTools.setToolEnabledForElement(viewportElement, name);
+      } else {
+        cornerstoneTools.setToolDisabledForElement(viewportElement, name);
+      }
+    });
+  };
+
+  const downloadBlob = (
+    filename,
+    fileType,
+    viewportElement,
+    downloadCanvas
+  ) => {
+    const file = `${filename}.${fileType}`;
+    const mimetype = `image/${fileType}`;
+
+    /* Handles JPEG images for IE11 */
+    if (downloadCanvas.msToBlob && fileType === 'jpeg') {
+      const image = downloadCanvas.toDataURL(mimetype, 1);
+      const blob = utils.b64toBlob(
+        image.replace('data:image/jpeg;base64,', ''),
+        mimetype
+      );
+      return window.navigator.msSaveBlob(blob, file);
+    }
+
+    viewportElement.querySelector('canvas').toBlob(blob => {
+      const URLObj = window.URL || window.webkitURL;
+      const a = document.createElement('a');
+      a.href = URLObj.createObjectURL(blob);
+      a.download = file;
+      document.body.appendChild(a);
+      a.click();
+      document.body.removeChild(a);
+    });
+  };
+
+  return (
+    <ViewportDownloadForm
+      onClose={onClose}
+      minimumSize={MINIMUM_SIZE}
+      maximumSize={MAX_TEXTURE_SIZE}
+      defaultSize={DEFAULT_SIZE}
+      canvasClass={'cornerstone-canvas'}
+      activeViewport={activeEnabledElement}
+      enableViewport={enableViewport}
+      disableViewport={disableViewport}
+      updateViewportPreview={updateViewportPreview}
+      loadImage={loadImage}
+      toggleAnnotations={toggleAnnotations}
+      downloadBlob={downloadBlob}
+    />
+  );
+};
+
+CornerstoneViewportDownloadForm.propTypes = {
+  onClose: PropTypes.func,
+  activeViewportIndex: PropTypes.number.isRequired,
+};
+
+export default CornerstoneViewportDownloadForm;

extensions/cornerstone/src/OHIFCornerstoneViewport.js

@@ -1,38 +1,19 @@
-import React, { Component } from "react";
+import React, { Component } from 'react';
 
-import ConnectedCornerstoneViewport from "./ConnectedCornerstoneViewport";
-import OHIF from "@ohif/core";
-import PropTypes from "prop-types";
-import cornerstone from "cornerstone-core";
-import handleSegmentationStorage from "./handleSegmentationStorage.js";
+import ConnectedCornerstoneViewport from './ConnectedCornerstoneViewport';
+import OHIF from '@ohif/core';
+import PropTypes from 'prop-types';
+import cornerstone from 'cornerstone-core';
 
 const { StackManager } = OHIF.utils;
 
-// Metadata configuration
-const metadataProvider = new OHIF.cornerstone.MetadataProvider();
-
-cornerstone.metaData.addProvider(
-  metadataProvider.provider.bind(metadataProvider)
-);
-
-StackManager.setMetadataProvider(metadataProvider);
-
-const SOP_CLASSES = {
-  SEGMENTATION_STORAGE: "1.2.840.10008.5.1.4.1.1.66.4"
-};
-
-const specialCaseHandlers = {};
-specialCaseHandlers[
-  SOP_CLASSES.SEGMENTATION_STORAGE
-] = handleSegmentationStorage;
-
 class OHIFCornerstoneViewport extends Component {
   state = {
-    viewportData: null
+    viewportData: null,
   };
 
   static defaultProps = {
-    customProps: {}
+    customProps: {},
   };
 
   static propTypes = {
@@ -40,17 +21,17 @@ class OHIFCornerstoneViewport extends Component {
     displaySet: PropTypes.object,
     viewportIndex: PropTypes.number,
     children: PropTypes.node,
-    customProps: PropTypes.object
+    customProps: PropTypes.object,
   };
 
-  static id = "OHIFCornerstoneViewport";
+  static id = 'OHIFCornerstoneViewport';
 
   static init() {
-    console.log("OHIFCornerstoneViewport init()");
+    console.log('OHIFCornerstoneViewport init()');
   }
 
   static destroy() {
-    console.log("OHIFCornerstoneViewport destroy()");
+    console.log('OHIFCornerstoneViewport destroy()');
     StackManager.clearStacks();
   }
 
@@ -58,46 +39,46 @@ class OHIFCornerstoneViewport extends Component {
    * Obtain the CornerstoneTools Stack for the specified display set.
    *
    * @param {Object[]} studies
-   * @param {String} studyInstanceUid
-   * @param {String} displaySetInstanceUid
-   * @param {String} [sopInstanceUid]
+   * @param {String} StudyInstanceUID
+   * @param {String} displaySetInstanceUID
+   * @param {String} [SOPInstanceUID]
    * @param {Number} [frameIndex=1]
    * @return {Object} CornerstoneTools Stack
    */
   static getCornerstoneStack(
     studies,
-    studyInstanceUid,
-    displaySetInstanceUid,
-    sopInstanceUid,
+    StudyInstanceUID,
+    displaySetInstanceUID,
+    SOPInstanceUID,
     frameIndex = 0
   ) {
     if (!studies || !studies.length) {
-      throw new Error("Studies not provided.");
+      throw new Error('Studies not provided.');
     }
 
-    if (!studyInstanceUid) {
-      throw new Error("StudyInstanceUID not provided.");
+    if (!StudyInstanceUID) {
+      throw new Error('StudyInstanceUID not provided.');
     }
 
-    if (!displaySetInstanceUid) {
-      throw new Error("StudyInstanceUID not provided.");
+    if (!displaySetInstanceUID) {
+      throw new Error('StudyInstanceUID not provided.');
     }
 
     // Create shortcut to displaySet
     const study = studies.find(
-      study => study.studyInstanceUid === studyInstanceUid
+      study => study.StudyInstanceUID === StudyInstanceUID
     );
 
     if (!study) {
-      throw new Error("Study not found.");
+      throw new Error('Study not found.');
     }
 
     const displaySet = study.displaySets.find(set => {
-      return set.displaySetInstanceUid === displaySetInstanceUid;
+      return set.displaySetInstanceUID === displaySetInstanceUID;
     });
 
     if (!displaySet) {
-      throw new Error("Display Set not found.");
+      throw new Error('Display Set not found.');
     }
 
     // Get stack from Stack Manager
@@ -107,24 +88,21 @@ class OHIFCornerstoneViewport extends Component {
     const stack = Object.assign({}, storedStack);
     stack.currentImageIdIndex = frameIndex;
 
-    if (sopInstanceUid) {
+    if (SOPInstanceUID) {
       const index = stack.imageIds.findIndex(imageId => {
-        const sopCommonModule = cornerstone.metaData.get(
-          "sopCommonModule",
+        const imageIdSOPInstanceUID = cornerstone.metaData.get(
+          'SOPInstanceUID',
           imageId
         );
-        if (!sopCommonModule) {
-          return;
-        }
 
