From d662e8509ae2b97494d3563208eae2bddfd9f400 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?J=C3=B6rn=20Guy=20S=C3=BC=C3=9F?= Date: Tue, 15 Jul 2025 12:09:27 +1000 Subject: [PATCH] remove related build artifacts --- Build and Run for first time.bat | 211 ----------- build_and_run.sh | 147 -------- hapi-fhir-Setup/README.md | 111 ------ .../target/classes/application.yaml | 342 ------------------ 4 files changed, 811 deletions(-) delete mode 100644 Build and Run for first time.bat delete mode 100644 build_and_run.sh delete mode 100644 hapi-fhir-Setup/README.md delete mode 100644 hapi-fhir-Setup/target/classes/application.yaml diff --git a/Build and Run for first time.bat b/Build and Run for first time.bat deleted file mode 100644 index 9179731..0000000 --- a/Build and Run for first time.bat +++ /dev/null @@ -1,211 +0,0 @@ -@echo off -setlocal enabledelayedexpansion - -REM --- Configuration --- -set REPO_URL=https://github.com/hapifhir/hapi-fhir-jpaserver-starter.git -set CLONE_DIR=hapi-fhir-jpaserver -set SOURCE_CONFIG_DIR=hapi-fhir-setup -set CONFIG_FILE=application.yaml - -REM --- Define Paths --- -set SOURCE_CONFIG_PATH=..\%SOURCE_CONFIG_DIR%\target\classes\%CONFIG_FILE% -set DEST_CONFIG_PATH=%CLONE_DIR%\target\classes\%CONFIG_FILE% - -REM === CORRECTED: Prompt for Version === -:GetModeChoice -SET "APP_MODE=" REM Clear the variable first -echo Select Installation Mode: -echo 1. Standalone (Includes local HAPI FHIR Server - Requires Git & Maven) -echo 2. Lite (Excludes local HAPI FHIR Server - No Git/Maven needed) -CHOICE /C 12 /N /M "Enter your choice (1 or 2):" - -IF ERRORLEVEL 2 ( - SET APP_MODE=lite - goto :ModeSet -) -IF ERRORLEVEL 1 ( - SET APP_MODE=standalone - goto :ModeSet -) -REM If somehow neither was chosen (e.g., Ctrl+C), loop back -echo Invalid input. Please try again. -goto :GetModeChoice - -:ModeSet -IF "%APP_MODE%"=="" ( - echo Invalid choice detected after checks. Exiting. - goto :eof -) -echo Selected Mode: %APP_MODE% -echo. -REM === END CORRECTION === - - -REM === Conditionally Execute HAPI Setup === -IF "%APP_MODE%"=="standalone" ( - echo Running Standalone setup including HAPI FHIR... - echo. - - REM --- Step 0: Clean up previous clone (optional) --- - echo Checking for existing directory: %CLONE_DIR% - if exist "%CLONE_DIR%" ( - echo Found existing directory, removing it... - rmdir /s /q "%CLONE_DIR%" - if errorlevel 1 ( - echo ERROR: Failed to remove existing directory: %CLONE_DIR% - goto :error - ) - echo Existing directory removed. - ) else ( - echo Directory does not exist, proceeding with clone. - ) - echo. - - REM --- Step 1: Clone the HAPI FHIR server repository --- - echo Cloning repository: %REPO_URL% into %CLONE_DIR%... - git clone "%REPO_URL%" "%CLONE_DIR%" - if errorlevel 1 ( - echo ERROR: Failed to clone repository. Check Git installation and network connection. - goto :error - ) - echo Repository cloned successfully. - echo. - - REM --- Step 2: Navigate into the cloned directory --- - echo Changing directory to %CLONE_DIR%... - cd "%CLONE_DIR%" - if errorlevel 1 ( - echo ERROR: Failed to change directory to %CLONE_DIR%. - goto :error - ) - echo Current directory: %CD% - echo. - - REM --- Step 3: Build the HAPI server using Maven --- - echo ===> "Starting Maven build (Step 3)..."" - cmd /c "mvn clean package -DskipTests=true -Pboot" - echo ===> Maven command finished. Checking error level... - if errorlevel 1 ( - echo ERROR: Maven build failed or cmd /c failed - cd .. - goto :error - ) - echo Maven build completed successfully. ErrorLevel: %errorlevel% - echo. - - REM --- Step 4: Copy the configuration file --- - echo ===> "Starting file copy (Step 4)..." - echo Copying configuration file... - echo Source: %SOURCE_CONFIG_PATH% - echo Destination: