Ppa support

Dockerfile

@@ -3,14 +3,27 @@ FROM gradle:6.9.0-jdk11
 
 # Set working directory so that all subsequent command runs in this folder
 WORKDIR /test-ehr
+
+ENV GRADLE_USER_HOME=/tmp/gradle-user-home
+
+USER root
+RUN mkdir -p /test-ehr/.gradle && chown -R gradle:gradle /test-ehr
+USER gradle
+
 # Copy app files to container
 COPY --chown=gradle:gradle . .
 RUN gradle build
+
+USER root
+RUN rm -rf /test-ehr/.gradle /tmp/gradle-user-home \
+    && mkdir -p /test-ehr/.gradle /tmp/gradle-user-home \
+    && chmod 0777 /test-ehr/.gradle /tmp/gradle-user-home
+
 # Expose port to access the app
 EXPOSE 8080
 
 #HealthCheck 
 HEALTHCHECK --interval=45s --start-period=60s --timeout=10m --retries=10 CMD curl --fail http://localhost:8080/test-ehr/r4/metadata || exit 1
 
 # Command to run our app
-CMD ./dockerRunnerProd.sh
+CMD ./dockerRunnerProd.sh

Dockerfile.dev

@@ -3,14 +3,27 @@ FROM gradle:6.9.0-jdk11
 
 # Set working directory so that all subsequent command runs in this folder
 WORKDIR /test-ehr
+
+ENV GRADLE_USER_HOME=/tmp/gradle-user-home
+
+USER root
+RUN mkdir -p /test-ehr/.gradle && chown -R gradle:gradle /test-ehr
+USER gradle
+
 # Copy app files to container
 COPY --chown=gradle:gradle . .
 RUN gradle build
+
+USER root
+RUN rm -rf /test-ehr/.gradle /tmp/gradle-user-home \
+    && mkdir -p /test-ehr/.gradle /tmp/gradle-user-home \
+    && chmod 0777 /test-ehr/.gradle /tmp/gradle-user-home
+
 # Expose port to access the app
 EXPOSE 8080
 EXPOSE 8081
 
 HEALTHCHECK --interval=45s --start-period=60s --timeout=10m --retries=10 CMD curl --fail http://localhost:8080/test-ehr/r4/metadata || exit 1
 
 # Command to run our app
-CMD ./dockerRunnerDev.sh
+CMD ./dockerRunnerDev.sh

Dockerfile.keycloak

@@ -1,3 +1,3 @@
-FROM keycloak/keycloak:22.0.1
+FROM quay.io/keycloak/keycloak:22.0.1
 HEALTHCHECK --interval=30s --start-period=15s --timeout=10m --retries=10 CMD bash -c 'echo -n > /dev/tcp/127.0.0.1/8080'
 COPY ./src/main/resources/ClientFhirServerRealm.json /opt/keycloak/data/import/ClientFhirServerRealm.json

dockerRunnerDev.sh

@@ -4,7 +4,11 @@
 trap "kill $LOAD_DATA_PID $CONTINUOUS_BUILD_PID $SERVER_PID; gradle --stop; exit" INT
 
 # Set environment variables
-mkdir logs 
+BUILD_PROJECT_CACHE=/tmp/test-ehr-gradle-project-cache/build
+RUN_PROJECT_CACHE=/tmp/test-ehr-gradle-project-cache/run
+LOAD_DATA_PROJECT_CACHE=/tmp/test-ehr-gradle-project-cache/load-data
+
+mkdir -p logs
 # Reset log file content for new application boot
 echo "*** Logs for 'gradle installBootDist --continuous' ***" > ./logs/builder.log
 echo "*** Logs for 'gradle bootRun' ***" > ./logs/runner.log
@@ -18,7 +22,7 @@ echo "Starting continuous data loader..."
     sleep 1
 done
 echo "loading data into test-ehr..."
-gradle loadData
+gradle --project-cache-dir "$LOAD_DATA_PROJECT_CACHE" loadData
 
 # Continuous Load Data command whenever fhirResourcesToLoad directory changes
 resources_modify_time=$(stat -c %Y fhirResourcesToLoad)
@@ -29,7 +33,7 @@ do
     if [[ "$resources_modify_time" != "$new_resources_modify_time" ]] 
     then
         echo "loading data into test-ehr..."
-        gradle loadData
+        gradle --project-cache-dir "$LOAD_DATA_PROJECT_CACHE" loadData
     fi
 
     resources_modify_time=$new_resources_modify_time
@@ -38,19 +42,18 @@ done ) & LOAD_DATA_PID=$!
 