-        return sopCommonModule.sopInstanceUID === sopInstanceUid;
+        return imageIdSOPInstanceUID === SOPInstanceUID;
       });
 
       if (index > -1) {
         stack.currentImageIdIndex = index;
       } else {
         console.warn(
-          "SOPInstanceUID provided was not found in specified DisplaySet"
+          'SOPInstanceUID provided was not found in specified DisplaySet'
         );
       }
     }
@@ -132,62 +110,28 @@ class OHIFCornerstoneViewport extends Component {
     return stack;
   }
 
-  static getViewportData = (
-    studies,
-    studyInstanceUid,
-    displaySetInstanceUid,
-    sopInstanceUid,
-    frameIndex
-  ) => {
-    return OHIFCornerstoneViewport.getCornerstoneStack(
-      studies,
-      studyInstanceUid,
-      displaySetInstanceUid,
-      sopInstanceUid,
-      frameIndex
-    );
-  };
-
   getViewportData = async (
     studies,
-    studyInstanceUid,
-    displaySetInstanceUid,
-    sopClassUid,
-    sopInstanceUid,
+    StudyInstanceUID,
+    displaySetInstanceUID,
+    SOPInstanceUID,
     frameIndex
   ) => {
     let viewportData;
 
-    switch (sopClassUid) {
-      case SOP_CLASSES.SEGMENTATION_STORAGE:
-        const specialCaseHandler =
-          specialCaseHandlers[SOP_CLASSES.SEGMENTATION_STORAGE];
+    const stack = OHIFCornerstoneViewport.getCornerstoneStack(
+      studies,
+      StudyInstanceUID,
+      displaySetInstanceUID,
+      SOPInstanceUID,
+      frameIndex
+    );
 
-        viewportData = await specialCaseHandler(
-          studies,
-          studyInstanceUid,
-          displaySetInstanceUid,
-          sopInstanceUid,
-          frameIndex
-        );
-        break;
-      default:
-        const stack = OHIFCornerstoneViewport.getViewportData(
-          studies,
-          studyInstanceUid,
-          displaySetInstanceUid,
-          sopInstanceUid,
-          frameIndex
-        );
-
-        viewportData = {
-          studyInstanceUid,
-          displaySetInstanceUid,
-          stack
-        };
-
-        break;
-    }
+    viewportData = {
+      StudyInstanceUID,
+      displaySetInstanceUID,
+      stack,
+    };
 
     return viewportData;
   };
@@ -195,35 +139,32 @@ class OHIFCornerstoneViewport extends Component {
   setStateFromProps() {
     const { studies, displaySet } = this.props.viewportData;
     const {
-      studyInstanceUid,
-      displaySetInstanceUid,
-      sopClassUids,
-      sopInstanceUid,
-      frameIndex
+      StudyInstanceUID,
+      displaySetInstanceUID,
+      sopClassUIDs,
+      SOPInstanceUID,
+      frameIndex,
     } = displaySet;
 
-    if (!studyInstanceUid || !displaySetInstanceUid) {
+    if (!StudyInstanceUID || !displaySetInstanceUID) {
       return;
     }
 
-    if (sopClassUids && sopClassUids.length > 1) {
+    if (sopClassUIDs && sopClassUIDs.length > 1) {
       console.warn(
-        "More than one SOPClassUid in the same series is not yet supported."
+        'More than one SOPClassUID in the same series is not yet supported.'
       );
     }
 
-    const sopClassUid = sopClassUids && sopClassUids[0];
-
     this.getViewportData(
       studies,
-      studyInstanceUid,
-      displaySetInstanceUid,
-      sopClassUid,
-      sopInstanceUid,
+      StudyInstanceUID,
+      displaySetInstanceUID,
+      SOPInstanceUID,
       frameIndex
     ).then(viewportData => {
       this.setState({
-        viewportData
+        viewportData,
       });
     });
   }
@@ -233,13 +174,13 @@ class OHIFCornerstoneViewport extends Component {
   }
 
   componentDidUpdate(prevProps) {
-    const { studies, displaySet } = this.props.viewportData;
+    const { displaySet } = this.props.viewportData;
     const prevDisplaySet = prevProps.viewportData.displaySet;
 
     if (
-      displaySet.displaySetInstanceUid !==
-        prevDisplaySet.displaySetInstanceUid ||
-      displaySet.sopInstanceUid !== prevDisplaySet.sopInstanceUid ||
+      displaySet.displaySetInstanceUID !==
+        prevDisplaySet.displaySetInstanceUID ||
+      displaySet.SOPInstanceUID !== prevDisplaySet.SOPInstanceUID ||
       displaySet.frameIndex !== prevDisplaySet.frameIndex
     ) {
       this.setStateFromProps();
@@ -249,25 +190,45 @@ class OHIFCornerstoneViewport extends Component {
   render() {
     let childrenWithProps = null;
 
+    if (!this.state.viewportData) {
+      return null;
+    }
+    const { viewportIndex } = this.props;
+    const {
+      imageIds,
+      currentImageIdIndex,
+      // If this comes from the instance, would be a better default
+      // `FrameTime` in the instance
+      // frameRate = 0,
+    } = this.state.viewportData.stack;
+
     // TODO: Does it make more sense to use Context?
     if (this.props.children && this.props.children.length) {
       childrenWithProps = this.props.children.map((child, index) => {
-        return React.cloneElement(child, {
-          viewportIndex: this.props.viewportIndex,
-          key: index
-        });
+        return (
+          child &&
+          React.cloneElement(child, {
+            viewportIndex: this.props.viewportIndex,
+            key: index,
+          })
+        );
       });
     }
 
     return (
       <>
-        {this.state.viewportData && (
-          <ConnectedCornerstoneViewport
-            viewportData={this.state.viewportData}
-            viewportIndex={this.props.viewportIndex}
-            {...this.props.customProps}
-          />
-        )}
+        <ConnectedCornerstoneViewport
+          viewportIndex={viewportIndex}
+          imageIds={imageIds}
+          imageIdIndex={currentImageIdIndex}
+          // ~~ Connected (From REDUX)
+          // frameRate={frameRate}
+          // isPlaying={false}
+          // isStackPrefetchEnabled={true}
+          // onElementEnabled={() => {}}
+          // setViewportActive{() => {}}
+          {...this.props.customProps}
+        />
         {childrenWithProps}
       </>
     );

extensions/cornerstone/src/commandsModule.js

@@ -1,261 +1,377 @@
 import cornerstone from 'cornerstone-core';
 import cornerstoneTools from 'cornerstone-tools';
 import OHIF from '@ohif/core';
+
+import setCornerstoneLayout from './utils/setCornerstoneLayout.js';
+import { getEnabledElement } from './state';
+import CornerstoneViewportDownloadForm from './CornerstoneViewportDownloadForm';
 const scroll = cornerstoneTools.import('util/scroll');
 
-const actions = {
-  rotateViewport: ({ viewports, rotation }) => {
-    const enabledElement = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
+const commandsModule = ({ servicesManager }) => {
+  const actions = {
+    rotateViewport: ({ viewports, rotation }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
 
