chore(deps): update node.js to d03e75e #7453
Workflow file for this run
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name: Build | |
on: | |
schedule: | |
- cron: '0 10 * * *' # every day at 10am | |
push: | |
tags: | |
- 'v*.*.*' | |
pull_request: | |
branches: | |
- main | |
merge_group: | |
permissions: read-all | |
jobs: | |
fmt: | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Clojure | |
uses: DeLaGuardo/setup-clojure@94d767dbb80ae5c637d0f1ad70b75fa2b00495cd # 13.0 | |
with: | |
cljfmt: 0.13.0 | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Check Formatting | |
run: make fmt | |
lint: | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Clojure | |
uses: DeLaGuardo/setup-clojure@94d767dbb80ae5c637d0f1ad70b75fa2b00495cd # 13.0 | |
with: | |
clj-kondo: '2024.09.27' | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Lint | |
run: make lint | |
job-ig: | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Node | |
uses: actions/setup-node@39370e3970a6d050c480ffad4ff0ed4d3fdee5af # v4 | |
with: | |
node-version: 21 | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Build | |
working-directory: job-ig | |
run: make build | |
- name: Validate | |
working-directory: job-ig | |
run: make validate | |
- name: Upload Profiles | |
uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4 | |
with: | |
name: job-ig-profiles | |
path: job-ig/fsh-generated/resources/*.json | |
test: | |
strategy: | |
matrix: | |
module: | |
- admin-api | |
- anomaly | |
- async | |
- byte-buffer | |
- byte-string | |
- cache-collector | |
- cassandra | |
- coll | |
- cql | |
- db | |
- db-resource-store | |
- db-resource-store-cassandra | |
- db-tx-log | |
- db-tx-log-kafka | |
- executor | |
- extern-terminology-service | |
- fhir-client | |
- fhir-path | |
- fhir-structure | |
- http-client | |
- interaction | |
- jepsen | |
- job-async-interaction | |
- job-re-index | |
- job-scheduler | |
- job-util | |
- kv | |
- luid | |
- metrics | |
- module-base | |
- openid-auth | |
- operation-graphql | |
- operation-measure-evaluate-measure | |
- operation-patient-everything | |
- operation-patient-purge | |
- operation-totals | |
- page-id-cipher | |
- page-store | |
- page-store-cassandra | |
- rest-api | |
- rest-util | |
- rocksdb | |
- scheduler | |
- server | |
- thread-pool-executor-collector | |
java-version: | |
- '17' | |
- '21' | |
exclude: | |
- module: jepsen | |
java-version: '17' | |
needs: job-ig | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Java | |
uses: actions/setup-java@8df1039502a15bceb9433410b1a100fbe190c53b # v4 | |
with: | |
distribution: 'temurin' | |
java-version: ${{ matrix.java-version }} | |
- name: Setup Clojure | |
uses: DeLaGuardo/setup-clojure@94d767dbb80ae5c637d0f1ad70b75fa2b00495cd # 13.0 | |
with: | |
cli: '1.12.0.1479' | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Cache Local Maven Repo | |
uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4 | |
with: | |
path: ~/.m2/repository | |
key: ${{ runner.os }}-temurin-${{ matrix.java-version }}-maven-${{ matrix.module }}-${{ hashFiles(format('modules/{0}/deps.edn', matrix.module)) }} | |
- name: Download Job IG Profiles | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: job-ig-profiles | |
path: job-ig/fsh-generated/resources | |
- name: Test | |
run: make -C modules/${{ matrix.module }} test | |
- name: Test Coverage | |
if: ${{ matrix.java-version == '21' && matrix.module != 'db' && matrix.module != 'jepsen' }} | |
run: make -C modules/${{ matrix.module }} test-coverage | |
- name: Upload Coverage Report | |
if: ${{ matrix.java-version == '21' && matrix.module != 'db' && matrix.module != 'jepsen' }} | |
uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4 | |
with: | |
name: coverage-report-${{ matrix.module }} | |
path: modules/${{ matrix.module }}/target/coverage/codecov.json | |
# Special treatment, because it runs much longer as the other modules. | |
test-coverage-db: | |
needs: job-ig | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Java | |
uses: actions/setup-java@8df1039502a15bceb9433410b1a100fbe190c53b # v4 | |
with: | |
distribution: 'temurin' | |
java-version: '21' | |
- name: Setup Clojure | |
uses: DeLaGuardo/setup-clojure@94d767dbb80ae5c637d0f1ad70b75fa2b00495cd # 13.0 | |
with: | |
cli: '1.12.0.1479' | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Cache Local Maven Repo | |
uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4 | |
with: | |
path: ~/.m2/repository | |
key: ${{ runner.os }}-temurin-21-maven-db-coverage-${{ hashFiles('modules/db/deps.edn') }} | |
- name: Download Job IG Profiles | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: job-ig-profiles | |
path: job-ig/fsh-generated/resources | |
- name: Test Coverage | |
run: make -C modules/db test-coverage | |
- name: Upload Coverage Report | |
uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4 | |
with: | |
name: coverage-report-db | |
path: modules/db/target/coverage/codecov.json | |
test-root: | |
strategy: | |
matrix: | |
java-version: | |
- '17' | |
- '21' | |
needs: job-ig | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Java | |
uses: actions/setup-java@8df1039502a15bceb9433410b1a100fbe190c53b # v4 | |
with: | |
distribution: 'temurin' | |
java-version: ${{ matrix.java-version }} | |
- name: Setup Clojure | |
uses: DeLaGuardo/setup-clojure@94d767dbb80ae5c637d0f1ad70b75fa2b00495cd # 13.0 | |
with: | |
cli: '1.12.0.1479' | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Cache Local Maven Repo | |
uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4 | |
with: | |
path: ~/.m2/repository | |
key: ${{ runner.os }}-temurin-${{ matrix.java-version }}-maven-${{ hashFiles('deps.edn') }} | |
- name: Download Job IG Profiles | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: job-ig-profiles | |
path: job-ig/fsh-generated/resources | |
- name: Test | |
run: make test-root | |
upload-coverage: | |
needs: [ test, test-coverage-db ] | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Download Coverage Reports | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
pattern: coverage-report-* | |
- name: Codecov Upload | |
uses: codecov/codecov-action@b9fd7d16f6d7d1b5d2bec1a2887e65ceed900238 # v4 | |
with: | |
name: codecov-umbrella | |
token: ${{ secrets.CODECOV_TOKEN }} | |
fail_ci_if_error: true | |
build: | |
needs: job-ig | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Java | |
uses: actions/setup-java@8df1039502a15bceb9433410b1a100fbe190c53b # v4 | |
with: | |
distribution: 'temurin' | |
java-version: '21' | |
- name: Setup Clojure | |
uses: DeLaGuardo/setup-clojure@94d767dbb80ae5c637d0f1ad70b75fa2b00495cd # 13.0 | |
with: | |
cli: '1.12.0.1479' | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Cache Local Maven Repo | |
uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4 | |
with: | |
path: ~/.m2/repository | |
key: ${{ runner.os }}-temurin-21-maven-build-${{ hashFiles('**/deps.edn') }} | |
- name: Download Job IG Profiles | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: job-ig-profiles | |
path: job-ig/fsh-generated/resources | |
- name: Build Uberjar | |
run: make uberjar | |
- name: Upload Blaze Uberjar | |
uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4 | |
with: | |
name: blaze-uberjar | |
path: target/blaze-*-standalone.jar | |
- name: Set up Docker Buildx | |
uses: docker/setup-buildx-action@c47758b77c9736f4b2ef4073d4d51994fabfe349 # v3 | |
- name: Build and Export to Docker | |
uses: docker/build-push-action@4f58ea79222b3b9dc2c8bbdd6debcef730109a75 # v6 | |
with: | |
context: . | |
tags: blaze:latest | |
outputs: type=docker,dest=/tmp/blaze.tar | |
- name: Upload Blaze Image | |
uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4 | |
with: | |
