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Release v0.30.1
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‎.github/distributed-test/docker-compose.yml

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@@ -125,6 +125,8 @@ services:
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DB_RESOURCE_CACHE_SIZE: "100000"
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DB_RESOURCE_INDEXER_THREADS: "8"
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ALLOW_MULTIPLE_DELETE: "true"
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ENABLE_INTERACTION_DELETE_HISTORY: "true"
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ENABLE_OPERATION_PATIENT_PURGE: "true"
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ports:
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- "8081:8081"
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volumes:
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DB_RESOURCE_CACHE_SIZE: "100000"
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DB_RESOURCE_INDEXER_THREADS: "8"
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ALLOW_MULTIPLE_DELETE: "true"
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ENABLE_INTERACTION_DELETE_HISTORY: "true"
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ENABLE_OPERATION_PATIENT_PURGE: "true"
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ports:
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- "8082:8081"
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volumes:

‎.github/workflows/build.yml

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@@ -293,7 +293,7 @@ jobs:
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uses: actions/cache@3624ceb22c1c5a301c8db4169662070a689d9ea8 # v4
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with:
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path: ~/.m2/repository
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key: ${{ runner.os }}-temurin-17-maven-build-${{ hashFiles('**/deps.edn') }}
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key: ${{ runner.os }}-temurin-21-maven-build-${{ hashFiles('**/deps.edn') }}
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- name: Download Job IG Profiles
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uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4
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run: docker load --input /tmp/blaze.tar
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- name: Run Blaze
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run: docker run --name blaze -d -e JAVA_TOOL_OPTIONS=-Xmx2g -e ALLOW_MULTIPLE_DELETE=true -p 8080:8080 -p 8081:8081 --read-only --tmpfs /tmp:exec -v blaze-data:/app/data blaze:latest
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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
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if: ${{ matrix.variant == 'standalone' }}
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- name: Run Kafka, Cassandra and Blaze
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uses: actions/cache@3624ceb22c1c5a301c8db4169662070a689d9ea8 # v4
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with:
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path: ~/.m2/repository
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key: ${{ runner.os }}-temurin-17-maven-jepsen-${{ hashFiles('modules/jepsen/deps.edn') }}
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key: ${{ runner.os }}-temurin-21-maven-jepsen-${{ hashFiles('modules/jepsen/deps.edn') }}
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- name: APT Update
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run: sudo apt-get update
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run: docker load --input /tmp/blaze.tar
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- name: Run Blaze
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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
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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
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- name: Wait for Blaze
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run: .github/scripts/wait-for-url.sh http://localhost:8080/health
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uses: actions/cache@3624ceb22c1c5a301c8db4169662070a689d9ea8 # v4
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with:
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path: ~/.m2/repository
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key: ${{ runner.os }}-temurin-17-maven-jepsen-${{ hashFiles('modules/jepsen/deps.edn') }}
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key: ${{ runner.os }}-temurin-21-maven-jepsen-${{ hashFiles('modules/jepsen/deps.edn') }}
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- name: APT Update
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run: sudo apt-get update

‎CHANGELOG.md

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# Changelog
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## v0.30.1
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### Bugfixes
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* Fix Returning Resources with Non-Matching Identifier ([#2111](https://github.com/samply/blaze/issues/2111))
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### Enhancements (alpha)
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* Implement the delete-history Command ([#1382](https://github.com/samply/blaze/issues/1382)) ([docs](https://github.com/samply/blaze/blob/main/docs/api.md#delete-history))
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* Implement Operation $purge on Patient ([#1298](https://github.com/samply/blaze/issues/1298)) ([docs](https://github.com/samply/blaze/blob/main/docs/api/operation-patient-purge.md))
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The full changelog can be found [here](https://github.com/samply/blaze/milestone/99?closed=1).
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## v0.30.0
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### Enhancements

‎Dockerfile

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rm -rf /var/lib/apt/lists/
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RUN mkdir -p /app/data && chown 1001:1001 /app/data
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COPY target/blaze-0.30.0-standalone.jar /app/
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COPY target/blaze-0.30.1-standalone.jar /app/
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WORKDIR /app
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USER 1001
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ENV ADMIN_INDEX_DB_DIR="/app/data/admin-index"
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ENV ADMIN_TRANSACTION_DB_DIR="/app/data/admin-transaction"
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CMD ["java", "-jar", "blaze-0.30.0-standalone.jar"]
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CMD ["java", "-jar", "blaze-0.30.1-standalone.jar"]

‎README.md

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Blaze is widely used in the [Medical Informatics Initiative](https://www.medizininformatik-initiative.de) in Germany and in [Biobanks](https://www.bbmri-eric.eu) across Europe. A 1.0 version is expected in the next months.
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Latest release: [v0.30.0][5]
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Latest release: [v0.30.1][5]
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## Quick Start
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[3]: <https://cql.hl7.org/tests.html>
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[4]: <https://alexanderkiel.gitbook.io/blaze/deployment>
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[5]: <https://github.com/samply/blaze/releases/tag/v0.30.0>
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[5]: <https://github.com/samply/blaze/releases/tag/v0.30.1>
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[6]: <https://www.yourkit.com/java/profiler/>
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[7]: <https://www.yourkit.com/.net/profiler/>
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[8]: <https://www.yourkit.com/youmonitor/>