-    if (enabledElement) {
-      let viewport = cornerstone.getViewport(enabledElement);
-      viewport.rotation += rotation;
-      cornerstone.setViewport(enabledElement, viewport);
-    }
-  },
-  flipViewportHorizontal: ({ viewports }) => {
-    const enabledElement = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
-
-    if (enabledElement) {
-      let viewport = cornerstone.getViewport(enabledElement);
-      viewport.hflip = !viewport.hflip;
-      cornerstone.setViewport(enabledElement, viewport);
-    }
-  },
-  flipViewportVertical: ({ viewports }) => {
-    const enabledElement = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
-
-    if (enabledElement) {
-      let viewport = cornerstone.getViewport(enabledElement);
-      viewport.vflip = !viewport.vflip;
-      cornerstone.setViewport(enabledElement, viewport);
-    }
-  },
-  scaleViewport: ({ viewports, direction }) => {
-    const enabledElement = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
-    const step = direction * 0.15;
-
-    if (enabledElement) {
-      if (step) {
+      if (enabledElement) {
         let viewport = cornerstone.getViewport(enabledElement);
-        viewport.scale += step;
+        viewport.rotation += rotation;
         cornerstone.setViewport(enabledElement, viewport);
-      } else {
-        cornerstone.fitToWindow(enabledElement);
       }
-    }
-  },
-  resetViewport: ({ viewports }) => {
-    const enabledElement = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
+    },
+    flipViewportHorizontal: ({ viewports }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
 
-    if (enabledElement) {
-      cornerstone.reset(enabledElement);
-    }
-  },
-  invertViewport: ({ viewports }) => {
-    const enabledElement = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
+      if (enabledElement) {
+        let viewport = cornerstone.getViewport(enabledElement);
+        viewport.hflip = !viewport.hflip;
+        cornerstone.setViewport(enabledElement, viewport);
+      }
+    },
+    flipViewportVertical: ({ viewports }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
 
-    if (enabledElement) {
-      let viewport = cornerstone.getViewport(enabledElement);
-      viewport.invert = !viewport.invert;
-      cornerstone.setViewport(enabledElement, viewport);
-    }
-  },
-  // TODO: this is receiving `evt` from `ToolbarRow`. We could use it to have
-  //       better mouseButtonMask sets.
-  setToolActive: ({ toolName }) => {
-    if (!toolName) {
-      console.warn('No toolname provided to setToolActive command');
-    }
-    cornerstoneTools.setToolActive(toolName, { mouseButtonMask: 1 });
-  },
-  updateViewportDisplaySet: ({ direction }) => {
-    // TODO
-    console.warn('updateDisplaySet: ', direction);
-  },
-  clearAnnotations: ({ viewports }) => {
-    const element = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
-    if (!element) {
-      return;
-    }
+      if (enabledElement) {
+        let viewport = cornerstone.getViewport(enabledElement);
+        viewport.vflip = !viewport.vflip;
+        cornerstone.setViewport(enabledElement, viewport);
+      }
+    },
+    scaleViewport: ({ direction, viewports }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
+      const step = direction * 0.15;
 
-    const enabledElement = cornerstone.getEnabledElement(element);
-    if (!enabledElement || !enabledElement.image) {
-      return;
-    }
+      if (enabledElement) {
+        if (step) {
+          let viewport = cornerstone.getViewport(enabledElement);
+          viewport.scale += step;
+          cornerstone.setViewport(enabledElement, viewport);
+        } else {
+          cornerstone.fitToWindow(enabledElement);
+        }
+      }
+    },
+    resetViewport: ({ viewports }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
 
-    const {
-      toolState,
-    } = cornerstoneTools.globalImageIdSpecificToolStateManager;
-    if (
-      !toolState ||
-      toolState.hasOwnProperty(enabledElement.image.imageId) === false
-    ) {
-      return;
-    }
+      if (enabledElement) {
+        cornerstone.reset(enabledElement);
+      }
+    },
+    invertViewport: ({ viewports }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
 
-    const imageIdToolState = toolState[enabledElement.image.imageId];
+      if (enabledElement) {
+        let viewport = cornerstone.getViewport(enabledElement);
+        viewport.invert = !viewport.invert;
+        cornerstone.setViewport(enabledElement, viewport);
+      }
+    },
+    // TODO: this is receiving `evt` from `ToolbarRow`. We could use it to have
+    //       better mouseButtonMask sets.
+    setToolActive: ({ toolName }) => {
+      if (!toolName) {
+        console.warn('No toolname provided to setToolActive command');
+      }
+      cornerstoneTools.setToolActive(toolName, { mouseButtonMask: 1 });
+    },
+    clearAnnotations: ({ viewports }) => {
+      const element = getEnabledElement(viewports.activeViewportIndex);
+      if (!element) {
+        return;
+      }
 
-    const measurementsToRemove = [];
+      const enabledElement = cornerstone.getEnabledElement(element);
+      if (!enabledElement || !enabledElement.image) {
+        return;
+      }
 
-    Object.keys(imageIdToolState).forEach(toolType => {
-      const { data } = imageIdToolState[toolType];
+      const {
+        toolState,
+      } = cornerstoneTools.globalImageIdSpecificToolStateManager;
+      if (
+        !toolState ||
+        toolState.hasOwnProperty(enabledElement.image.imageId) === false
+      ) {
+        return;
+      }
 
-      data.forEach(measurementData => {
-        const { _id, lesionNamingNumber, measurementNumber } = measurementData;
-        if (!_id) {
+      const imageIdToolState = toolState[enabledElement.image.imageId];
+
+      const measurementsToRemove = [];
+
+      Object.keys(imageIdToolState).forEach(toolType => {
+        const { data } = imageIdToolState[toolType];
+
+        data.forEach(measurementData => {
+          const {
+            _id,
+            lesionNamingNumber,
+            measurementNumber,
+          } = measurementData;
+          if (!_id) {
+            return;
+          }
+
+          measurementsToRemove.push({
+            toolType,
+            _id,
+            lesionNamingNumber,
+            measurementNumber,
+          });
+        });
+      });
+
+      measurementsToRemove.forEach(measurementData => {
+        OHIF.measurements.MeasurementHandlers.onRemoved({
+          detail: {
+            toolType: measurementData.toolType,
+            measurementData,
+          },
+        });
+      });
+    },
+    nextImage: ({ viewports }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
+      scroll(enabledElement, 1);
+    },
+    previousImage: ({ viewports }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
+      scroll(enabledElement, -1);
+    },
+    getActiveViewportEnabledElement: ({ viewports }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
+      return enabledElement;
+    },
+    showDownloadViewportModal: ({ title, viewports }) => {
+      const activeViewportIndex = viewports.activeViewportIndex;
+      const { UIModalService } = servicesManager.services;
+      if (UIModalService) {
+        UIModalService.show({
+          content: CornerstoneViewportDownloadForm,
+          title,
+          contentProps: {
+            activeViewportIndex,
+            onClose: UIModalService.hide,
+          },
+        });
+      }
+    },
+    updateTableWithNewMeasurementData({
+      toolType,
+      measurementNumber,
+      location,
+      description,
+    }) {
+      // Update all measurements by measurement number
+      const measurementApi = OHIF.measurements.MeasurementApi.Instance;
+      const measurements = measurementApi.tools[toolType].filter(
+        m => m.measurementNumber === measurementNumber
+      );
+
+      measurements.forEach(measurement => {
+        measurement.location = location;
+        measurement.description = description;
+
+        measurementApi.updateMeasurement(measurement.toolType, measurement);
+      });
+
+      measurementApi.syncMeasurementsAndToolData();
+
+      // Update images in all active viewports
+      cornerstone.getEnabledElements().forEach(enabledElement => {
+        cornerstone.updateImage(enabledElement.element);
+      });
+    },
+    getNearbyToolData({ element, canvasCoordinates, availableToolTypes }) {
+      const nearbyTool = {};
+      let pointNearTool = false;
+
+      availableToolTypes.forEach(toolType => {
+        const elementToolData = cornerstoneTools.getToolState(
+          element,
+          toolType
+        );
+
+        if (!elementToolData) {
           return;
         }
 