target\classes\%CONFIG_FILE% - xcopy "%SOURCE_CONFIG_PATH%" "target\classes\" /Y /I - echo ===> xcopy command finished. Checking error level... - if errorlevel 1 ( - echo WARNING: Failed to copy configuration file. Check if the source file exists. - echo The script will continue, but the server might use default configuration. - ) else ( - echo Configuration file copied successfully. ErrorLevel: %errorlevel% - ) - echo. - - REM --- Step 5: Navigate back to the parent directory --- - echo ===> "Changing directory back (Step 5)..." - cd .. - if errorlevel 1 ( - echo ERROR: Failed to change back to the parent directory. ErrorLevel: %errorlevel% - goto :error - ) - echo Current directory: %CD% - echo. - -) ELSE ( - echo Running Lite setup, skipping HAPI FHIR build... - REM Ensure the hapi-fhir-jpaserver directory doesn't exist or is empty if Lite mode is chosen after a standalone attempt - if exist "%CLONE_DIR%" ( - echo Found existing HAPI directory in Lite mode. Removing it to avoid build issues... - rmdir /s /q "%CLONE_DIR%" - ) - REM Create empty target directories expected by Dockerfile COPY, even if not used - mkdir "%CLONE_DIR%\target\classes" 2> nul - mkdir "%CLONE_DIR%\custom" 2> nul - REM Create a placeholder empty WAR file to satisfy Dockerfile COPY - echo. > "%CLONE_DIR%\target\ROOT.war" - echo. > "%CLONE_DIR%\target\classes\application.yaml" - echo Placeholder files created for Lite mode build. - echo. -) - -REM === Modify docker-compose.yml to set APP_MODE === -echo Updating docker-compose.yml with APP_MODE=%APP_MODE%... -( - echo version: '3.8' - echo services: - echo fhirflare: - echo build: - echo context: . - echo dockerfile: Dockerfile - echo ports: - echo - "5000:5000" - echo - "8080:8080" # Keep port exposed, even if Tomcat isn't running useful stuff in Lite - echo volumes: - echo - ./instance:/app/instance - echo - ./static/uploads:/app/static/uploads - echo - ./instance/hapi-h2-data/:/app/h2-data # Keep volume mounts consistent - echo - ./logs:/app/logs - echo environment: - echo - FLASK_APP=app.py - echo - FLASK_ENV=development - echo - NODE_PATH=/usr/lib/node_modules - echo - APP_MODE=%APP_MODE% - echo - APP_BASE_URL=http://localhost:5000 - echo - HAPI_FHIR_URL=http://localhost:8080/fhir - echo command: supervisord -c /etc/supervisord.conf -) > docker-compose.yml.tmp - -REM Check if docker-compose.yml.tmp was created successfully -if not exist docker-compose.yml.tmp ( - echo ERROR: Failed to create temporary docker-compose file. - goto :error -) - -REM Replace the original docker-compose.yml -del docker-compose.yml /Q > nul 2>&1 -ren docker-compose.yml.tmp docker-compose.yml -echo docker-compose.yml updated successfully. -echo. - -REM --- Step 6: Build Docker images --- -echo ===> Starting Docker build (Step 6)... -docker-compose build --no-cache -if errorlevel 1 ( - echo ERROR: Docker Compose build failed. Check Docker installation and docker-compose.yml file. ErrorLevel: %errorlevel% - goto :error -) -echo Docker images built successfully. ErrorLevel: %errorlevel% -echo. - -REM --- Step 7: Start Docker containers --- -echo ===> Starting Docker containers (Step 7)... -docker-compose up -d -if errorlevel 1 ( - echo ERROR: Docker Compose up failed. Check Docker installation and container configurations. ErrorLevel: %errorlevel% - goto :error -) -echo Docker containers started successfully. ErrorLevel: %errorlevel% -echo. - -echo ==================================== -echo Script finished successfully! (Mode: %APP_MODE%) -echo ==================================== -goto :eof - -:error -echo ------------------------------------ -echo An error occurred. Script aborted. -echo ------------------------------------ -pause -exit /b 1 - -:eof -echo Script execution finished. -pause \ No newline at end of file diff --git a/build_and_run.sh b/build_and_run.sh deleted file mode 100644 index faa259c..0000000 --- a/build_and_run.sh +++ /dev/null @@ -1,147 +0,0 @@ -#!