name: blaze-image | |
path: /tmp/blaze.tar | |
build-frontend: | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Setup Node | |
uses: actions/setup-node@39370e3970a6d050c480ffad4ff0ed4d3fdee5af # v4 | |
with: | |
node-version: 21 | |
- name: Build Frontend | |
run: make build-frontend | |
- name: Set up Docker Buildx | |
uses: docker/setup-buildx-action@c47758b77c9736f4b2ef4073d4d51994fabfe349 # v3 | |
- name: Build and Export to Docker | |
uses: docker/build-push-action@4f58ea79222b3b9dc2c8bbdd6debcef730109a75 # v6 | |
with: | |
context: modules/frontend | |
tags: blaze-frontend:latest | |
outputs: type=docker,dest=/tmp/blaze-frontend.tar | |
- name: Upload Blaze Image | |
uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4 | |
with: | |
name: blaze-frontend-image | |
path: /tmp/blaze-frontend.tar | |
image-scan: | |
needs: [ build, build-frontend ] | |
runs-on: ubuntu-24.04 | |
permissions: | |
security-events: write | |
strategy: | |
matrix: | |
image: | |
- blaze | |
- blaze-frontend | |
steps: | |
- name: Download Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: ${{ matrix.image }}-image | |
path: /tmp | |
- name: Load Image | |
run: docker load --input /tmp/${{ matrix.image }}.tar | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Run Trivy Vulnerability Scanner | |
uses: aquasecurity/trivy-action@18f2510ee396bbf400402947b394f2dd8c87dbb0 # 0.29.0 | |
with: | |
image-ref: ${{ matrix.image }}:latest | |
format: sarif | |
output: trivy-results.sarif | |
severity: 'CRITICAL,HIGH' | |
timeout: '15m0s' | |
env: | |
TRIVY_DB_REPOSITORY: public.ecr.aws/aquasecurity/trivy-db:2 | |
TRIVY_JAVA_DB_REPOSITORY: public.ecr.aws/aquasecurity/trivy-java-db:1 | |
- name: Upload Trivy Scan Results to GitHub Security Tab | |
if: ${{ (github.repository_owner == 'samply') || (vars.IMAGE_SCAN_UPLOAD == 'true') }} | |
uses: github/codeql-action/upload-sarif@f09c1c0a94de965c15400f5634aa42fac8fb8f88 # v3 | |
with: | |
sarif_file: trivy-results.sarif | |
cql-expr-cache-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ENABLE_ADMIN_API=true -e CQL_EXPR_CACHE_SIZE=1000 -p 8080:8080 -p 8081:8081 -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Ensure that the State of PatientLastChange Index is Current | |
run: .github/scripts/check-patient-last-change-index-state.sh current | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/synthea | |
- name: Prometheus Metrics | |
run: .github/scripts/test-cql-expr-cache-metrics.sh | |
- name: Check Total-Number of Resources are 92114 | |
run: .github/scripts/check-total-number-of-resources.sh 92114 | |
- name: Evaluate CQL Query 1 | |
run: .github/scripts/evaluate-measure.sh q1 56 | |
- name: Evaluate CQL Query 1 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q1 56 | |
- name: Evaluate CQL Query 1 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q1 56 | |
- name: Evaluate CQL Query 1 on Individual Patients | |
run: .github/scripts/evaluate-patient-q1-measure.sh | |
- name: Evaluate CQL Query 2 | |
run: .github/scripts/evaluate-measure.sh q2 42 | |
- name: Evaluate CQL Query 2 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q2 42 | |
- name: Evaluate CQL Query 2 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q2 42 | |
- name: Evaluate CQL Query 4 | |
run: .github/scripts/evaluate-measure.sh q4 0 | |
- name: Evaluate CQL Query 4 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q4 0 | |
- name: Evaluate CQL Query 4 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q4 0 | |
- name: Evaluate CQL Query 7 | |
run: .github/scripts/evaluate-measure.sh q7 81 | |
- name: Evaluate CQL Query 7 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q7 81 | |
- name: Evaluate CQL Query 7 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q7 81 | |
- name: Evaluate CQL Query 14 | |
run: .github/scripts/evaluate-measure.sh q14 96 | |
- name: Check Bloom Filter | |
run: .github/scripts/check-bloom-filter.sh a08d0235112a8033c36c5d33564aaa00f4190281e4db8f7ec1d8d55cd7f4c56f 96 | |
- name: Evaluate CQL Query 14 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q14 96 | |
- name: Evaluate CQL Query 14 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q14 96 | |
- name: Evaluate CQL Query 17 | |
run: .github/scripts/evaluate-measure.sh q17 120 | |
- name: Evaluate CQL Query 17 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q17 120 | |
- name: Evaluate CQL Query 17 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q17 120 | |
- name: Evaluate CQL Query 20 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q20-stratifier-city 120 | |
- name: Evaluate CQL Query 21 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q21-stratifier-city-of-only-women 64 | |
- name: Evaluate CQL Query 26 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q26-stratifier-bmi 120 | |
- name: Evaluate CQL Query 27 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q27-stratifier-calculated-bmi 120 | |
- name: Evaluate CQL Query 32 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q32-stratifier-underweight 120 | |
- name: Evaluate CQL Query 36 | |
run: .github/scripts/evaluate-measure.sh q36-parameter 86 | |
- name: Check Bloom Filter | |
run: .github/scripts/check-bloom-filter.sh fbb79d85457069c8e1926c949690deecd60d751942d5b0cd0b61c08e6029224c 86 | |
- name: Evaluate CQL Query 36 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q36-parameter 86 | |
- name: Evaluate CQL Query 37 | |
run: .github/scripts/evaluate-measure.sh q37-overlaps 24 | |
- name: Check Bloom Filter | |
run: .github/scripts/check-bloom-filter.sh 9fe779d821d7647831331b490939aa0cdf314d76c9b2a9518ffaf559353db043 24 | |
- name: Evaluate CQL Query 37 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q37-overlaps 24 | |
- name: Evaluate CQL Query 37 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q37-overlaps 24 | |
- name: Evaluate CQL Query 46 | |
run: .github/scripts/evaluate-measure.sh q46-between-date 19 | |
- name: Check Bloom Filter | |
run: .github/scripts/check-bloom-filter.sh 237bcfac3e879272f508e143095e4a0025e1b54505bbb2cf36fbda83dec237f2 19 | |
- name: Evaluate CQL Query 46 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q46-between-date 19 | |
integration-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
strategy: | |
matrix: | |
variant: | |
- standalone | |
- distributed | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ALLOW_MULTIPLE_DELETE=true -e ENABLE_INTERACTION_DELETE_HISTORY=true -e ENABLE_OPERATION_PATIENT_PURGE=true -p 8080:8080 -p 8081:8081 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
if: ${{ matrix.variant == 'standalone' }} | |
- name: Run Kafka, Cassandra and Blaze | |
run: docker compose -f .github/distributed-test/docker-compose.yml up -d | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
if: ${{ matrix.variant == 'standalone' }} | |
- name: Wait for Blaze 1 | |
run: .github/scripts/wait-for-url.sh http://localhost:8081/metrics | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Wait for Blaze 2 | |
run: .github/scripts/wait-for-url.sh http://localhost:8082/metrics | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Docker Logs | |
run: docker logs blaze | |
if: ${{ matrix.variant == 'standalone' }} | |
- name: Docker Logs Kafka | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs kafka | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Docker Logs Cassandra 1 | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs cassandra-1 | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Docker Logs Cassandra 2 | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs cassandra-2 | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Docker Logs Blaze 1 | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs blaze-1 | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Docker Logs Blaze 2 | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs blaze-2 | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Docker Stats | |