‎build.clj

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[java.time LocalDate]))
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(def lib 'samply/blaze)
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(def version "0.30.0")
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(def version "0.30.1")
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(def class-dir "target/classes")
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(def basis (b/create-basis {:project "deps.edn"}))
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(def uber-file (format "target/%s-%s-standalone.jar" (name lib) version))

‎docs/.vitepress/config.ts

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nav: [
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{text: 'Home', link: '/'},
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{
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text: "v0.30.0",
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text: "v0.30.1",
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items: [
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{
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text: 'Changelog',

‎docs/api.md

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### Delete History
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> [!CAUTION]
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> The delete history interaction is currently **alpha** and has to be enabled explicitly by setting the env var `ENABLE_INTERACTION_DELETE_HISTORY` to true. Please don't use it in production. Please be aware that the database might not be able to migrate to a newer version of Blaze if the operation was used.
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> [!CAUTION]
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> The delete history interaction is trial use in the unreleased next version of FHIR. So it is subject to change. Please use it with care.
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‎docs/api/operation-patient-purge.md

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# Operation Patient Purge
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# Operation \$purge on Patient
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> [!CAUTION]
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> The patient $purge operation is trial use in the unreleased next version of FHIR. So it is subject to change. Please use it with care.
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> The operation \$purge on patient is currently **alpha** and has to be enabled explicitly by setting the env var `ENABLE_OPERATION_PATIENT_PURGE` to true. Please don't use it in production. Please be aware that the database might not be able to migrate to a newer version of Blaze if the operation was used.
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> [!CAUTION]
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> The operation \$purge on patient is trial use in the unreleased next version of FHIR (R6). So it is subject to change. Please use it with care.
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The patient \$purge operation is used to request the removal of all current and historical versions for all resources in a patient compartment. The return is an OperationOutcome with results and/or details about execution. The `code` of the first issue of the OperationOutcome is either `success` on successful purging of all resources or an error.
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‎docs/deployment/environment-variables.md