-        measurementsToRemove.push({
-          toolType,
-          _id,
-          lesionNamingNumber,
-          measurementNumber,
+        elementToolData.data.forEach((toolData, index) => {
+          let elementToolInstance = cornerstoneTools.getToolForElement(
+            element,
+            toolType
+          );
+
+          if (!elementToolInstance) {
+            elementToolInstance = cornerstoneTools.getToolForElement(
+              element,
+              `${toolType}Tool`
+            );
+          }
+
+          if (!elementToolInstance) {
+            console.warn('Tool not found.');
+            return undefined;
+          }
+
+          if (
+            elementToolInstance.pointNearTool(
+              element,
+              toolData,
+              canvasCoordinates
+            )
+          ) {
+            pointNearTool = true;
+            nearbyTool.tool = toolData;
+            nearbyTool.index = index;
+            nearbyTool.toolType = toolType;
+          }
         });
+
+        if (pointNearTool) {
+          return false;
+        }
       });
-    });
 
-    measurementsToRemove.forEach(measurementData => {
-      OHIF.measurements.MeasurementHandlers.onRemoved({
-        detail: {
-          toolType: measurementData.toolType,
-          measurementData,
-        },
-      });
-    });
-  },
-  nextImage: ({ viewports }) => {
-    const enabledElement = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
+      return pointNearTool ? nearbyTool : undefined;
+    },
+    removeToolState: ({ element, toolType, tool }) => {
+      cornerstoneTools.removeToolState(element, toolType, tool);
+      cornerstone.updateImage(element);
+    },
+    setCornerstoneLayout: () => {
+      setCornerstoneLayout();
+    },
+    setWindowLevel: ({ viewports, window, level }) => {
+      const enabledElement = getEnabledElement(viewports.activeViewportIndex);
 
-    scroll(enabledElement, 1);
-  },
-  previousImage: ({ viewports }) => {
-    const enabledElement = _getActiveViewportEnabledElement(
-      viewports.viewportSpecificData,
-      viewports.activeViewportIndex
-    );
+      if (enabledElement) {
+        let viewport = cornerstone.getViewport(enabledElement);
 
-    scroll(enabledElement, -1);
-  },
+        viewport.voi = {
+          windowWidth: Number(window),
+          windowCenter: Number(level),
+        };
+        cornerstone.setViewport(enabledElement, viewport);
+      }
+    },
+  };
+
+  const definitions = {
+    getNearbyToolData: {
+      commandFn: actions.getNearbyToolData,
+      storeContexts: [],
+      options: {},
+    },
+    removeToolState: {
+      commandFn: actions.removeToolState,
+      storeContexts: [],
+      options: {},
+    },
+    updateTableWithNewMeasurementData: {
+      commandFn: actions.updateTableWithNewMeasurementData,
+      storeContexts: [],
+      options: {},
+    },
+    showDownloadViewportModal: {
+      commandFn: actions.showDownloadViewportModal,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    getActiveViewportEnabledElement: {
+      commandFn: actions.getActiveViewportEnabledElement,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    rotateViewportCW: {
+      commandFn: actions.rotateViewport,
+      storeContexts: ['viewports'],
+      options: { rotation: 90 },
+    },
+    rotateViewportCCW: {
+      commandFn: actions.rotateViewport,
+      storeContexts: ['viewports'],
+      options: { rotation: -90 },
+    },
+    invertViewport: {
+      commandFn: actions.invertViewport,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    flipViewportVertical: {
+      commandFn: actions.flipViewportVertical,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    flipViewportHorizontal: {
+      commandFn: actions.flipViewportHorizontal,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    scaleUpViewport: {
+      commandFn: actions.scaleViewport,
+      storeContexts: ['viewports'],
+      options: { direction: 1 },
+    },
+    scaleDownViewport: {
+      commandFn: actions.scaleViewport,
+      storeContexts: ['viewports'],
+      options: { direction: -1 },
+    },
+    fitViewportToWindow: {
+      commandFn: actions.scaleViewport,
+      storeContexts: ['viewports'],
+      options: { direction: 0 },
+    },
+    resetViewport: {
+      commandFn: actions.resetViewport,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    clearAnnotations: {
+      commandFn: actions.clearAnnotations,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    nextImage: {
+      commandFn: actions.nextImage,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    previousImage: {
+      commandFn: actions.previousImage,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+    // TOOLS
+    setToolActive: {
+      commandFn: actions.setToolActive,
+      storeContexts: [],
+      options: {},
+    },
+    setZoomTool: {
+      commandFn: actions.setToolActive,
+      storeContexts: [],
+      options: { toolName: 'Zoom' },
+    },
+    setCornerstoneLayout: {
+      commandFn: actions.setCornerstoneLayout,
+      storeContexts: [],
+      options: {},
+      context: 'VIEWER',
+    },
+    setWindowLevel: {
+      commandFn: actions.setWindowLevel,
+      storeContexts: ['viewports'],
+      options: {},
+    },
+  };
+
+  return {
+    actions,
+    definitions,
+    defaultContext: 'ACTIVE_VIEWPORT::CORNERSTONE',
+  };
 };
 