run: docker stats --no-stream | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Check Capability Statement Filtered by _elements | |
run: .github/scripts/check-capability-statement-filtered.sh | |
- name: Check Capability Statement Caching | |
run: .github/scripts/check-capability-statement-caching.sh | |
- name: Check Referential Integrity Enforced | |
run: .github/scripts/check-referential-integrity-enforced.sh | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/synthea | |
- name: Check Total-Number of Resources are 92114 | |
run: .github/scripts/check-total-number-of-resources.sh 92114 | |
- name: Check Resource Totals | |
run: .github/scripts/check-resource-totals.sh | |
- name: Count Resources | |
run: blazectl count-resources --server http://localhost:8080/fhir | |
- name: Download All Resources | |
run: .github/scripts/download-all-resources.sh | |
- name: Download Patient Resources | |
run: .github/scripts/download-resources.sh Patient | |
- name: Download Male Patient Resources | |
run: .github/scripts/download-resources-query.sh Patient "gender=male" 56 | |
- name: Download Female Patient Resources | |
run: .github/scripts/download-resources-query.sh Patient "gender=female" 64 | |
- name: Download Patient Resources - Including Observation, Condition, Encounter and Procedure | |
run: .github/scripts/revinclude.sh | |
- name: Download Observation Resources | |
run: .github/scripts/download-resources.sh Observation | |
- name: Download Observation Resources with special LOINC Codes | |
run: .github/scripts/download-resources-query.sh Observation "code=http://loinc.org|10230-1,http://loinc.org|10480-2,http://loinc.org|10834-0,http://loinc.org|14804-9,http://loinc.org|14959-1,http://loinc.org|1742-6,http://loinc.org|1751-7,http://loinc.org|17861-6,http://loinc.org|18262-6,http://loinc.org|19123-9" 2399 | |
- name: Download Observation Resources with all LOINC Codes | |
run: .github/scripts/download-resources-query.sh Observation "_count=500&code=http://loinc.org|10230-1,http://loinc.org|10480-2,http://loinc.org|10834-0,http://loinc.org|14804-9,http://loinc.org|14959-1,http://loinc.org|1742-6,http://loinc.org|1751-7,http://loinc.org|17861-6,http://loinc.org|18262-6,http://loinc.org|19123-9,http://loinc.org|1920-8,http://loinc.org|1960-4,http://loinc.org|1975-2,http://loinc.org|1988-5,http://loinc.org|19926-5,http://loinc.org|19994-3,http://loinc.org|2019-8,http://loinc.org|2028-9,http://loinc.org|20454-5,http://loinc.org|20505-4,http://loinc.org|20565-8,http://loinc.org|20570-8,http://loinc.org|2069-3,http://loinc.org|2075-0,http://loinc.org|2085-9,http://loinc.org|2093-3,http://loinc.org|21000-5,http://loinc.org|2157-6,http://loinc.org|2160-0,http://loinc.org|21905-5,http://loinc.org|21906-3,http://loinc.org|21907-1,http://loinc.org|21908-9,http://loinc.org|2276-4,http://loinc.org|2339-0,http://loinc.org|2345-7,http://loinc.org|2498-4,http://loinc.org|2500-7,http://loinc.org|2502-3,http://loinc.org|2514-8,http://loinc.org|2532-0,http://loinc.org|25428-4,http://loinc.org|2571-8,http://loinc.org|26881-3,http://loinc.org|2703-7,http://loinc.org|2708-6,http://loinc.org|2713-6,http://loinc.org|2744-1,http://loinc.org|2823-3,http://loinc.org|28245-9,http://loinc.org|2857-1,http://loinc.org|2885-2,http://loinc.org|29463-7,http://loinc.org|2947-0,http://loinc.org|2951-2,http://loinc.org|3094-0,http://loinc.org|32167-9,http://loinc.org|32207-3,http://loinc.org|32465-7,http://loinc.org|32623-1,http://loinc.org|33728-7,http://loinc.org|33756-8,http://loinc.org|33762-6,http://loinc.org|33914-3,http://loinc.org|33959-8,http://loinc.org|38208-5,http://loinc.org|38265-5,http://loinc.org|38483-4,http://loinc.org|39156-5,http://loinc.org|44667-4,http://loinc.org|44963-7,http://loinc.org|4544-3,http://loinc.org|4548-4,http://loinc.org|46240-8,http://loinc.org|46288-7,http://loinc.org|48065-7,http://loinc.org|49765-1,http://loinc.org|55277-8,http://loinc.org|5767-9,http://loinc.org|5770-3,http://loinc.org|5778-6,http://loinc.org|57905-2,http://loinc.org|5792-7,http://loinc.org|5794-3,http://loinc.org|5797-6,http://loinc.org|5799-2,http://loinc.org|5802-4,http://loinc.org|5803-2,http://loinc.org|5804-0,http://loinc.org|5811-5,http://loinc.org|5902-2,http://loinc.org|59032-3,http://loinc.org|5905-5,http://loinc.org|59408-5,http://loinc.org|59557-9,http://loinc.org|59576-9,http://loinc.org|6075-6,http://loinc.org|6082-2,http://loinc.org|6085-5,http://loinc.org|6095-4,http://loinc.org|6106-9,http://loinc.org|6158-0,http://loinc.org|6189-5,http://loinc.org|6206-7,http://loinc.org|6246-3,http://loinc.org|6248-9,http://loinc.org|6273-7,http://loinc.org|6276-0,http://loinc.org|6298-4,http://loinc.org|6299-2,http://loinc.org|6301-6,http://loinc.org|63513-6,http://loinc.org|65750-2,http://loinc.org|66519-0,http://loinc.org|66524-0,http://loinc.org|66529-9,http://loinc.org|66534-9,http://loinc.org|6690-2,http://loinc.org|6768-6,http://loinc.org|6833-8,http://loinc.org|6844-5,http://loinc.org|69453-9,http://loinc.org|704-7,http://loinc.org|706-2,http://loinc.org|711-2,http://loinc.org|713-8,http://loinc.org|718-7,http://loinc.org|71802-3,http://loinc.org|72106-8,http://loinc.org|72166-2,http://loinc.org|72514-3,http://loinc.org|7258-7,http://loinc.org|731-0,http://loinc.org|736-9,http://loinc.org|742-7,http://loinc.org|751-8,http://loinc.org|75325-1,http://loinc.org|76690-7,http://loinc.org|770-8,http://loinc.org|77606-2,http://loinc.org|777-3,http://loinc.org|785-6,http://loinc.org|786-4,http://loinc.org|787-2,http://loinc.org|788-0,http://loinc.org|789-8,http://loinc.org|80382-5,http://loinc.org|80383-3,http://loinc.org|8302-2,http://loinc.org|8310-5,http://loinc.org|8331-1,http://loinc.org|8478-0,http://loinc.org|85318-4,http://loinc.org|85319-2,http://loinc.org|85337-4,http://loinc.org|85339-0,http://loinc.org|85352-3,http://loinc.org|85354-9,http://loinc.org|88020-3,http://loinc.org|88021-1,http://loinc.org|88040-1,http://loinc.org|88262-1,http://loinc.org|8867-4,http://loinc.org|89579-7,http://loinc.org|91148-7,http://loinc.org|92130-4,http://loinc.org|92131-2,http://loinc.org|92134-6,http://loinc.org|92138-7,http://loinc.org|92139-5,http://loinc.org|92140-3,http://loinc.org|92141-1,http://loinc.org|92142-9,http://loinc.org|9279-1,http://loinc.org|94040-3,http://loinc.org|94531-1,http://loinc.org|9843-4,http://loinc.org|99999-0" 42929 | |
- name: Download Observation Resources of male Patients | |
run: .github/scripts/download-resources-query.sh Observation "patient.gender=male" 20466 | |
- name: Download Observation Resources of male Patients Sorted by ID | |
run: .github/scripts/download-resources-query-sort.sh Observation "patient.gender=male" "_id" 20466 | |
- name: Download Observation Resources of male Patients Sorted Ascending by Last Updated | |
run: .github/scripts/download-resources-query-sort.sh Observation "patient.gender=male" "_lastUpdated" 20466 | |
- name: Download Observation Resources of male Patients Sorted Descending by Last Updated | |
run: .github/scripts/download-resources-query-sort.sh Observation "patient.gender=male" "-_lastUpdated" 20466 | |
- name: Download Laboratory Observation Resources Sorted by ID | |
run: .github/scripts/download-resources-query-sort.sh Observation "category=laboratory" "_id" 29206 | |
- name: Download Laboratory Observation Resources Sorted Ascending by Last Updated | |
run: .github/scripts/download-resources-query-sort.sh Observation "category=laboratory" "_lastUpdated" 29206 | |
- name: Download Observation Resources of female Patients | |