 # Start the continious build listener process
 echo "starting continuous build listener..."
-( gradle build --continuous | tee ./logs/builder.log ) & CONTINUOUS_BUILD_PID=$!
+( gradle --project-cache-dir "$BUILD_PROJECT_CACHE" build --continuous | tee ./logs/builder.log ) & CONTINUOUS_BUILD_PID=$!
 
 # Start server process once initial build finishes  
 ( while ! grep -m1 'BUILD SUCCESSFUL' < ./logs/builder.log; do
     sleep 1
 done
 echo "starting test-ehr server in debug mode..."
-gradle bootRun -Pdebug 2>&1 | tee ./logs/runner.log ) & SERVER_PID=$!
+gradle --project-cache-dir "$RUN_PROJECT_CACHE" bootRun -Pdebug 2>&1 | tee ./logs/runner.log ) & SERVER_PID=$!
 
 
 
 # Handle application background process exiting
 wait $CONTINUOUS_BUILD_PID $SERVER_PID $LOAD_DATA_PID
 EXIT_CODE=$?
 echo "application exited with exit code $EXIT_CODE..."
-

dockerRunnerProd.sh

@@ -4,7 +4,10 @@
 trap "kill $LOAD_DATA_PID $SERVER_PID; gradle --stop; exit" INT
 
 # Set environment variables
-mkdir logs 
+RUN_PROJECT_CACHE=/tmp/test-ehr-gradle-project-cache/run
+LOAD_DATA_PROJECT_CACHE=/tmp/test-ehr-gradle-project-cache/load-data
+
+mkdir -p logs
 # Reset log file content for new application boot
 echo "*** Logs for 'gradle bootRun' ***" > ./logs/runner.log
 
@@ -16,14 +19,13 @@ echo "Starting application in production mode..."
     sleep 1
 done
 echo "loading data into test-ehr..."
-gradle loadData ) & LOAD_DATA_PID=$!
+gradle --project-cache-dir "$LOAD_DATA_PROJECT_CACHE" loadData ) & LOAD_DATA_PID=$!
 
 # Start server process 
 echo "starting test-ehr server..."
-( gradle bootRun 2>&1 | tee ./logs/runner.log ) & SERVER_PID=$!
+( gradle --project-cache-dir "$RUN_PROJECT_CACHE" bootRun 2>&1 | tee ./logs/runner.log ) & SERVER_PID=$!
 
 # Handle application background process exiting
 wait $SERVER_PID $LOAD_DATA_PID
 EXIT_CODE=$?
 echo "application exited with exit code $EXIT_CODE..."
-

fhirResourcesToLoad/0. pharmacy.json

@@ -2,7 +2,7 @@
   "resourceType": "HealthcareService",
   "id": "pharm0111",
   "active": true,
-  "name": "RiteAid Pharmacy",
+  "name": "PIMS Pharmacy A",
   "category": [
     {
       "coding": [
@@ -28,7 +28,7 @@
   "location": [
     {
       "reference": "Location/pharm-location-001",
-      "display": "123 Main Street, Detroit, MI 48224"
+      "display": "123 Main Street, Boston, MA 02134"
     }
   ]
-}
+}