-const definitions = {
-  rotateViewportCW: {
-    commandFn: actions.rotateViewport,
-    storeContexts: ['viewports'],
-    options: { rotation: 90 },
-  },
-  rotateViewportCCW: {
-    commandFn: actions.rotateViewport,
-    storeContexts: ['viewports'],
-    options: { rotation: -90 },
-  },
-  invertViewport: {
-    commandFn: actions.invertViewport,
-    storeContexts: ['viewports'],
-    options: {},
-  },
-  flipViewportVertical: {
-    commandFn: actions.flipViewportVertical,
-    storeContexts: ['viewports'],
-    options: {},
-  },
-  flipViewportHorizontal: {
-    commandFn: actions.flipViewportHorizontal,
-    storeContexts: ['viewports'],
-    options: {},
-  },
-  scaleUpViewport: {
-    commandFn: actions.scaleViewport,
-    storeContexts: ['viewports'],
-    options: { direction: 1 },
-  },
-  scaleDownViewport: {
-    commandFn: actions.scaleViewport,
-    storeContexts: ['viewports'],
-    options: { direction: -1 },
-  },
-  fitViewportToWindow: {
-    commandFn: actions.scaleViewport,
-    storeContexts: ['viewports'],
-    options: { direction: 0 },
-  },
-  resetViewport: {
-    commandFn: actions.resetViewport,
-    storeContexts: ['viewports'],
-    options: {},
-  },
-  clearAnnotations: {
-    commandFn: actions.clearAnnotations,
-    storeContexts: ['viewports'],
-    options: {},
-  },
-  nextImage: {
-    commandFn: actions.nextImage,
-    storeContexts: ['viewports'],
-    options: {},
-  },
-  previousImage: {
-    commandFn: actions.previousImage,
-    storeContexts: ['viewports'],
-    options: {},
-  },
-  // TODO: First/Last image
-  // Next/Previous series/DisplaySet
-  nextViewportDisplaySet: {
-    commandFn: actions.updateViewportDisplaySet,
-    storeContexts: [],
-    options: { direction: 1 },
-  },
-  previousViewportDisplaySet: {
-    commandFn: actions.updateViewportDisplaySet,
-    storeContexts: [],
-    options: { direction: -1 },
-  },
-  // TOOLS
-  setToolActive: {
-    commandFn: actions.setToolActive,
-    storeContexts: [],
-    options: {},
-  },
-};
-
-/**
- * Grabs `dom` reference for the enabledElement of
- * the active viewport
- */
-function _getActiveViewportEnabledElement(viewports, activeIndex) {
-  const activeViewport = viewports[activeIndex] || {};
-  return activeViewport.dom;
-}
-
-export default {
-  actions,
-  definitions,
-  defaultContext: 'ACTIVE_VIEWPORT::CORNERSTONE',
-};
+export default commandsModule;

extensions/cornerstone/src/handleSegmentationStorage.js

@@ -1,128 +0,0 @@
-import * as dcmjs from 'dcmjs';
-
-import OHIF from '@ohif/core';
-import cornerstone from 'cornerstone-core';
-import cornerstoneTools from 'cornerstone-tools';
-
-const { StackManager, DicomLoaderService } = OHIF.utils;
-
-function getDisplaySet(studies, studyInstanceUid, displaySetInstanceUid) {
-  const study = studies.find(
-    study => study.studyInstanceUid === studyInstanceUid
-  );
-
-  const displaySet = study.displaySets.find(set => {
-    return set.displaySetInstanceUid === displaySetInstanceUid;
-  });
-
-  return displaySet;
-}
-
-function getDisplaySetsBySeries(studies, studyInstanceUid, seriesInstanceUid) {
-  const study = studies.find(
-    study => study.studyInstanceUid === studyInstanceUid
-  );
-
-  return study.displaySets.filter(set => {
-    return set.seriesInstanceUid === seriesInstanceUid;
-  });
-}
-
-function parseSeg(arrayBuffer, imageIds) {
-  return dcmjs.adapters.Cornerstone.Segmentation.generateToolState(
-    imageIds,
-    arrayBuffer,
-    cornerstone.metaData
-  );
-}
-
-function addSegMetadataToCornerstoneToolState(
-  segMetadata,
-  toolState,
-  displaySetInstanceUid
-) {
-  cornerstoneTools.globalImageIdSpecificToolStateManager.restoreToolState(
-    toolState
-  );
-
-  const brushModule = cornerstoneTools.store.modules.brush;
-
-  for (let i = 0; i < segMetadata.length; i++) {
-    brushModule.setters.metadata(displaySetInstanceUid, i, segMetadata[i]);
-  }
-}
-
-async function handleSegmentationStorage(
-  studies,
-  studyInstanceUid,
-  displaySetInstanceUid
-) {
-  const study = studies.find(
-    study => study.studyInstanceUid === studyInstanceUid
-  );
-  const displaySet = getDisplaySet(
-    studies,
-    studyInstanceUid,
-    displaySetInstanceUid
-  );
-
-  const arrayBuffer = await DicomLoaderService.findDicomDataPromise(
-    displaySet,
-    studies
-  );
-  const dicomData = dcmjs.data.DicomMessage.readFile(arrayBuffer);
-  const dataset = dcmjs.data.DicomMetaDictionary.naturalizeDataset(
-    dicomData.dict
-  );
-
-  dataset._meta = dcmjs.data.DicomMetaDictionary.namifyDataset(dicomData.meta);
-
-  const seriesInstanceUid = dataset.ReferencedSeriesSequence.SeriesInstanceUID;
-  const displaySets = getDisplaySetsBySeries(
-    studies,
-    studyInstanceUid,
-    seriesInstanceUid
-  );
-
-  if (displaySets.length > 1) {
-    console.warn(
-      'More than one display set with the same seriesInstanceUid. This is not supported yet...'
-    );
-  }
-
-  const referenceDisplaySet = displaySets[0];
-  const imageIds = referenceDisplaySet.images.map(image => image.getImageId());
-  const results = parseSeg(arrayBuffer, imageIds);
-
-  if (!results) {
-    throw new Error('Fractional segmentations are not supported');
-  }
-
-  const { labelmapBuffer, segMetadata, segmentsOnFrame } = results;
-  const { setters } = cornerstoneTools.getModule('segmentation');
-
-  setters.labelmap3DByFirstImageId(
-    imageIds[0],
-    labelmapBuffer,
-    0, // TODO -> Can define a color LUT based on colors in the SEG later.
-    segMetadata,
-    imageIds.length,
-    segmentsOnFrame
-  );
-
-  const cachedStack = StackManager.findOrCreateStack(
-    study,
-    referenceDisplaySet
-  );
-  const stack = Object.assign({}, cachedStack);
-
-  stack.currentImageIdIndex = 0;
-
-  return {
-    studyInstanceUid,
-    displaySetInstanceUid,
-    stack,
-  };
-}
-
-export default handleSegmentationStorage;

extensions/cornerstone/src/index.js

@@ -1,8 +1,14 @@
+import init from './init.js';
 import asyncComponent from './asyncComponent.js';
 import commandsModule from './commandsModule.js';
 import toolbarModule from './toolbarModule.js';
+import CornerstoneViewportDownloadForm from './CornerstoneViewportDownloadForm';
 
-const OHIFCornerstoneViewport = asyncComponent(() => import( /* webpackChunkName: "OHIFCornerstoneViewport" */ './OHIFCornerstoneViewport.js'));
+const OHIFCornerstoneViewport = asyncComponent(() =>
+  import(
+    /* webpackChunkName: "OHIFCornerstoneViewport" */ './OHIFCornerstoneViewport.js'
+  )
+);
 