run: .github/scripts/download-resources-query.sh Observation "_count=500&patient.gender=female" 22463 | |
- name: Download Observation Resources of the year 1970 | |
run: .github/scripts/download-resources-query.sh Observation "date=1970" 59 | |
- name: Download Observation Resources of the year 1970 Sorted by ID | |
run: .github/scripts/download-resources-query-sort.sh Observation "date=1970" "_id" 59 | |
- name: Download Observation Resources of the year 1980 | |
run: .github/scripts/download-resources-query.sh Observation "date=1980" 0 | |
- name: Download Observation Resources of the year 1980 Sorted by ID | |
run: .github/scripts/download-resources-query-sort.sh Observation "date=1980" "_id" 0 | |
- name: Download Observation Resources of the year 1990 | |
run: .github/scripts/download-resources-query.sh Observation "date=1990" 19 | |
- name: Download Observation Resources of the year 2000 | |
run: .github/scripts/download-resources-query.sh Observation "date=2000" 101 | |
- name: Download Observation Resources of the year 2010 | |
run: .github/scripts/download-resources-query.sh Observation "date=2010" 995 | |
- name: Download Observation Resources of the year 2020 | |
run: .github/scripts/download-resources-query.sh Observation "date=2020" 17419 | |
- name: Download Observation Resources of the year 2020 Sorted by ID | |
run: .github/scripts/download-resources-query-sort.sh Observation "date=2020" "_id" 17419 | |
- name: Download Observation Resources not of the year 2020 | |
run: .github/scripts/download-resources-query.sh Observation "date=ne2020" 25510 | |
- name: Download Observation Resources not of the year 2020 Sorted by ID | |
run: .github/scripts/download-resources-query-sort.sh Observation "date=ne2020" "_id" 25510 | |
- name: Download Observation Resources greater than the year 2010 | |
run: .github/scripts/download-resources-query.sh Observation "date=gt2010" 38486 | |
- name: Download Observation Resources greater than the year 2020 | |
run: .github/scripts/download-resources-query.sh Observation "date=gt2020" 983 | |
- name: Download Observation Resources less than the year 2010 | |
run: .github/scripts/download-resources-query.sh Observation "date=lt2010" 3448 | |
- name: Download Observation Resources less than the year 2020 | |
run: .github/scripts/download-resources-query.sh Observation "date=lt2020" 24527 | |
- name: Download Observation Resources greater equal the year 2010 | |
run: .github/scripts/download-resources-query.sh Observation "date=ge2010" 39481 | |
- name: Download Observation Resources greater equal the year 2020 | |
run: .github/scripts/download-resources-query.sh Observation "date=ge2020" 18402 | |
- name: Download Observation Resources less equal the year 2010 | |
run: .github/scripts/download-resources-query.sh Observation "date=le2010" 4443 | |
- name: Download Observation Resources less equal the year 2020 | |
run: .github/scripts/download-resources-query.sh Observation "date=le2020" 41946 | |
- name: Download Observation Resources that start after the year 2010 | |
run: .github/scripts/download-resources-query.sh Observation "date=sa2010" 38486 | |
- name: Download Observation Resources that start after the year 2020 | |
run: .github/scripts/download-resources-query.sh Observation "date=sa2020" 983 | |
- name: Download Observation Resources that end before the year 2010 | |
run: .github/scripts/download-resources-query.sh Observation "date=eb2010" 3448 | |
- name: Download Observation Resources that end before the year 2020 | |
run: .github/scripts/download-resources-query.sh Observation "date=eb2020" 24527 | |
- name: Check Observation Date Search | |
run: .github/scripts/check-date-search.sh "Observation" | |
- name: Check Encounter Date Search | |
run: .github/scripts/check-date-search.sh "Encounter" | |
- name: Check DiagnosticReport Date Search | |
run: .github/scripts/check-date-search.sh "DiagnosticReport" | |
- name: Download Observation Resources of female Patients Sorted Ascending | |
run: .github/scripts/download-resources-query-sort.sh Observation "patient.gender=female" "_lastUpdated" 22463 | |
- name: Download Observation Resources of female Patients Sorted Descending | |
run: .github/scripts/download-resources-query-sort.sh Observation "patient.gender=female" "-_lastUpdated" 22463 | |
- name: Download Observation Resources - Including Patients | |
run: blazectl --no-progress --server http://localhost:8080/fhir download Observation -q '_include=Observation:patient' -o Observation-Patient.ndjson | |
- name: Download Observation Resources - Including Encounters and Patients | |
run: blazectl --no-progress --server http://localhost:8080/fhir download Observation -q '_include=Observation:encounter&_include=Observation:patient' -o Observation-Encounter-Patient.ndjson | |
- name: Download Observation Resources - Including Encounters and Encounter Patients | |
run: blazectl --no-progress --server http://localhost:8080/fhir download Observation -q '_include=Observation:encounter&_include:iterate=Encounter:patient' -o Observation-Encounter-Encounter-Patient.ndjson | |
- name: Download Condition Resources | |
run: .github/scripts/download-resources.sh Condition | |
- name: Download Condition Resources - Including Subjects | |
run: blazectl --no-progress --server http://localhost:8080/fhir download Condition -q '_include=Condition:subject' -o Condition-Subject.ndjson | |
- name: Download Condition Resources - Including Encounters | |
run: blazectl --no-progress --server http://localhost:8080/fhir download Condition -q '_include=Condition:encounter' -o Condition-Encounter.ndjson | |
- name: Download DiagnosticReport Resources | |
run: .github/scripts/download-resources.sh DiagnosticReport | |
- name: Download MedicationRequest Resources of Medications with code 854235 | |
run: .github/scripts/download-resources-query.sh MedicationRequest "medication.code=1736854" 112 | |
- name: Download MedicationRequest Resources of Medications with code 854235 Sorted Ascending | |
run: .github/scripts/download-resources-query-sort.sh MedicationRequest "medication.code=1736854" "_lastUpdated" 112 | |
- name: Download MedicationRequest Resources of Medications with code 854235 Sorted Descending | |
run: .github/scripts/download-resources-query-sort.sh MedicationRequest "medication.code=1736854" "-_lastUpdated" 112 | |
- name: Download MedicationRequest Resources - Including Medications | |
run: blazectl --no-progress --server http://localhost:8080/fhir download MedicationRequest -q '_include=MedicationRequest:medication' -o MedicationRequest.ndjson | |
- name: Download male Patient Resources having inpatient Encounters in 2010 | |
run: .github/scripts/download-resources-query.sh Patient "gender=male&_has:Encounter:patient:class=IMP&_has:Encounter:patient:date=2010" 8 | |
- name: Download female Patient Resources having inpatient Encounters in 2010 | |
run: .github/scripts/download-resources-query.sh Patient "gender=female&_has:Encounter:patient:class=IMP&_has:Encounter:patient:date=2010" 11 | |
- name: Download Observations using _elements=subject | |
run: .github/scripts/download-observations-elements.sh | |
- name: Download Observations of all Encounters using ID's | |
run: .github/scripts/download-observations-of-all-encounters.sh | |
- name: Search Observation _lastUpdated | |
run: .github/scripts/search-patient-last-updated.sh | |
- name: Search Observation _profile | |
run: .github/scripts/search-observation-profile.sh | |
- name: Search Compartment | |
run: .github/scripts/search-compartment.sh | |
- name: Evaluate CQL Query 1 | |
run: .github/scripts/evaluate-measure.sh q1 56 | |
- name: Evaluate CQL Query 1 as Batch | |
run: .github/scripts/evaluate-measure-as-batch.sh q1 56 | |