/bin/bash -set -e - -# --- Configuration --- -REPO_URL="https://github.com/hapifhir/hapi-fhir-jpaserver-starter.git" -CLONE_DIR="hapi-fhir-jpaserver" -SOURCE_CONFIG_DIR="hapi-fhir-setup" -CONFIG_FILE="application.yaml" - -# --- Define Paths --- -SOURCE_CONFIG_PATH="../$SOURCE_CONFIG_DIR/target/classes/$CONFIG_FILE" -DEST_CONFIG_PATH="$CLONE_DIR/target/classes/$CONFIG_FILE" - -# === Prompt for Version === -while true; do - echo "Select Installation Mode:" - echo "1. Standalone (Includes local HAPI FHIR Server - Requires Git & Maven)" - echo "2. Lite (Excludes local HAPI FHIR Server - No Git/Maven needed)" - read -p "Enter your choice (1 or 2): " choice - case $choice in - 1) - APP_MODE="standalone" - break - ;; - 2) - APP_MODE="lite" - break - ;; - *) - echo "Invalid input. Please try again." - ;; - esac -done - -echo "Selected Mode: $APP_MODE" -echo - -# === Conditionally Execute HAPI Setup === -if [ "$APP_MODE" = "standalone" ]; then - echo "Running Standalone setup including HAPI FHIR..." - echo - - # Step 0: Clean up previous clone (optional) - if [ -d "$CLONE_DIR" ]; then - echo "Found existing directory, removing it..." - rm -rf "$CLONE_DIR" - echo "Existing directory removed." - else - echo "Directory does not exist, proceeding with clone." - fi - echo - - # Step 1: Clone the HAPI FHIR server repository - echo "Cloning repository: $REPO_URL into $CLONE_DIR..." - git clone "$REPO_URL" "$CLONE_DIR" - echo "Repository cloned successfully." - echo - - # Step 2: Navigate into the cloned directory - cd "$CLONE_DIR" - echo "Current directory: $(pwd)" - echo - - # Step 3: Build the HAPI server using Maven - echo "===> Starting Maven build (Step 3)..." - mvn clean package -DskipTests=true -Pboot - echo "Maven build completed successfully." - echo - - # Step 4: Copy the configuration file - echo "===> Starting file copy (Step 4)..." - echo "Copying configuration file..." - echo "Source: $SOURCE_CONFIG_PATH" - echo "Destination: target/classes/$CONFIG_FILE" - cp "$SOURCE_CONFIG_PATH" "target/classes/" || echo "WARNING: Failed to copy configuration file. The server might use default configuration." - echo "Configuration file copy step finished." - echo - - # Step 5: Navigate back to the parent directory - cd .. - echo "Current directory: $(pwd)" - echo -else - echo "Running Lite setup, skipping HAPI FHIR build..." - # Ensure the hapi-fhir-jpaserver directory doesn't exist or is empty if Lite mode is chosen after a standalone attempt - if [ -d "$CLONE_DIR" ]; then - echo "Found existing HAPI directory in Lite mode. Removing it to avoid build issues..." - rm -rf "$CLONE_DIR" - fi - # Create empty target directories expected by Dockerfile COPY, even if not used - mkdir -p "$CLONE_DIR/target/classes" - mkdir -p "$CLONE_DIR/custom" - # Create a placeholder empty WAR file to satisfy Dockerfile COPY - touch "$CLONE_DIR/target/ROOT.war" - touch "$CLONE_DIR/target/classes/application.yaml" - echo "Placeholder files created for Lite mode build." - echo -fi - -# === Modify docker-compose.yml to set APP_MODE === -echo "Updating docker-compose.yml with APP_MODE=$APP_MODE..." -cat < docker-compose.yml.tmp -version: '3.8' -services: - fhirflare: - build: - context: . - dockerfile: Dockerfile - ports: - - "5000:5000" - - "8080:8080" - volumes: - - ./instance:/app/instance - - ./static/uploads:/app/static/uploads - - ./instance/hapi-h2-data/:/app/h2-data - - ./logs:/app/logs - environment: - - FLASK_APP=app.py - - FLASK_ENV=development - - NODE_PATH=/usr/lib/node_modules - - APP_MODE=$APP_MODE - - APP_BASE_URL=http://localhost:5000 - - HAPI_FHIR_URL=http://localhost:8080/fhir - command: supervisord -c /etc/supervisord.conf -EOF - -# Replace the original docker-compose.yml -mv docker-compose.yml.tmp docker-compose.yml - -echo "docker-compose.yml updated successfully." -echo - -# --- Step 6: Build Docker images --- -echo "===> Starting Docker build (Step 6)..." -docker compose build --no-cache -echo "Docker images built successfully." -echo - -# --- Step 7: Start Docker containers --- -echo "===> Starting Docker containers (Step 7)..." -docker compose up -d -echo "Docker containers started successfully." -echo - -echo "====================================" -echo "Script finished successfully! (Mode: $APP_MODE)" -echo "====================================" diff --git a/hapi-fhir-Setup/README.md b/hapi-fhir-Setup/README.md deleted file mode 100644 index ea613b1..0000000 --- a/hapi-fhir-Setup/README.md +++ /dev/null @@ -1,111 +0,0 @@ -# Application Build and Run Guide - MANUAL STEPS - -This guide outlines the steps to set up, build, and run the application, including the HAPI FHIR server component and the rest of the application managed via Docker Compose. - -## Prerequisites - -Before you begin, ensure you have the following installed on your system: - -* [Git](https://git-scm.com/) -* [Maven](https://maven.apache.org/) -* [Java Development Kit (JDK)](https://www.oracle.com/java/technologies/downloads/) (Ensure compatibility with the HAPI FHIR version) -* [Docker](https://www.docker.com/products/docker-desktop/) -* [Docker Compose](https://docs.docker.com/compose/install/) (Often included with Docker Desktop) - -## Setup and Build - -Follow these steps to clone the necessary repository and build the components. - -### 1. Clone and Build the HAPI FHIR Server - -First, clone the HAPI FHIR JPA Server Starter project and build the server application. - - -# Step 1: Clone the repository -git clone https://github.com/hapifhir/hapi-fhir-jpaserver-starter.git hapi-fhir-jpaserver hapi-fhir-jpaserver - -# Navigate into the cloned directory -cd hapi-fhir-jpaserver - -copy the folder from hapi-fhir-setup/target/classes/application.yaml to the hapi-fhir-jpaserver/target/classes/application.yaml folder created above - -# Step 2: Build the HAPI server package (skipping tests, using 'boot' profile) -# This creates the runnable WAR file in the 'target/' directory -mvn clean package -DskipTests=true -Pboot - -# Return to the parent directory (or your project root) -cd .. -2. Build the Rest of the Application (Docker) -Next, build the Docker images for the remaining parts of the application as defined in your docker-compose.yml file. Run this command from the root directory where your docker-compose.yml file is located. - - - -# Step 3: Build Docker images without using cache -docker-compose build --no-cache -Running the Application -Option A: Running the Full Application (Recommended) -Use Docker Compose to start all services, including (presumably) the HAPI FHIR server if it's configured in your docker-compose.yml. Run this from the root directory containing your docker-compose.yml. - - - -# Step 4: Start all services defined in docker-compose.yml in detached mode -docker-compose up -d -Option B: Running the HAPI FHIR Server Standalone (Debugging Only) -This method runs only the HAPI FHIR server directly using the built WAR file. Use this primarily for debugging the server in isolation. - - - -# Navigate into the HAPI server directory where you built it -cd hapi-fhir-jpaserver - -# Run the WAR file directly using Java -java -jar target/ROOT.war - -# Note: You might need to configure ports or database connections -# separately when running this way, depending on the application's needs. - -# Remember to navigate back when done -# cd .. -Useful Docker