 /**
  *
@@ -13,13 +19,24 @@ export default {
    */
   id: 'cornerstone',
 
+  /**
+   *
+   *
+   * @param {object} [configuration={}]
+   * @param {object|array} [configuration.csToolsConfig] - Passed directly to `initCornerstoneTools`
+   */
+  preRegistration({ servicesManager, configuration = {} }) {
+    init({ servicesManager, configuration });
+  },
   getViewportModule() {
     return OHIFCornerstoneViewport;
   },
   getToolbarModule() {
     return toolbarModule;
   },
-  getCommandsModule() {
-    return commandsModule;
+  getCommandsModule({ servicesManager }) {
+    return commandsModule({ servicesManager });
   },
 };
+
+export { CornerstoneViewportDownloadForm };

extensions/cornerstone/src/init.js

@@ -0,0 +1,276 @@
+import OHIF from '@ohif/core';
+import { SimpleDialog } from '@ohif/ui';
+import cornerstone from 'cornerstone-core';
+import csTools from 'cornerstone-tools';
+import merge from 'lodash.merge';
+import initCornerstoneTools from './initCornerstoneTools.js';
+import measurementServiceMappingsFactory from './utils/measurementServiceMappings/measurementServiceMappingsFactory';
+
+/**
+ *
+ * @param {Object} servicesManager
+ * @param {Object} configuration
+ * @param {Object|Array} configuration.csToolsConfig
+ */
+export default function init({ servicesManager, configuration }) {
+  const { UIDialogService, MeasurementService } = servicesManager.services;
+
+  const callInputDialog = (data, event, callback) => {
+    if (UIDialogService) {
+      let dialogId = UIDialogService.create({
+        centralize: true,
+        isDraggable: false,
+        content: SimpleDialog.InputDialog,
+        useLastPosition: false,
+        showOverlay: true,
+        contentProps: {
+          title: 'Enter your annotation',
+          label: 'New label',
+          measurementData: data ? { description: data.text } : {},
+          onClose: () => UIDialogService.dismiss({ id: dialogId }),
+          onSubmit: value => {
+            callback(value);
+            UIDialogService.dismiss({ id: dialogId });
+          },
+        },
+      });
+    }
+  };
+
+  const { csToolsConfig } = configuration;
+  const metadataProvider = OHIF.cornerstone.metadataProvider;
+
+  cornerstone.metaData.addProvider(
+    metadataProvider.get.bind(metadataProvider),
+    9999
+  );
+
+  // ~~
+  const defaultCsToolsConfig = csToolsConfig || {
+    globalToolSyncEnabled: true,
+    showSVGCursors: true,
+    autoResizeViewports: false,
+  };
+
+  initCornerstoneTools(defaultCsToolsConfig);
+
+  const toolsGroupedByType = {
+    touch: [csTools.PanMultiTouchTool, csTools.ZoomTouchPinchTool],
+    annotations: [
+      csTools.ArrowAnnotateTool,
+      csTools.BidirectionalTool,
+      csTools.LengthTool,
+      csTools.AngleTool,
+      csTools.FreehandRoiTool,
+      csTools.EllipticalRoiTool,
+      csTools.DragProbeTool,
+      csTools.RectangleRoiTool,
+    ],
+    other: [
+      csTools.PanTool,
+      csTools.ZoomTool,
+      csTools.WwwcTool,
+      csTools.WwwcRegionTool,
+      csTools.MagnifyTool,
+      csTools.StackScrollTool,
+      csTools.StackScrollMouseWheelTool,
+      csTools.OverlayTool,
+    ],
+  };
+
+  let tools = [];
+  Object.keys(toolsGroupedByType).forEach(toolsGroup =>
+    tools.push(...toolsGroupedByType[toolsGroup])
+  );
+
+  /* Measurement Service */
+  _connectToolsToMeasurementService(MeasurementService);
+
+  /* Add extension tools configuration here. */
+  const internalToolsConfig = {
+    ArrowAnnotate: {
+      configuration: {
+        getTextCallback: (callback, eventDetails) =>
+          callInputDialog(null, eventDetails, callback),
+        changeTextCallback: (data, eventDetails, callback) =>
+          callInputDialog(data, eventDetails, callback),
+      },
+    },
+  };
+
+  /* Abstract tools configuration using extension configuration. */
+  const parseToolProps = (props, tool) => {
+    const { annotations } = toolsGroupedByType;
+    // An alternative approach would be to remove the `drawHandlesOnHover` config
+    // from the supported configuration properties in `cornerstone-tools`
+    const toolsWithHideableHandles = annotations.filter(
+      tool => !['RectangleRoiTool', 'EllipticalRoiTool'].includes(tool.name)
+    );
+
+    let parsedProps = { ...props };
+
+    /**
+     * drawHandles - Never/Always show handles
+     * drawHandlesOnHover - Only show handles on handle hover (pointNearHandle)
+     *
+     * Does not apply to tools where handles aren't placed in predictable
+     * locations.
+     */
+    if (
+      configuration.hideHandles !== false &&
+      toolsWithHideableHandles.includes(tool)
+    ) {
+      if (props.configuration) {
+        parsedProps.configuration.drawHandlesOnHover = true;
+      } else {
+        parsedProps.configuration = { drawHandlesOnHover: true };
+      }
+    }
+
+    return parsedProps;
+  };
+
+  /* Add tools with its custom props through extension configuration. */
+  tools.forEach(tool => {
+    const toolName = tool.name.replace('Tool', '');
+    const externalToolsConfig = configuration.tools || {};
+    const externalToolProps = externalToolsConfig[toolName] || {};
+    const internalToolProps = internalToolsConfig[toolName] || {};
+    const props = merge(
+      internalToolProps,
+      parseToolProps(externalToolProps, tool)
+    );
+    csTools.addTool(tool, props);
+  });
+
+  // TODO -> We need a better way to do this with maybe global tool state setting all tools passive.
+  const BaseAnnotationTool = csTools.importInternal('base/BaseAnnotationTool');
+  tools.forEach(tool => {
+    if (tool.prototype instanceof BaseAnnotationTool) {
+      // BaseAnnotationTool would likely come from csTools lib exports
+      const toolName = new tool().name;
+      csTools.setToolPassive(toolName); // there may be a better place to determine name; may not be on uninstantiated class
+    }
+  });
+
+  csTools.setToolActive('Pan', { mouseButtonMask: 4 });
+  csTools.setToolActive('Zoom', { mouseButtonMask: 2 });
+  csTools.setToolActive('Wwwc', { mouseButtonMask: 1 });
+  csTools.setToolActive('StackScrollMouseWheel', {}); // TODO: Empty options should not be required
+  csTools.setToolActive('PanMultiTouch', { pointers: 2 }); // TODO: Better error if no options
+  csTools.setToolActive('ZoomTouchPinch', {});
+  csTools.setToolEnabled('Overlay', {});
+}
+
+const _initMeasurementService = measurementService => {
+  /* Initialization */
+  const { toAnnotation, toMeasurement } = measurementServiceMappingsFactory(
+    measurementService
+  );
+  const csToolsVer4MeasurementSource = measurementService.createSource(
+    'CornerstoneTools',
+    '4'
+  );
+
+  /* Matching Criterias */
+  const matchingCriteria = {
+    valueType: measurementService.VALUE_TYPES.POLYLINE,
+    points: 2,
+  };
+
+  /* Mappings */
+  measurementService.addMapping(
+    csToolsVer4MeasurementSource,
+    'Length',
+    matchingCriteria,
+    toAnnotation,
+    toMeasurement
+  );
+
+  return csToolsVer4MeasurementSource;
+};
+
+const _connectToolsToMeasurementService = measurementService => {
+  const csToolsVer4MeasurementSource = _initMeasurementService(
+    measurementService
+  );
+  const {
+    id: sourceId,
+    addOrUpdate,
+    getAnnotation,
+  } = csToolsVer4MeasurementSource;
+
+  /* Measurement Service Events */
+  cornerstone.events.addEventListener(
+    cornerstone.EVENTS.ELEMENT_ENABLED,
+    event => {
+      const {
+        MEASUREMENT_ADDED,
+        MEASUREMENT_UPDATED,
+      } = measurementService.EVENTS;
+
+      measurementService.subscribe(
+        MEASUREMENT_ADDED,
+        ({ source, measurement }) => {
+          if (![sourceId].includes(source.id)) {
+            const annotation = getAnnotation('Length', measurement.id);
+
+            console.log(
+              'Measurement Service [Cornerstone]: Measurement added',
+              measurement
+            );
+            console.log('Mapped annotation:', annotation);
+          }
+        }
+      );
+
+      measurementService.subscribe(
+        MEASUREMENT_UPDATED,
+        ({ source, measurement }) => {
+          if (![sourceId].includes(source.id)) {
+            const annotation = getAnnotation('Length', measurement.id);
+
+            console.log(
+              'Measurement Service [Cornerstone]: Measurement updated',
+              measurement
+            );
+            console.log('Mapped annotation:', annotation);
+          }
+        }
+      );
+
+      const addOrUpdateMeasurement = csToolsAnnotation => {
+        try {
+          const { toolName, toolType, measurementData } = csToolsAnnotation;
+          const csTool = toolName || measurementData.toolType || toolType;
+          csToolsAnnotation.id = measurementData._measurementServiceId;
+          const measurementServiceId = addOrUpdate(csTool, csToolsAnnotation);
+
+          if (!measurementData._measurementServiceId) {
+            addMeasurementServiceId(measurementServiceId, csToolsAnnotation);
+          }
+        } catch (error) {
+          console.warn('Failed to add or update measurement:', error);
+        }
+      };
+
+      const addMeasurementServiceId = (id, csToolsAnnotation) => {
+        const { measurementData } = csToolsAnnotation;
+        Object.assign(measurementData, { _measurementServiceId: id });
+      };
+
+      [
+        csTools.EVENTS.MEASUREMENT_ADDED,
+        csTools.EVENTS.MEASUREMENT_MODIFIED,
+      ].forEach(csToolsEvtName => {
+        event.detail.element.addEventListener(
+          csToolsEvtName,
+          ({ detail: csToolsAnnotation }) => {
+            console.log(`Cornerstone Element Event: ${csToolsEvtName}`);
+            addOrUpdateMeasurement(csToolsAnnotation);
+          }
+        );
+      });
+    }
+  );
+};