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### Other Environment Variables
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| Name | Default | Since | Depr ¹ | Description |
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|:----------------------------------------|:---------------------------|:-------|--------|:------------------------------------------------------------------------------------------------------------|
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| PROXY_HOST | — | v0.6 | — | REMOVED: use -Dhttp.proxyHost |
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| PROXY_PORT | — | v0.6 | — | REMOVED: use -Dhttp.proxyPort |
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| PROXY_USER | — | v0.6.1 | — | REMOVED: try [SOCKS Options][1] |
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| PROXY_PASSWORD | — | v0.6.1 | — | REMOVED: try [SOCKS Options][1] |
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| CONNECTION_TIMEOUT | 5 s | v0.6.3 | — | connection timeout for outbound HTTP requests |
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| REQUEST_TIMEOUT | 30 s | v0.6.3 | — | REMOVED |
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| TERM_SERVICE_URI | [http://tx.fhir.org/r4][6] | v0.6 | v0.11 | Base URI of the terminology service |
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| BASE_URL | `http://localhost:8080` | — | — | The URL under which Blaze is accessible by clients. |
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| CONTEXT_PATH | /fhir | v0.11 | — | Context path under which the FHIR RESTful API will be accessible. |
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| SERVER_PORT | 8080 | — | — | The port of the main HTTP server |
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| METRICS_SERVER_PORT | 8081 | v0.6 | — | The port of the Prometheus metrics server |
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| LOG_LEVEL | info | v0.6 | — | one of trace, debug, info, warn or error |
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| JAVA_TOOL_OPTIONS | — | — | — | JVM options \(Docker only\) |
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| FHIR_OPERATION_EVALUATE_MEASURE_THREADS | number of CPUs | v0.8 | — | The number threads used for $evaluate-measure executions. |
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| FHIR_OPERATION_EVALUATE_MEASURE_TIMEOUT | 3600000 (1h) | v0.19 | — | Timeout in milliseconds for synchronous $evaluate-measure executions. |
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| OPENID_PROVIDER_URL | — | v0.11 | — | [OpenID Connect][4] provider URL to enable [authentication][5] |
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| OPENID_CLIENT_TRUST_STORE | — | v0.26 | — | A PKCS #12 trust store containing CA certificates needed for the [OpenID Connect][4] provider. |
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| OPENID_CLIENT_TRUST_STORE_PASS | — | v0.26 | — | The password for the PKCS #12 trust store. |
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| ENFORCE_REFERENTIAL_INTEGRITY | true | v0.14 | — | Enforce referential integrity on resource create, update and delete. |
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| DB_SYNC_TIMEOUT | 10000 | v0.15 | — | Timeout in milliseconds for all reading FHIR interactions acquiring the newest database state. |
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| DB_SEARCH_PARAM_BUNDLE | — | v0.21 | — | Name of a custom search parameter bundle file. |
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| ENABLE_ADMIN_API | — | v0.26 | — | Set to `true` if the optional Admin API should be enabled. Needed by the frontend. |
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| CQL_EXPR_CACHE_SIZE | — | v0.28 | — | Size of the CQL expression cache in MiB. This cache is part of the JVM heap. Will be disabled if not given. |
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| CQL_EXPR_CACHE_REFRESH | PT24H | v0.28 | — | The duration after which a Bloom filter of the CQL expression cache will be refreshed. |
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| CQL_EXPR_CACHE_THREADS | 4 | v0.28 | — | The maximum number of parallel Bloom filter calculations for the CQL expression cache. |
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| ALLOW_MULTIPLE_DELETE | false | v0.30 | — | Allow deleting multiple resources using [Conditional Delete](../api.md#conditional-delete). |
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| Name | Default | Since | Depr ¹ | Description |
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|:----------------------------------------|:---------------------------|:--------|--------|:------------------------------------------------------------------------------------------------------------|
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| PROXY_HOST | — | v0.6 | — | REMOVED: use -Dhttp.proxyHost |
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| PROXY_PORT | — | v0.6 | — | REMOVED: use -Dhttp.proxyPort |
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| PROXY_USER | — | v0.6.1 | — | REMOVED: try [SOCKS Options][1] |
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| PROXY_PASSWORD | — | v0.6.1 | — | REMOVED: try [SOCKS Options][1] |
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| CONNECTION_TIMEOUT | 5 s | v0.6.3 | — | connection timeout for outbound HTTP requests |
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| REQUEST_TIMEOUT | 30 s | v0.6.3 | — | REMOVED |
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| TERM_SERVICE_URI | [http://tx.fhir.org/r4][6] | v0.6 | v0.11 | Base URI of the terminology service |
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| BASE_URL | `http://localhost:8080` | — | — | The URL under which Blaze is accessible by clients. |
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| CONTEXT_PATH | /fhir | v0.11 | — | Context path under which the FHIR RESTful API will be accessible. |
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| SERVER_PORT | 8080 | — | — | The port of the main HTTP server |
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| METRICS_SERVER_PORT | 8081 | v0.6 | — | The port of the Prometheus metrics server |
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| LOG_LEVEL | info | v0.6 | — | one of trace, debug, info, warn or error |
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| JAVA_TOOL_OPTIONS | — | — | — | JVM options \(Docker only\) |
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| FHIR_OPERATION_EVALUATE_MEASURE_THREADS | number of CPUs | v0.8 | — | The number threads used for $evaluate-measure executions. |
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| FHIR_OPERATION_EVALUATE_MEASURE_TIMEOUT | 3600000 (1h) | v0.19 | — | Timeout in milliseconds for synchronous $evaluate-measure executions. |
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| OPENID_PROVIDER_URL | — | v0.11 | — | [OpenID Connect][4] provider URL to enable [authentication][5] |
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| OPENID_CLIENT_TRUST_STORE | — | v0.26 | — | A PKCS #12 trust store containing CA certificates needed for the [OpenID Connect][4] provider. |
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| OPENID_CLIENT_TRUST_STORE_PASS | — | v0.26 | — | The password for the PKCS #12 trust store. |
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| ENFORCE_REFERENTIAL_INTEGRITY | true | v0.14 | — | Enforce referential integrity on resource create, update and delete. |
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| DB_SYNC_TIMEOUT | 10000 | v0.15 | — | Timeout in milliseconds for all reading FHIR interactions acquiring the newest database state. |
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| DB_SEARCH_PARAM_BUNDLE | — | v0.21 | — | Name of a custom search parameter bundle file. |
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| ENABLE_ADMIN_API | — | v0.26 | — | Set to `true` if the optional Admin API should be enabled. Needed by the frontend. |
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| CQL_EXPR_CACHE_SIZE | — | v0.28 | — | Size of the CQL expression cache in MiB. This cache is part of the JVM heap. Will be disabled if not given. |
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| CQL_EXPR_CACHE_REFRESH | PT24H | v0.28 | — | The duration after which a Bloom filter of the CQL expression cache will be refreshed. |
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| CQL_EXPR_CACHE_THREADS | 4 | v0.28 | — | The maximum number of parallel Bloom filter calculations for the CQL expression cache. |
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| ALLOW_MULTIPLE_DELETE | false | v0.30 | — | Allow deleting multiple resources using [Conditional Delete](../api.md#conditional-delete). |
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| ENABLE_INTERACTION_DELETE_HISTORY | - | v0.30.1 | — | Enable the [Delete History](../api.md#delete-history) interaction. |
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| ENABLE_OPERATION_PATIENT_PURGE | - | v0.30.1 | — | Enable the [Operation \$purge on Patient](../api/operation-patient-purge.md). |
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¹ Deprecated
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