- name: Evaluate CQL Query 1 async | |
run: .github/scripts/evaluate-measure-async.sh q1 56 | |
- name: Evaluate CQL Query 1 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q1 56 | |
- name: Evaluate CQL Query 1 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q1 56 | |
- name: Evaluate CQL Query 1 - Subject List as Batch | |
run: .github/scripts/evaluate-measure-subject-list-as-batch.sh q1 56 | |
- name: Evaluate CQL Query 1 on Individual Patients | |
run: .github/scripts/evaluate-patient-q1-measure.sh | |
- name: Evaluate CQL Query 2 | |
run: .github/scripts/evaluate-measure.sh q2 42 | |
- name: Evaluate CQL Query 2 as Batch | |
run: .github/scripts/evaluate-measure-as-batch.sh q2 42 | |
- name: Evaluate CQL Query 2 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q2 42 | |
- name: Evaluate CQL Query 2 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q2 42 | |
- name: Evaluate CQL Query 2 - Subject List as Batch | |
run: .github/scripts/evaluate-measure-subject-list-as-batch.sh q2 42 | |
- name: Evaluate CQL Query 4 | |
run: .github/scripts/evaluate-measure.sh q4 0 | |
- name: Evaluate CQL Query 4 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q4 0 | |
- name: Evaluate CQL Query 4 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q4 0 | |
- name: Evaluate CQL Query 7 | |
run: .github/scripts/evaluate-measure.sh q7 81 | |
- name: Evaluate CQL Query 7 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q7 81 | |
- name: Evaluate CQL Query 7 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q7 81 | |
- name: Evaluate CQL Query 14 | |
run: .github/scripts/evaluate-measure.sh q14 96 | |
- name: Evaluate CQL Query 14 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q14 96 | |
- name: Evaluate CQL Query 14 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q14 96 | |
- name: Evaluate CQL Query 15 using Blazectl | |
run: .github/scripts/evaluate-measure.sh q15 31 | |
- name: Evaluate CQL Query 17 | |
run: .github/scripts/evaluate-measure.sh q17 120 | |
- name: Evaluate CQL Query 17 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q17 120 | |
- name: Evaluate CQL Query 17 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q17 120 | |
- name: Evaluate CQL Query 20 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q20-stratifier-city 120 | |
- name: Evaluate CQL Query 21 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q21-stratifier-city-of-only-women 64 | |
- name: Evaluate CQL Query 26 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q26-stratifier-bmi 120 | |
- name: Evaluate CQL Query 27 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q27-stratifier-calculated-bmi 120 | |
- name: Evaluate CQL Query 32 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh q32-stratifier-underweight 120 | |
- name: Evaluate CQL Query 36 | |
run: .github/scripts/evaluate-measure.sh q36-parameter 86 | |
- name: Evaluate CQL Query 36 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q36-parameter 86 | |
- name: Evaluate CQL Query 34 | |
run: .github/scripts/evaluate-measure.sh q37-overlaps 24 | |
- name: Evaluate CQL Query 34 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q37-overlaps 24 | |
- name: Evaluate CQL Query 34 - Subject List | |
run: .github/scripts/evaluate-measure-subject-list.sh q37-overlaps 24 | |
- name: Evaluate CQL Query 46 | |
run: .github/scripts/evaluate-measure.sh q46-between-date 19 | |
- name: Evaluate CQL Query 46 using Blazectl | |
run: .github/scripts/evaluate-measure-blazectl.sh q46-between-date 19 | |
- name: Forwarded Header HTTPS | |
run: .github/scripts/forwarded-header.sh https | |
- name: Forwarded Header HTTP | |
run: .github/scripts/forwarded-header.sh http | |
- name: X-Forwarded Headers HTTPS | |
run: .github/scripts/x-forwarded-headers.sh https | |
- name: X-Forwarded Headers HTTP | |
run: .github/scripts/x-forwarded-headers.sh http | |
- name: Delete | |
run: .github/scripts/delete.sh | |
- name: Delete Violating Referential Integrity | |
run: .github/scripts/check-referential-integrity-for-delete.sh 409 | |
- name: Delete After Referring Resource is Deleted Succeeds | |
run: .github/scripts/check-delete-succeeds-after-referring-resource-is-deleted.sh | |
- name: Batch | |
run: .github/scripts/batch.sh | |
- name: Batch Metadata | |
run: .github/scripts/batch-metadata.sh | |
- name: Transaction | |
run: .github/scripts/transaction.sh | |
- name: Transaction Read/Write | |
run: .github/scripts/transaction-rw.sh | |
- name: Transactional Delete Preserving Referential Integrity | |
run: .github/scripts/transactional-delete.sh | |
- name: Transaction with Invalid (Null) Resource | |
run: .github/scripts/transaction-null-resource.sh | |
- name: OPTIONS | |
run: curl -f -XOPTIONS http://localhost:8080/fhir/metadata | |
- name: Health | |
run: curl -f http://localhost:8080/health | |
- name: Health - HEAD | |
run: curl -f --head http://localhost:8080/health | |
- name: Not Acceptable | |
run: .github/scripts/not-acceptable.sh | |
- name: Conditional Update If-None-Match | |
run: .github/scripts/conditional-update-if-none-match.sh | |
- name: GraphQL Patient | |
run: .github/scripts/graphql.sh Patient | |
- name: GraphQL Observation | |
run: .github/scripts/graphql.sh Observation | |
- name: Link Header Encoding | |
run: .github/scripts/link-header-encoding.sh | |
- name: Paging uses a Stable Snapshot of the Database (Patient) | |
run: .github/scripts/follow-patient-next-link-after-write.sh | |
- name: Paging uses a Stable Snapshot of the Database (system) | |
run: .github/scripts/follow-system-next-link-after-write.sh | |
- name: Create Patient | |
run: .github/scripts/create-patient.sh | |
- name: Read Ignores T | |
run: .github/scripts/read-ignores-t.sh | |
- name: Patient Everything | |
run: .github/scripts/patient-everything.sh | |
- name: Patient Everything with Date Range | |
run: .github/scripts/patient-everything-date-range.sh | |
- name: Patient Everything Paged | |
run: .github/scripts/patient-everything-paged.sh | |
- name: Patient Everything Paged with Date Range | |
run: .github/scripts/patient-everything-paged-date-range.sh | |
- name: Patient Identical Update | |
run: .github/scripts/patient-identical-update.sh | |
- name: System History | |
run: .github/scripts/system-history-paged.sh | |
- name: Patient History | |
run: .github/scripts/patient-history-paged.sh | |
- name: Patient X79746011X History | |
run: .github/scripts/single-patient-history.sh X79746011X | |
- name: History Paging uses a Stable Snapshot of the Database (system) | |
run: .github/scripts/follow-system-history-next-link-after-write.sh | |
- name: History Paging uses a Stable Snapshot of the Database (Patient) | |
run: .github/scripts/follow-patient-history-next-link-after-write.sh | |
- name: History Paging uses a Stable Snapshot of the Database (single Patient) | |
run: .github/scripts/follow-single-patient-history-next-link-after-write.sh | |
- name: Count Async 17861-6 | |
run: .github/scripts/count-async.sh "17861-6" "299" | |
- name: Count Async 8310-5 | |
run: .github/scripts/count-async.sh "8310-5" "512" | |
- name: Cancel Async Query | |
run: .github/scripts/cancel-async.sh | |
- name: Search _tag | |
run: .github/scripts/search-tag.sh | |
- name: Conditional Delete - Check Referential Integrity Violated | |
run: .github/scripts/conditional-delete-type/check-referential-integrity-violated.sh | |
- name: Conditional Delete - Delete All Provenance Resources | |
run: .github/scripts/conditional-delete-type/delete-all-resources-of-type.sh "Provenance" | |
- name: Conditional Delete - Delete All Observation Resources Fails | |
run: .github/scripts/conditional-delete-type/delete-all-observation-resources-fails.sh | |