extensions/cornerstone/src/state.js

@@ -0,0 +1,20 @@
+const state = {
+  enabledElements: {},
+};
+
+/**
+ * Sets the enabled element `dom` reference for an active viewport.
+ * @param {HTMLElement} dom Active viewport element.
+ * @return void
+ */
+const setEnabledElement = (viewportIndex, element) =>
+  (state.enabledElements[viewportIndex] = element);
+
+/**
+ * Grabs the enabled element `dom` reference of an active viewport.
+ *
+ * @return {HTMLElement} Active viewport element.
+ */
+const getEnabledElement = viewportIndex => state.enabledElements[viewportIndex];
+
+export { setEnabledElement, getEnabledElement };

extensions/cornerstone/src/toolbarModule.js

@@ -23,6 +23,17 @@ const TOOLBAR_BUTTON_TYPES = {
   BUILT_IN: 'builtIn',
 };
 
+const TOOLBAR_BUTTON_BEHAVIORS = {
+  CINE: 'CINE',
+  DOWNLOAD_SCREEN_SHOT: 'DOWNLOAD_SCREEN_SHOT',
+};
+
+/* TODO: Export enums through a extension manager. */
+const enums = {
+  TOOLBAR_BUTTON_TYPES,
+  TOOLBAR_BUTTON_BEHAVIORS,
+};
+
 const definitions = [
   {
     id: 'StackScroll',
@@ -74,7 +85,7 @@ const definitions = [
     label: 'Annotate',
     icon: 'measure-non-target',
     //
-    type: TOOLBAR_BUTTON_TYPES.COMMAND,
+    type: TOOLBAR_BUTTON_TYPES.SET_TOOL_ACTIVE,
     commandName: 'setToolActive',
     commandOptions: { toolName: 'ArrowAnnotate' },
   },
@@ -102,7 +113,7 @@ const definitions = [
     //
     type: TOOLBAR_BUTTON_TYPES.BUILT_IN,
     options: {
-      behavior: 'CINE',
+      behavior: TOOLBAR_BUTTON_BEHAVIORS.CINE,
     },
   },
   {
@@ -200,21 +211,32 @@ const definitions = [
         label: 'Bidirectional',
         icon: 'measure-target',
         //
-        type: TOOLBAR_BUTTON_TYPES.COMMAND,
+        type: TOOLBAR_BUTTON_TYPES.SET_TOOL_ACTIVE,
         commandName: 'setToolActive',
         commandOptions: { toolName: 'Bidirectional' },
       },
       {
-        id: 'Eraser',
-        label: 'Eraser',
-        icon: 'eraser',
+        id: 'Download',
+        label: 'Download',
+        icon: 'create-screen-capture',
         //
-        type: TOOLBAR_BUTTON_TYPES.COMMAND,
-        commandName: 'setToolActive',
-        commandOptions: { toolName: 'Eraser' },
+        type: TOOLBAR_BUTTON_TYPES.BUILT_IN,
+        options: {
+          behavior: TOOLBAR_BUTTON_BEHAVIORS.DOWNLOAD_SCREEN_SHOT,
+          togglable: true,
+        },
       },
     ],
   },
+  {
+    id: 'Exit2DMPR',
+    label: 'Exit 2D MPR',
+    icon: 'times',
+    //
+    type: TOOLBAR_BUTTON_TYPES.COMMAND,
+    commandName: 'setCornerstoneLayout',
+    context: 'ACTIVE_VIEWPORT::VTK',
+  },
 ];
 
 export default {

extensions/cornerstone/src/utils/measurementServiceMappings/measurementServiceMappingsFactory.js