fhirResourcesToLoad/7. pharmacy-location.json

@@ -2,18 +2,18 @@
   "resourceType": "Location",
   "id": "pharm-location-001",
   "status": "active",
-  "name": "Test Pharmacy - Main Location",
-  "description": "Main location for Test Pharmacy providing community pharmacy services",
+  "name": "PIMS Pharmacy A - Main Location",
+  "description": "Main location for PIMS Pharmacy A providing community pharmacy services",
   "mode": "instance",
   "address": {
     "use": "work",
     "type": "physical",
     "line": [
       "123 Main Street"
     ],
-    "city": "Detroit",
-    "state": "MI",
-    "postalCode": "48224",
+    "city": "Boston",
+    "state": "MA",
+    "postalCode": "02134",
     "country": "US"
   },
   "telecom": [
@@ -28,4 +28,4 @@
       "use": "work"
     }
   ]
-}
+}

fhirResourcesToLoad/8.pharmacy-2.json

@@ -2,7 +2,7 @@
   "resourceType": "HealthcareService",
   "id": "pharm4321",
   "active": true,
-  "name": "Test Pharmacy #2",
+  "name": "PIMS Pharmacy B",
   "category": [
     {
       "coding": [
@@ -27,8 +27,8 @@
   ],
   "location": [
     {
-      "reference": "Location/pharm-location-001",
-      "display": "561 Street Road, Anytown, CA 12345"
+      "reference": "Location/pharm-location-002",
+      "display": "456 Central Street, Cambridge, MA 02139"
     }
   ]
-}
+}

fhirResourcesToLoad/9. pharmacy-location-2.json

@@ -1,19 +1,19 @@
 {
   "resourceType": "Location",
-  "id": "pharm-location-001",
+  "id": "pharm-location-002",
   "status": "active",
-  "name": "Test Pharmacy - Secondary Location",
-  "description": "Secondary location for Test Pharmacy providing community pharmacy services",
+  "name": "PIMS Pharmacy B",
+  "description": "Second PIMS pharmacy location for product availability testing",
   "mode": "instance",
   "address": {
     "use": "work",
     "type": "physical",
     "line": [
-      "561 Street Road"
+      "456 Central Street"
     ],
-    "city": "Anytown",
-    "state": "CA",
-    "postalCode": "12345",
+    "city": "Cambridge",
+    "state": "MA",
+    "postalCode": "02139",
     "country": "US"
   },
   "telecom": [
@@ -28,4 +28,4 @@
       "use": "work"
     }
   ]
-}
+}

fhirResourcesToLoad/medication_pexidartinib_generic.json

@@ -0,0 +1,53 @@
+{
+  "resourceType": "Medication",
+  "id": "med-pexidartinib-generic",
+  "code": {
+    "coding": [
+      {
+        "system": "http://www.nlm.nih.gov/research/umls/rxnorm",
+        "code": "2183126",
+        "display": "Pexidartinib Hydrochloride 200 MG Oral Capsule"
+      },
+      {
+        "system": "http://hl7.org/fhir/sid/ndc",
+        "code": "99999-407-20",
+        "display": "Pexidartinib Hydrochloride"
+      }
+    ],
+    "text": "Pexidartinib Hydrochloride 200 MG Oral Capsule"
+  },
+  "form": {
+    "coding": [
+      {
+        "system": "http://snomed.info/sct",
+        "code": "385055001",
+        "display": "Capsule dose form"
+      }
+    ]
+  },
+  "ingredient": [
+    {
+      "itemCodeableConcept": {
+        "coding": [
+          {
+            "system": "http://snomed.info/sct",
+            "code": "774167006",
+            "display": "Pexidartinib"
+          }
+        ]
+      },
+      "strength": {
+        "numerator": {
+          "value": 200,
+          "system": "http://unitsofmeasure.org",
+          "code": "mg"
+        },
+        "denominator": {
+          "value": 1,
+          "system": "http://terminology.hl7.org/CodeSystem/v3-orderableDrugForm",
+          "code": "CAP"
+        }
+      }
+    }
+  ]
+}

fhirResourcesToLoad/rems_smith_01_patient.json

@@ -7,9 +7,9 @@
     {
       "use": "home",
       "type": "both",
-      "state": "Wonderland",
-      "city": "Wonderland",
-      "postalCode": "12345",
+      "state": "MA",
+      "city": "Somerville",
+      "postalCode": "02143",
       "line": ["47 Main St"]
     }
   ],