Commands -Here are some helpful commands for interacting with your running Docker containers: - -Copying files from a container: -To copy a file from a running container to your local machine's current directory: - - - -# Syntax: docker cp : -docker cp :/app/PATH/Filename.ext . -(Replace , /app/PATH/Filename.ext with actual values. . refers to the current directory on your host machine.) - -Accessing a container's shell: -To get an interactive bash shell inside a running container: - - - -# Syntax: docker exec -it bash -docker exec -it bash -(Replace with the actual container ID or name. You can find this using docker ps.) - -Viewing running containers: - - - -docker ps -Viewing application logs: - - - -# Follow logs for all services -docker-compose logs -f - -# Follow logs for a specific service -docker-compose logs -f -(Replace with the name defined in your docker-compose.yml) - -Stopping the application: -To stop the services started with docker-compose up -d: - - - -docker-compose down diff --git a/hapi-fhir-Setup/target/classes/application.yaml b/hapi-fhir-Setup/target/classes/application.yaml deleted file mode 100644 index a79d07e..0000000 --- a/hapi-fhir-Setup/target/classes/application.yaml +++ /dev/null @@ -1,342 +0,0 @@ -#Uncomment the "servlet" and "context-path" lines below to make the fhir endpoint available at /example/path/fhir instead of the default value of /fhir -server: - # servlet: - # context-path: /example/path - port: 8080 -#Adds the option to go to eg. http://localhost:8080/actuator/health for seeing the running configuration -#see https://docs.spring.io/spring-boot/docs/current/reference/html/actuator.html#actuator.endpoints -management: - #The following configuration will enable the actuator endpoints at /actuator/health, /actuator/info, /actuator/prometheus, /actuator/metrics. For security purposes, only /actuator/health is enabled by default. - endpoints: - enabled-by-default: false - web: - exposure: - include: 'health' # or e.g. 'info,health,prometheus,metrics' or '*' for all' - endpoint: - info: - enabled: true - metrics: - enabled: true - health: - enabled: true - probes: - enabled: true - group: - liveness: - include: - - livenessState - - readinessState - prometheus: - enabled: true - prometheus: - metrics: - export: - enabled: true -spring: - main: - allow-circular-references: true - flyway: - enabled: false - baselineOnMigrate: true - fail-on-missing-locations: false - datasource: - #url: 'jdbc:h2:file:./target/database/h2' - url: jdbc:h2:file:/app/h2-data/fhir;DB_CLOSE_DELAY=-1;AUTO_SERVER=TRUE - #url: jdbc:h2:mem:test_mem - username: sa - password: null - driverClassName: org.h2.Driver - max-active: 15 - - # database connection pool size - hikari: - maximum-pool-size: 10 - jpa: - properties: - hibernate.format_sql: false - hibernate.show_sql: false - - #Hibernate dialect is automatically detected except Postgres and H2. - #If using H2, then supply the value of ca.uhn.fhir.jpa.model.dialect.HapiFhirH2Dialect - #If using postgres, then supply the value of ca.uhn.fhir.jpa.model.dialect.HapiFhirPostgresDialect - hibernate.dialect: ca.uhn.fhir.jpa.model.dialect.HapiFhirH2Dialect - # hibernate.hbm2ddl.auto: update - # hibernate.jdbc.batch_size: 20 - # hibernate.cache.use_query_cache: false - # hibernate.cache.use_second_level_cache: false - # hibernate.cache.use_structured_entries: false - # hibernate.cache.use_minimal_puts: false - - ### These settings will enable fulltext search with lucene or elastic - hibernate.search.enabled: false - ### lucene parameters -# hibernate.search.backend.type: lucene -# hibernate.search.backend.analysis.configurer: ca.uhn.fhir.jpa.search.HapiHSearchAnalysisConfigurers$HapiLuceneAnalysisConfigurer -# hibernate.search.backend.directory.type: local-filesystem -# hibernate.search.backend.directory.root: target/lucenefiles -# hibernate.search.backend.lucene_version: lucene_current - ### elastic parameters ===> see also elasticsearch section below <=== -# hibernate.search.backend.type: elasticsearch -# hibernate.search.backend.analysis.configurer: ca.uhn.fhir.jpa.search.HapiHSearchAnalysisConfigurers$HapiElasticAnalysisConfigurer -hapi: - fhir: - ### This flag when enabled to true, will avail evaluate measure operations from CR Module. - ### Flag is false by default, can be passed as command line argument to override. - cr: - enabled: false - caregaps: - reporter: "default" - section_author: "default" - cql: - use_embedded_libraries: true - compiler: - ### These are low-level compiler options. - ### They are not typically needed by most users. - # validate_units: true - # verify_only: false - # compatibility_level: "1.5" - error_level: Info - signature_level: All - # analyze_data_requirements: false - # collapse_data_requirements: false - # translator_format: JSON - # enable_date_range_optimization: true - enable_annotations: true - enable_locators: true - enable_results_type: true - enable_detailed_errors: true - # disable_list_traversal: false - # disable_list_demotion: false - # enable_interval_demotion: false - # enable_interval_promotion: false - # disable_method_invocation: false - # require_from_keyword: false - # disable_default_model_info_load: false - runtime: - debug_logging_enabled: false - # enable_validation: false - # enable_expression_caching: true - terminology: - valueset_preexpansion_mode: REQUIRE # USE_IF_PRESENT, REQUIRE, IGNORE - valueset_expansion_mode: PERFORM_NAIVE_EXPANSION # AUTO, USE_EXPANSION_OPERATION, PERFORM_NAIVE_EXPANSION - valueset_membership_mode: USE_EXPANSION # AUTO, USE_VALIDATE_CODE_OPERATION, USE_EXPANSION - code_lookup_mode: USE_VALIDATE_CODE_OPERATION # AUTO, USE_VALIDATE_CODE_OPERATION, USE_CODESYSTEM_URL - data: - search_parameter_mode: USE_SEARCH_PARAMETERS # AUTO, USE_SEARCH_PARAMETERS, FILTER_IN_MEMORY - terminology_parameter_mode: FILTER_IN_MEMORY # AUTO, USE_VALUE_SET_URL, USE_INLINE_CODES, FILTER_IN_MEMORY - profile_mode: DECLARED # ENFORCED, DECLARED, OPTIONAL, TRUST, OFF - - cdshooks: - enabled: false - clientIdHeaderName: client_id - - ### This enables the swagger-ui at /fhir/swagger-ui/index.html as well as the /fhir/api-docs (see https://hapifhir.io/hapi-fhir/docs/server_plain/openapi.html) - openapi_enabled: true - ### This is the FHIR version. Choose between, DSTU2, DSTU3, R4 or R5 - fhir_version: R4 - ### Flag is false by default. This flag enables runtime installation of IG's. - ig_runtime_upload_enabled: false - ### This flag when enabled to true, will avail evaluate measure operations from CR Module. - - ### enable to use the ApacheProxyAddressStrategy which uses X-Forwarded-* headers - ### to determine the FHIR server address - # use_apache_address_strategy: false - ### forces the use of the https:// protocol for the returned server address. - ### alternatively, it may be set using the X-Forwarded-Proto header. - # use_apache_address_strategy_https: false - ### enables the server to overwrite defaults on HTML, css, etc. under the url pattern of eg. /content/custom ** - ### Folder with custom content MUST be named custom. If omitted then default content applies - custom_content_path: ./custom - ### enables the server host custom content. If e.g. the value ./configs/app is supplied then the content - ### will be served under /web/app - #app_content_path: ./configs/app - ### enable to set the Server URL - # server_address: http://hapi.fhir.org/baseR4 - # defer_indexing_for_codesystems_of_size: 101 - ### Flag is true by default. This flag filters resources during