@@ -0,0 +1,141 @@
+import cornerstone from 'cornerstone-core';
+
+const SUPPORTED_TOOLS = [
+  'Length',
+  'EllipticalRoi',
+  'RectangleRoi',
+  'ArrowAnnotate',
+];
+
+const measurementServiceMappingsFactory = measurementService => {
+  /**
+   * Maps measurement service format object to cornerstone annotation object.
+   *
+   * @param {Measurement} measurement The measurement instance
+   * @param {string} definition The source definition
+   * @return {Object} Cornerstone annotation data
+   */
+  const toAnnotation = (measurement, definition) => {
+    const {
+      id,
+      label,
+      description,
+      points,
+      unit,
+      SOPInstanceUID,
+      FrameOfReferenceUID,
+      referenceSeriesUID,
+    } = measurement;
+
+    return {
+      toolName: definition,
+      measurementData: {
+        sopInstanceUid: SOPInstanceUID,
+        frameOfReferenceUID: FrameOfReferenceUID,
+        SeriesInstanceUID: referenceSeriesUID,
+        unit,
+        text: label,
+        description,
+        handles: _getHandlesFromPoints(points),
+        _measurementServiceId: id,
+      },
+    };
+  };
+
+  /**
+   * Maps cornerstone annotation event data to measurement service format.
+   *
+   * @param {Object} cornerstone Cornerstone event data
+   * @return {Measurement} Measurement instance
+   */
+  const toMeasurement = csToolsAnnotation => {
+    const { element, measurementData } = csToolsAnnotation;
+    const tool =
+      csToolsAnnotation.toolType ||
+      csToolsAnnotation.toolName ||
+      measurementData.toolType;
+
+    const validToolType = toolName => SUPPORTED_TOOLS.includes(toolName);
+
+    if (!validToolType(tool)) {
+      throw new Error('Tool not supported');
+    }
+
+    const {
+      SOPInstanceUID,
+      FrameOfReferenceUID,
+      SeriesInstanceUID,
+    } = _getAttributes(element);
+
+    const points = [];
+    points.push(measurementData.handles);
+
+    return {
+      id: measurementData._measurementServiceId,
+      SOPInstanceUID: SOPInstanceUID,
+      FrameOfReferenceUID,
+      referenceSeriesUID: SeriesInstanceUID,
+      label: measurementData.text,
+      description: measurementData.description,
+      unit: measurementData.unit,
+      area:
+        measurementData.cachedStats &&
+        measurementData.cachedStats
+          .area /* TODO: Add concept names instead (descriptor) */,
+      type: _getValueTypeFromToolType(tool),
+      points: _getPointsFromHandles(measurementData.handles),
+    };
+  };
+
+  const _getAttributes = element => {
+    const enabledElement = cornerstone.getEnabledElement(element);
+    const imageId = enabledElement.image.imageId;
+    const instance = cornerstone.metaData.get('instance', imageId);
+
+    return {
+      SOPInstanceUID: instance.SOPInstanceUID,
+      FrameOfReferenceUID: instance.FrameOfReferenceUID,
+      SeriesInstanceUID: instance.SeriesInstanceUID,
+    };
+  };
+
+  const _getValueTypeFromToolType = toolType => {
+    const { POLYLINE, ELLIPSE, POINT } = measurementService.VALUE_TYPES;
+
+    /* TODO: Relocate static value types */
+    const TOOL_TYPE_TO_VALUE_TYPE = {
+      Length: POLYLINE,
+      EllipticalRoi: ELLIPSE,
+      RectangleRoi: POLYLINE,
+      ArrowAnnotate: POINT,
+    };
+
+    return TOOL_TYPE_TO_VALUE_TYPE[toolType];
+  };
+
+  const _getPointsFromHandles = handles => {
+    let points = [];
+    Object.keys(handles).map(handle => {
+      if (['start', 'end'].includes(handle)) {
+        let point = {};
+        if (handles[handle].x) point.x = handles[handle].x;
+        if (handles[handle].y) point.y = handles[handle].y;
+        points.push(point);
+      }
+    });
+    return points;
+  };
+
+  const _getHandlesFromPoints = points => {
+    return points
+      .map((p, i) => (i % 10 === 0 ? { start: p } : { end: p }))
+      .reduce((obj, item) => Object.assign(obj, { ...item }), {});
+  };
+
+  return {
+    toAnnotation,
+    toMeasurement,
+  };
+};
+
+export default measurementServiceMappingsFactory;

extensions/cornerstone/src/utils/measurementServiceMappings/measurementServiceMappingsFactory.test.js

@@ -0,0 +1,83 @@
+import measurementServiceMappingsFactory from './measurementServiceMappingsFactory';
+
+jest.mock('cornerstone-core', () => ({
+  ...jest.requireActual('cornerstone-core'),
+  getEnabledElement: () => ({
+    image: { imageId: 123 },
+  }),
+  metaData: {
+    ...jest.requireActual('cornerstone-core').metaData,
+    get: () => ({
+      SOPInstanceUID: '123',
+      FrameOfReferenceUID: '123',
+      SeriesInstanceUID: '123',
+    }),
+  },
+}));
+
+describe('measurementServiceMappings.js', () => {
+  let mappings;
+  let handles;
+  let points;
+  let csToolsAnnotation;
+  let measurement;
+  let measurementServiceMock;
+  let definition = 'Length';
+
+  beforeEach(() => {
+    measurementServiceMock = {
+      VALUE_TYPES: {
+        POLYLINE: 'value_type::polyline',
+        POINT: 'value_type::point',
+        ELLIPSE: 'value_type::ellipse',
+        MULTIPOINT: 'value_type::multipoint',
+        CIRCLE: 'value_type::circle',
+      },
+    };
+    mappings = measurementServiceMappingsFactory(measurementServiceMock);
+    handles = { start: { x: 1, y: 2 }, end: { x: 1, y: 2 } };
+    points = [{ x: 1, y: 2 }, { x: 1, y: 2 }];
+    csToolsAnnotation = {
+      toolName: definition,
+      measurementData: {
+        _measurementServiceId: 1,
+        sopInstanceUid: '123',
+        frameOfReferenceUID: '123',
+        SeriesInstanceUID: '123',
+        handles,
+        text: 'Test',
+        description: 'Test',
+        unit: 'mm',
+      },
+    };
+    measurement = {
+      id: 1,
+      SOPInstanceUID: '123',
+      FrameOfReferenceUID: '123',
+      referenceSeriesUID: '123',
+      label: 'Test',
+      description: 'Test',
+      unit: 'mm',
+      type: measurementServiceMock.VALUE_TYPES.POLYLINE,
+      points: points,
+    };
+    jest.clearAllMocks();
+  });
+
+  describe('toAnnotation()', () => {
+    it('map measurement service format to annotation', async () => {
+      const mappedMeasurement = await mappings.toAnnotation(
+        measurement,
+        definition
+      );
+      expect(mappedMeasurement).toEqual(csToolsAnnotation);
+    });
+  });
+
+  describe('toMeasurement()', () => {
+    it('map annotation to measurement service format', async () => {
+      const mappedAnnotation = await mappings.toMeasurement(csToolsAnnotation);
+      expect(mappedAnnotation).toEqual(measurement);
+    });
+  });
+});

extensions/cornerstone/src/utils/setCornerstoneLayout.js

@@ -0,0 +1,22 @@
+import { redux } from '@ohif/core';
+
+const { setLayout } = redux.actions;
+
+/**
+ * Update the current layout with a simple Cornerstone one
+ *
+ * @return void
+ */
+const setCornerstoneLayout = () => {
+  const layout = {
+    numRows: 1,
+    numColumns: 1,
+    viewports: [{ plugin: 'cornerstone' }],
+  };
+
+  const action = setLayout(layout);
+
+  window.store.dispatch(action);
+}
+
+export default setCornerstoneLayout;