- name: Create Patient With Ancient Birth Year | |
run: .github/scripts/create-patient-with-ancient-birth-year.sh | |
- name: Delete History | |
run: .github/scripts/delete-history.sh | |
- name: Conditional Delete - Delete All List Resources | |
run: .github/scripts/conditional-delete-type/delete-all-resources-of-type.sh "List" | |
- name: Patient Purge | |
run: .github/scripts/patient-purge.sh | |
- name: Prometheus Metrics | |
run: .github/scripts/test-metrics.sh | |
if: ${{ matrix.variant == 'standalone' }} | |
- name: Prometheus Metrics - Blaze 1 | |
run: curl -sf http://localhost:8081/metrics | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Prometheus Metrics - Blaze 2 | |
run: curl -sf http://localhost:8082/metrics | |
if: ${{ matrix.variant == 'distributed' }} | |
- name: Docker Stats | |
run: docker stats --no-stream | |
integration-test-synthea-1000: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e DB_BLOCK_CACHE_SIZE=2048 -e ENABLE_ADMIN_API=true -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Check Referential Integrity Enforced | |
run: .github/scripts/check-referential-integrity-enforced.sh | |
- name: Download Synthea Test Data | |
run: wget https://speicherwolke.uni-leipzig.de/index.php/s/kDsa2ifeMFdqK35/download/synthea-1000.tar | |
- name: Create Synthea Test Data Dir | |
run: mkdir test-data-synthea-1000 | |
- name: Unpack Synthea Test Data | |
run: tar -C test-data-synthea-1000 -xf synthea-1000.tar | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload test-data-synthea-1000 | |
- name: Compact All Column Families | |
run: .github/scripts/compact-all.sh | |
- name: Check Total-Number of Resources are 1099594 | |
run: .github/scripts/check-total-number-of-resources.sh 1099594 | |
- name: Count the number of Patients with Stress Conditions at Inpatient Encounters using FHIR Search | |
run: .github/scripts/count-patients.sh Condition "code=http://snomed.info/sct|73595000&encounter.class=http://terminology.hl7.org/CodeSystem/v3-ActCode|IMP" 13 | |
- name: Count the number of Patients with Stress Conditions at Inpatient Encounters using CQL | |
run: .github/scripts/evaluate-measure-blazectl.sh inpatient-stress 13 | |
- name: Condition Code Stratifier | |
run: .github/scripts/evaluate-measure-blazectl-stratifier.sh stratifier-condition-code 51599 | |
- name: Patient Everything Too Costly | |
run: .github/scripts/patient-everything-too-costly.sh | |
- name: Patient Everything Paged | |
run: .github/scripts/patient-everything-paged-1000.sh | |
- name: Docker Stats | |
run: docker stats --no-stream | |
integration-test-patient-purge: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e DB_BLOCK_CACHE_SIZE=512 -e ENABLE_OPERATION_PATIENT_PURGE=true -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Check Referential Integrity Enforced | |
run: .github/scripts/check-referential-integrity-enforced.sh | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/synthea | |
- name: Check Total-Number of Resources are 92114 | |
run: .github/scripts/check-total-number-of-resources.sh 92114 | |
- name: Patient Purge all | |
run: .github/scripts/patient-purge-all.sh | |
- name: Download All Resources | |
run: .github/scripts/download-all-resources.sh | |
- name: Download Patient Resources | |
run: .github/scripts/download-resources.sh Patient | |
- name: Check Resource Totals | |
run: .github/scripts/check-resource-totals-after-patient-purge.sh | |
- name: Docker Stats | |
run: docker stats --no-stream | |
not-enforcing-referential-integrity-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ENFORCE_REFERENTIAL_INTEGRITY=false -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Check Referential Integrity Not Enforced | |
run: .github/scripts/check-referential-integrity-not-enforced.sh | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload -c1 .github/test-data/etl | |
- name: Check Total-Number of Resources are 5 | |
run: .github/scripts/check-total-number-of-resources.sh 5 | |
- name: Check Referential Integrity Not Enforced For Delete | |
run: .github/scripts/check-referential-integrity-for-delete.sh 204 | |
admin-api-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ENABLE_ADMIN_API=true -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Create Invalid Jobs | |
run: .github/scripts/admin-api/create-invalid-jobs.sh | |
- name: Create Async Job | |
run: .github/scripts/admin-api/async-job.sh | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/synthea | |
- name: Compact Unknown Database | |
run: .github/scripts/compact-unknown-database.sh | |
# This test uploads many small transactions in order to show that Blaze can handle many small requests containing | |
# chunked payload blazectl uses. Versions of Blaze from 0.13.2 to 0.15.3, starting with the migration to Jetty, had | |
# the problem that the JSON parser did not read the entire inputstream so that terminal chunks could remain, which | |
# caused Jetty to close the stream. | |
small-transactions-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Generate Test Data | |
run: mkdir .github/test-data/small-txs && .github/scripts/gen-bundle-ndjson.sh > .github/test-data/small-txs/bundles.ndjson | |
- name: Load Data Sequentially | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload -c 1 .github/test-data/small-txs | |
- name: Load Data with Concurrency 2 | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload -c 2 .github/test-data/small-txs | |
big-transaction-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/big-tx | |
evaluate-measure-timeout-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e FHIR_OPERATION_EVALUATE_MEASURE_TIMEOUT=10 -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/synthea | |
- name: Evaluate CQL Query 1 | |
run: .github/scripts/evaluate-measure-timeout.sh q1 | |
include-without-referential-integrity-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ENFORCE_REFERENTIAL_INTEGRITY=false -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Test Include | |
run: .github/scripts/include-without-referential-integrity.sh | |
chaining-without-referential-integrity-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ENFORCE_REFERENTIAL_INTEGRITY=false -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Test Chaining | |
run: .github/scripts/chaining-without-referential-integrity.sh | |
# Test that a transaction can create a transaction bundle with references that will be taken "as-is" and not tried to | |
# resolve to existing resources | |
bundle-with-references-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/bundle-with-references | |
jepsen-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Java | |
uses: actions/setup-java@8df1039502a15bceb9433410b1a100fbe190c53b # v4 | |
with: | |
distribution: 'temurin' | |
java-version: '21' | |
- name: Setup Clojure | |
uses: DeLaGuardo/setup-clojure@94d767dbb80ae5c637d0f1ad70b75fa2b00495cd # 13.0 | |
with: | |
cli: '1.12.0.1479' | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Cache Local Maven Repo | |
uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4 | |
with: | |
path: ~/.m2/repository | |
key: ${{ runner.os }}-temurin-21-maven-jepsen-${{ hashFiles('modules/jepsen/deps.edn') }} | |
- name: APT Update | |
run: sudo apt-get update | |
- name: Install Gnuplot | |
run: sudo apt-get install gnuplot | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ENABLE_INTERACTION_DELETE_HISTORY=true -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Jepsen Register Test | |
run: make -C modules/jepsen register-test-fast | |
- name: Jepsen Resource History Test | |
run: make -C modules/jepsen resource-history-test-fast | |
openid-auth-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Keycloak | |