package installation, allowing only those resources with a valid status (e.g. active) to be installed. - # validate_resource_status_for_package_upload: false - # install_transitive_ig_dependencies: true - #implementationguides: - ### example from registry (packages.fhir.org) - # swiss: - # name: swiss.mednet.fhir - # version: 0.8.0 - # reloadExisting: false - # installMode: STORE_AND_INSTALL - # example not from registry - # ips_1_0_0: - # packageUrl: https://build.fhir.org/ig/HL7/fhir-ips/package.tgz - # name: hl7.fhir.uv.ips - # version: 1.0.0 - # supported_resource_types: - # - Patient - # - Observation - ################################################## - # Allowed Bundle Types for persistence (defaults are: COLLECTION,DOCUMENT,MESSAGE) - ################################################## - # allowed_bundle_types: COLLECTION,DOCUMENT,MESSAGE,TRANSACTION,TRANSACTIONRESPONSE,BATCH,BATCHRESPONSE,HISTORY,SEARCHSET - # allow_cascading_deletes: true - # allow_contains_searches: true - # allow_external_references: true - # allow_multiple_delete: true - # allow_override_default_search_params: true - # auto_create_placeholder_reference_targets: false - # mass_ingestion_mode_enabled: false - ### tells the server to automatically append the current version of the target resource to references at these paths - # auto_version_reference_at_paths: Device.patient, Device.location, Device.parent, DeviceMetric.parent, DeviceMetric.source, Observation.device, Observation.subject - # ips_enabled: false - # default_encoding: JSON - # default_pretty_print: true - # default_page_size: 20 - # delete_expunge_enabled: true - # enable_repository_validating_interceptor: true - # enable_index_missing_fields: false - # enable_index_of_type: true - # enable_index_contained_resource: false - # upliftedRefchains_enabled: true - # resource_dbhistory_enabled: false - ### !!Extended Lucene/Elasticsearch Indexing is still a experimental feature, expect some features (e.g. _total=accurate) to not work as expected!! - ### more information here: https://hapifhir.io/hapi-fhir/docs/server_jpa/elastic.html - advanced_lucene_indexing: false - bulk_export_enabled: false - bulk_import_enabled: false - # language_search_parameter_enabled: true - # enforce_referential_integrity_on_delete: false - # This is an experimental feature, and does not fully support _total and other FHIR features. - # enforce_referential_integrity_on_delete: false - # enforce_referential_integrity_on_write: false - # etag_support_enabled: true - # expunge_enabled: true - # client_id_strategy: ALPHANUMERIC - # server_id_strategy: SEQUENTIAL_NUMERIC - # fhirpath_interceptor_enabled: false - # filter_search_enabled: true - # graphql_enabled: true - narrative_enabled: true - mdm_enabled: false - mdm_rules_json_location: "mdm-rules.json" - ## see: https://hapifhir.io/hapi-fhir/docs/interceptors/built_in_server_interceptors.html#jpa-server-retry-on-version-conflicts - # userRequestRetryVersionConflictsInterceptorEnabled : false - # local_base_urls: - # - https://hapi.fhir.org/baseR4 - # pre_expand_value_sets: true - # enable_task_pre_expand_value_sets: true - # pre_expand_value_sets_default_count: 1000 - # pre_expand_value_sets_max_count: 1000 - # maximum_expansion_size: 1000 - - logical_urls: - - http://terminology.hl7.org/* - - https://terminology.hl7.org/* - - http://snomed.info/* - - https://snomed.info/* - - http://unitsofmeasure.org/* - - https://unitsofmeasure.org/* - - http://loinc.org/* - - https://loinc.org/* - # partitioning: - # allow_references_across_partitions: false - # partitioning_include_in_search_hashes: false - # conditional_create_duplicate_identifiers_enabled: false - cors: - allow_Credentials: true - # These are allowed_origin patterns, see: https://docs.spring.io/spring-framework/docs/current/javadoc-api/org/springframework/web/cors/CorsConfiguration.html#setAllowedOriginPatterns-java.util.List- - allowed_origin: - - '*' - - # Search coordinator thread pool sizes - search-coord-core-pool-size: 20 - search-coord-max-pool-size: 100 - search-coord-queue-capacity: 200 - - # Search Prefetch Thresholds. - - # This setting sets the number of search results to prefetch. For example, if this list - # is set to [100, 1000, -1] then the server will initially load 100 results and not - # attempt to load more. If the user requests subsequent page(s) of results and goes - # past 100 results, the system will load the next 900 (up to the following threshold of 1000). - # The system will progressively work through these thresholds. - # A threshold of -1 means to load all results. Note that if the final threshold is a - # number other than -1, the system will never prefetch more than the given number. - search_prefetch_thresholds: 13,503,2003,-1 - - # comma-separated package names, will be @ComponentScan'ed by Spring to allow for creating custom Spring beans - #custom-bean-packages: - - # comma-separated list of fully qualified interceptor classes. - # classes listed here will be fetched from the Spring context when combined with 'custom-bean-packages', - # or will be instantiated via reflection using an no-arg contructor; then registered with the server - #custom-interceptor-classes: - - # comma-separated list of fully qualified provider classes. - # classes listed here will be fetched from the Spring context when combined with 'custom-bean-packages', - # or will be instantiated via reflection using an no-arg contructor; then registered with the server - #custom-provider-classes: - - # Threadpool size for BATCH'ed GETs in a bundle. - # bundle_batch_pool_size: 10 - # bundle_batch_pool_max_size: 50 - - # logger: - # error_format: 'ERROR - ${requestVerb} ${requestUrl}' - # format: >- - # Path[${servletPath}] Source[${requestHeader.x-forwarded-for}] - # Operation[${operationType} ${operationName} ${idOrResourceName}] - # UA[${requestHeader.user-agent}] Params[${requestParameters}] - # ResponseEncoding[${responseEncodingNoDefault}] - # log_exceptions: true - # name: fhirtest.access - # max_binary_size: 104857600 - # max_page_size: 200 - # retain_cached_searches_mins: 60 - # reuse_cached_search_results_millis: 60000 - tester: - home: - name: FHIRFLARE Tester - server_address: http://localhost:8080/fhir - refuse_to_fetch_third_party_urls: false - fhir_version: R4 - global: - name: Global Tester - server_address: "http://hapi.fhir.org/baseR4" - refuse_to_fetch_third_party_urls: false - fhir_version: R4 - # validation: - # requests_enabled: true - # responses_enabled: true - # binary_storage_enabled: true - inline_resource_storage_below_size: 4000 -# bulk_export_enabled: true -# subscription: -# resthook_enabled: true -# websocket_enabled: false -# polling_interval_ms: 5000 -# immediately_queued: false -# email: -# from: some@test.com -# host: google.com -# port: -# username: -# password: -# auth: -# startTlsEnable: -# startTlsRequired: -# quitWait: -# lastn_enabled: true -# store_resource_in_lucene_index_enabled: true -### This is configuration for normalized quantity search level default is 0 -### 0: NORMALIZED_QUANTITY_SEARCH_NOT_SUPPORTED - default -### 1: NORMALIZED_QUANTITY_STORAGE_SUPPORTED -### 2: NORMALIZED_QUANTITY_SEARCH_SUPPORTED -# normalized_quantity_search_level: 2 -#elasticsearch: -# debug: -# pretty_print_json_log: false -# refresh_after_write: false -# enabled: false -# password: SomePassword -# required_index_status: YELLOW -# rest_url: 'localhost:9200' -# protocol: 'http' -# schema_management_strategy: CREATE -# username: SomeUsername