run: docker compose -f .github/openid-auth-test/docker-compose.yml up -d keycloak | |
- name: Wait for Keycloak | |
run: .github/scripts/wait-for-url.sh http://localhost:8090/health/ready | |
- name: Run Blaze | |
run: docker compose -f .github/openid-auth-test/docker-compose.yml up -d blaze | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs Keycloak | |
run: docker compose -f .github/openid-auth-test/docker-compose.yml logs keycloak | |
- name: Docker Logs Blaze | |
run: docker compose -f .github/openid-auth-test/docker-compose.yml logs blaze | |
- name: Unauthenticated Request | |
run: test "MSG_AUTH_REQUIRED" = "$(curl -s http://localhost:8080/fhir | jq -r .issue[0].details.coding[0].code)" | |
- name: Authenticated Request | |
run: .github/scripts/authenticated-request.sh | |
custom-search-parameters-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Keycloak and Blaze | |
run: docker compose -f .github/custom-search-parameters-test/docker-compose.yml up -d | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs Blaze | |
run: docker compose -f .github/custom-search-parameters-test/docker-compose.yml logs blaze | |
- name: Create Patient | |
run: .github/custom-search-parameters-test/create-patient.sh | |
- name: Search Patient | |
run: .github/custom-search-parameters-test/search-patient.sh | |
doc-copy-data-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Test Setup | |
run: docker compose -f docs/data-sync/copy/docker-compose.yml -f .github/doc-copy-data-test/docker-compose.override.yml up -d | |
- name: Wait for Source Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Load Data Into Source Blaze | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/synthea | |
- name: Wait for Destination Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8082/health | |
- name: Copy All Resources from Source to Destination | |
run: scripts/copy-data.sh http://localhost:8080/fhir http://localhost:8082/fhir | |
- name: Download Source Patients | |
run: blazectl download --server http://localhost:8080/fhir Patient | jq -c 'del(.meta.versionId) | del(.meta.lastUpdated)' > src-patients.ndjson | |
- name: Download Destination Patients | |
run: blazectl download --server http://localhost:8082/fhir Patient | jq -c 'del(.meta.versionId) | del(.meta.lastUpdated)' > dst-patients.ndjson | |
- name: Compare Source and Destination Patients | |
run: diff src-patients.ndjson dst-patients.ndjson | |
big-binary-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e DB_RESOURCE_CACHE_SIZE=0 -p 8080:8080 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Generate Large Binary Resources (JSON and XML) | |
run: .github/scripts/generate-large-binary-resource.sh | |
- name: Post Large Binary JSON Resource | |
run: curl -f -H Content-Type:application/fhir+json -H Prefer:return=minimal -d @large-binary.json http://localhost:8080/fhir/Binary | |
- name: Post Large Binary XML Resource | |
run: curl -f -H Content-Type:application/fhir+xml -H Prefer:return=minimal -d @large-binary.xml http://localhost:8080/fhir/Binary | |
- name: Download Both Resources | |
run: test "2" = "$(curl -s http://localhost:8080/fhir/Binary | jq .total)" | |
frontend-test: | |
needs: [ build, build-frontend ] | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Setup Node | |
uses: actions/setup-node@39370e3970a6d050c480ffad4ff0ed4d3fdee5af # v4 | |
with: | |
node-version: 21 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Download Blaze Frontend Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-frontend-image | |
path: /tmp | |
- name: Load Blaze Frontend Image | |
run: docker load --input /tmp/blaze-frontend.tar | |
# https://bugs.webkit.org/show_bug.cgi?id=160504 | |
- name: Add Blaze Localhost Entry needed for Webkit | |
run: | | |
sudo echo "127.0.0.1 blaze.localhost" | sudo tee -a /etc/hosts | |
sudo echo "127.0.0.1 keycloak.localhost" | sudo tee -a /etc/hosts | |
- name: Generate Ingress Certificates | |
run: make build-ingress | |
- name: Run Keycloak | |
run: docker compose -f modules/frontend-e2e/docker-compose.yml up -d keycloak | |
- name: Sleep 20 Seconds | |
run: sleep 20 | |
- name: Run Everything Else | |
run: docker compose -f modules/frontend-e2e/docker-compose.yml up -d | |
- name: Sleep 30 Seconds | |
run: sleep 30 | |
- name: Docker Logs | |
run: docker compose -f modules/frontend-e2e/docker-compose.yml logs | |
- name: Load Data | |
run: modules/frontend-e2e/upload.sh | |
- name: Check Frontend | |
run: .github/scripts/check-frontend.sh | |
- name: Check Column Family resource-as-of-index | |
run: .github/scripts/admin-api/column-family-metadata.sh resource-as-of-index | |
- name: Check Column Family search-param-value-index | |
run: .github/scripts/admin-api/column-family-metadata.sh search-param-value-index | |
- name: Download Patient Resources | |
run: modules/frontend-e2e/download-patient-resources.sh | |
- name: Install Playwright | |
run: make -C modules/frontend-e2e install | |
- name: Run Playwright Tests | |
run: make -C modules/frontend-e2e test | |
- uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4 | |
with: | |
name: playwright-report | |
path: modules/frontend-e2e/playwright-report/ | |
missing-resource-content-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Create a Data Dir | |
run: mkdir data | |
- name: Run Blaze | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -p 8080:8080 --read-only --tmpfs /tmp:exec -v "$(pwd)/data:/app/data" blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Docker Logs | |
run: docker logs blaze | |
- name: Create Patient | |
run: .github/scripts/create-patient-0.sh | |
- name: Stop Blaze | |
run: docker stop blaze | |
- name: Remove Resource Database | |
run: rm -r data/resource | |
- name: Start Blaze Again | |
run: docker start blaze | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
# TODO: Reactivate if we have an idea how to handle the missing DocumentReference | |
# of the page ID cipher at startup. | |
#- name: Fetch Patient Expecting an Error | |
# run: .github/scripts/fetch-resource-0-with-missing-resource-content.sh | |
# This test ensures that older versions of Blaze will migrate successfully to | |
# the new database schema especially building the PatientLastChange index. | |
build-patient-last-change-index-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Install Blazectl | |
run: .github/scripts/install-blazectl.sh | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Blaze in the Version 0.27 before Introduction of the PatientLastChange Index | |
run: docker run --name blaze --rm -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ENABLE_ADMIN_API=true -p 8080:8080 -v blaze-data:/app/data samply/blaze:0.27 | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Load Data | |
run: blazectl --no-progress --server http://localhost:8080/fhir upload .github/test-data/synthea | |
- name: Ensure that the PatientLastChange Index does not exist | |
run: .github/scripts/check-patient-last-change-index-missing.sh | |
- name: Shut down Blaze | |
run: docker stop blaze | |
- name: Run Latest Blaze with the PatientLastChange Index | |
run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ENABLE_ADMIN_API=true -e LOG_LEVEL=debug -p 8080:8080 -v blaze-data:/app/data blaze:latest | |
- name: Wait for Blaze | |
run: .github/scripts/wait-for-url.sh http://localhost:8080/health | |
- name: Ensure that the State of PatientLastChange Index is Current | |
run: .github/scripts/check-patient-last-change-index-state.sh current | |
jepsen-distributed-test: | |
needs: build | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Setup Java | |
uses: actions/setup-java@8df1039502a15bceb9433410b1a100fbe190c53b # v4 | |
with: | |
distribution: 'temurin' | |
java-version: '21' | |
- name: Setup Clojure | |
uses: DeLaGuardo/setup-clojure@94d767dbb80ae5c637d0f1ad70b75fa2b00495cd # 13.0 | |
with: | |
cli: '1.12.0.1479' | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Cache Local Maven Repo | |
uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4 | |
with: | |
path: ~/.m2/repository | |
key: ${{ runner.os }}-temurin-21-maven-jepsen-${{ hashFiles('modules/jepsen/deps.edn') }} | |
- name: APT Update | |
run: sudo apt-get update | |
- name: Install Gnuplot | |
run: sudo apt-get install gnuplot | |
- name: Download Blaze Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-image | |
path: /tmp | |
- name: Load Blaze Image | |
run: docker load --input /tmp/blaze.tar | |
- name: Run Kafka, Cassandra and Blaze | |
run: docker compose -f .github/distributed-test/docker-compose.yml up -d | |
- name: Wait for Blaze 1 | |
run: .github/scripts/wait-for-url.sh http://localhost:8081/metrics | |
- name: Wait for Blaze 2 | |
run: .github/scripts/wait-for-url.sh http://localhost:8082/metrics | |
- name: Docker Logs Kafka | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs kafka | |
- name: Docker Logs Cassandra 1 | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs cassandra-1 | |
- name: Docker Logs Cassandra 2 | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs cassandra-2 | |
- name: Docker Logs Blaze 1 | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs blaze-1 | |
- name: Docker Logs Blaze 2 | |
run: docker compose -f .github/distributed-test/docker-compose.yml logs blaze-2 | |
- name: Docker Stats | |
run: docker stats --no-stream | |
- name: Check Capability Statement | |
run: .github/scripts/check-capability-statement.sh | |
- name: Jepsen Register Test | |
run: make -C modules/jepsen register-test-slow | |
- name: Jepsen Resource History Test | |
run: make -C modules/jepsen resource-history-test-slow | |
- name: Docker Stats | |
run: docker stats --no-stream | |
# This job exists only as status check target for the branch protection | |
# because we can't use push-image as this isn't executed in forks. | |
pre-push-image: | |
needs: | |
- fmt | |
- lint | |
- test | |
- test-root | |
- image-scan | |
- cql-expr-cache-test | |
- integration-test | |
- integration-test-synthea-1000 | |
- integration-test-patient-purge | |
- not-enforcing-referential-integrity-test | |
- admin-api-test | |
- small-transactions-test | |
- big-transaction-test | |
- evaluate-measure-timeout-test | |
- include-without-referential-integrity-test | |
- chaining-without-referential-integrity-test | |
- bundle-with-references-test | |
- jepsen-test | |
- jepsen-distributed-test | |
- openid-auth-test | |
- doc-copy-data-test | |
- big-binary-test | |
- frontend-test | |
- missing-resource-content-test | |
- custom-search-parameters-test | |
- build-patient-last-change-index-test | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
push-image: | |
if: github.event_name != 'pull_request' || (github.event.pull_request.base.repo.full_name == github.event.pull_request.head.repo.full_name) | |
needs: | |
- pre-push-image | |
runs-on: ubuntu-24.04 | |
permissions: | |
packages: write | |
strategy: | |
matrix: | |
image: | |
- name: ${{ github.event.repository.name }} | |
context: . | |
- name: ${{ github.event.repository.name }}-frontend | |
context: modules/frontend | |
env: | |
dockerhub_username: ${{ secrets.DOCKERHUB_USERNAME }} | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Download Blaze Uberjar | |
if: ${{ matrix.image.context == '.' }} | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: blaze-uberjar | |
path: target | |
- name: Setup Node | |
if: ${{ matrix.image.context == 'modules/frontend' }} | |
uses: actions/setup-node@39370e3970a6d050c480ffad4ff0ed4d3fdee5af # v4 | |
with: | |
node-version: 21 | |
- name: Build Frontend | |
if: ${{ matrix.image.context == 'modules/frontend' }} | |
run: make build-frontend | |
- name: Download Image | |
uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
with: | |
name: ${{ matrix.image.name }}-image | |
path: /tmp | |
- name: Load Image | |
run: docker load --input /tmp/${{ matrix.image.name }}.tar | |
- name: Set up QEMU | |
uses: docker/setup-qemu-action@49b3bc8e6bdd4a60e6116a5414239cba5943d3cf # v3 | |
- name: Set up Docker Buildx | |
uses: docker/setup-buildx-action@c47758b77c9736f4b2ef4073d4d51994fabfe349 # v3 | |
- name: Login to GHCR | |
uses: docker/login-action@9780b0c442fbb1117ed29e0efdff1e18412f7567 # v3 | |
with: | |
registry: ghcr.io | |
username: ${{ github.repository_owner }} | |
password: ${{ secrets.GITHUB_TOKEN }} | |
- name: GHCR meta | |
id: ghcr-meta | |
uses: docker/metadata-action@369eb591f429131d6889c46b94e711f089e6ca96 # v5 | |
with: | |
images: | | |
ghcr.io/${{ github.repository_owner }}/${{ matrix.image.name }} | |
tags: | | |
type=schedule | |
type=ref,event=branch | |
type=ref,event=pr | |
type=semver,pattern={{version}} | |
type=semver,pattern={{major}}.{{minor}} | |
- name: Build and push to GHCR | |
uses: docker/build-push-action@4f58ea79222b3b9dc2c8bbdd6debcef730109a75 # v6 | |
with: | |
context: ${{ matrix.image.context }} | |
platforms: linux/amd64,linux/arm64 | |
push: true | |
tags: ${{ steps.ghcr-meta.outputs.tags }} | |
labels: ${{ steps.ghcr-meta.outputs.labels }} | |
- name: Login to DockerHub | |
if: ${{ env.dockerhub_username != '' }} | |
uses: docker/login-action@9780b0c442fbb1117ed29e0efdff1e18412f7567 # v3 | |
with: | |
username: ${{ secrets.DOCKERHUB_USERNAME }} | |
password: ${{ secrets.DOCKERHUB_TOKEN }} | |
- name: DockerHub meta | |
if: ${{ env.dockerhub_username != '' }} | |
id: dockerhub-meta | |
uses: docker/metadata-action@369eb591f429131d6889c46b94e711f089e6ca96 # v5 | |
with: | |
images: | | |
${{ github.repository_owner }}/${{ matrix.image.name }} | |
tags: | | |
type=schedule | |
type=ref,event=branch | |
type=ref,event=pr | |
type=semver,pattern={{version}} | |
type=semver,pattern={{major}}.{{minor}} | |
- name: Build and push to DockerHub | |
if: ${{ env.dockerhub_username != '' }} | |
uses: docker/build-push-action@4f58ea79222b3b9dc2c8bbdd6debcef730109a75 # v6 | |
with: | |
context: ${{ matrix.image.context }} | |
platforms: linux/amd64,linux/arm64 | |
push: true | |
tags: ${{ steps.dockerhub-meta.outputs.tags }} | |
labels: ${{ steps.dockerhub-meta.outputs.labels }} | |
release: | |
if: github.ref_type == 'tag' | |
needs: | |
- push-image | |
runs-on: ubuntu-24.04 | |
permissions: | |
contents: write | |
steps: | |
- name: Release | |
uses: softprops/action-gh-release@e7a8f85e1c67a31e6ed99a94b41bd0b71bbee6b8 # v2 | |
with: | |
files: target/blaze-*-standalone.jar | |
build-pages: | |
runs-on: ubuntu-24.04 | |
steps: | |
- name: Check out Git repository | |
uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4 | |
- name: Setup Node | |
uses: actions/setup-node@39370e3970a6d050c480ffad4ff0ed4d3fdee5af # v4 | |
with: | |
node-version: 21 | |
cache: npm | |
cache-dependency-path: 'docs/package-lock.json' | |
- name: Build | |
working-directory: docs | |
env: | |
DOCS_BASE: "/${{ github.event.repository.name }}/" | |
run: make build | |
- name: Setup Pages | |
uses: actions/configure-pages@983d7736d9b0ae728b81ab479565c72886d7745b # v5 | |
- name: Upload artifact | |
uses: actions/upload-pages-artifact@56afc609e74202658d3ffba0e8f6dda462b719fa # v3 | |
with: | |
path: docs/.vitepress/dist | |
deploy-pages: | |
if: github.ref == 'refs/heads/main' | |
runs-on: ubuntu-24.04 | |
needs: [ build-pages ] | |
permissions: | |
pages: write | |
id-token: write | |
environment: | |
name: github-pages | |
url: ${{ steps.deployment.outputs.page_url }} | |
steps: | |
- name: Deploy to GitHub Pages | |
id: deployment | |
uses: actions/deploy-pages@d6db90164ac5ed86f2b6aed7e0febac5b3c0c03e # v4 |