Update documentation to include environment variables

EnvironmentVariables.md

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+# Repositories and environment variables
+## Repositories that define environment variables with default values
+- mcode/REMS
+    * .env.example
+        + `VSAC_API_KEY`: no default value
+        + `COMPOSE_PROJECT_NAME`: `rems_dev`
+        + `PORTER_ALLOW_DOCKER_HOST_ACCESS`: `true`
+    * docker-compose.yml
+        + keycloak
+            - `KEYCLOAK_USER`: `admin`
+            - `KEYCLOAK_PASSWORD`: `admin`
+            - `DB_VENDOR`: `h2`
+        + test-ehr
+            - `oauth_token`: `http://host.docker.internal:8180/auth/realms/ClientFhirServer/protocol/openid-connect/token`
+        + crd-request-generator
+            - `REACT_APP_REMS_CONFIG`: `true`
+        + rems-administrator
+            - `VSAC_API_KEY`: taken from host machine's value
+            - `MONGO_URL`: `mongodb://rems-user:pass@pims_remsadmin_mongo:27017`
+        + pims_remsadmin_mongo
+            - `MONGO_INITDB_ROOT_USERNAME`: `rems-admin-pims-root`
+            - `MONGO_INITDB_ROOT_PASSWORD`: `rems-admin-pims-password`
+        + pims
+            - `REMS_ADMIN_BASE`: `http://rems-administrator:8090`
+            - `MONGO_URL`: `mongodb://pims_remsadmin_mongo:27017/pims`
+    * docker-compose-dev.yml
+        + keycloak
+            - `KEYCLOAK_USER`: `admin`
+            - `KEYCLOAK_PASSWORD`: `admin`
+            - `DB_VENDOR`: `h2`
+        + test-ehr
+            - `oauth_token`: `http://host.docker.internal:8180/auth/realms/ClientFhirServer/protocol/openid-connect/token`
+        + crd-request-generator
+            - `REACT_APP_REMS_CONFIG`: `true`
+        + rems-administrator
+            - `VSAC_API_KEY`: taken from host machine's value
+            - `MONGO_URL`: `mongodb://rems-user:pass@pims_remsadmin_mongo:27017`
+        + pims_remsadmin_mongo
+            - `MONGO_INITDB_ROOT_USERNAME`: `rems-admin-pims-root`
+            - `MONGO_INITDB_ROOT_PASSWORD`: `rems-admin-pims-password`
+        + pims
+            - `REMS_ADMIN_BASE`: `http://rems-administrator:8090`
+            - `MONGO_URL`: `mongodb://pims_remsadmin_mongo:27017/pims`
+- mcode/rems-smart-on-fhir
+    * .env
+        + `REACT_APP_REMS_ADMIN_SERVER_BASE`: `http://localhost:8090`
+        + `REACT_APP_REMS_HOOKS_PATH`: `/cds-services/rems-order-sign`
+        + `REACT_APP_PHARMACY_SERVER_BASE`: `http://localhost:5051`
+        + `REACT_APP_ETASU_STATUS_ENABLED`: `true`
+        + `REACT_APP_PHARMACY_STATUS_ENABLED`: `true`
+        + `PORT`: `4040`
+- mcode/test-ehr
+    * src/main/resources/application.yml
+        + `auth_base`: `http://localhost:8180/auth/realms/ClientFhirServer/protocol/openid-connect`
+        + `ehr_base`: `http://localhost:8080/test-ehr`
+        + `client_id`: `app-token`
+        + `client_secret`: no default value
+        + `realm`: `ClientFhirServer`
+        + `use_oauth`: `false`
+        + `oauth_token`: `${auth_base}/token`
+        + `oauth_authorize`: `${auth_base}/auth`
+        + `proxy_authorize`: `${ehr_base}/auth`
+        + `proxy_token`: `${ehr_base}/token`
+        + `redirect_post_launch`: `${ehr_base}/_services/smart/Launch`
+        + `redirect_post_token`: `${ehr_base}/token`
+        + `introspection_url`: `${auth_base}/token/introspect`
+        + `redirect_base`: `${ehr_base}/_auth/`
+    * Dockerfile.keycloak
+        + `KEYCLOAK_IMPORT`: `/resources/ClientFhirServerRealm.json`
+
+
+## Repositories that use environment variables
+- mcode/REMS
+    * src/config.ts
+        + `WHITELIST`
+        + `PORT`
+        + `SERVER_PORT`
+        + `SMART_ENDPOINT`
+        + `VSAC_API_KEY`
+        + `MONGO_URL`
+        + `MONGO_DB_NAME`
+        + `RESOURCE_SERVER`
+        + `LOGGING_LEVEL`
+        + `AUTH_SERVER_URI`
+- mcode/test-ehr
+    * src/main/java/ca/uhn/fhir/jpa/starter/EnvironmentHelper.java
+        + `elasticsearch.required_index_status`
+        + `elasticsearch.schema_management_strategy`
+        + `elasticsearch.debug.refresh_after_write`
+        + `elasticsearch.debug.pretty_print_json_log`
+        + `elasticsearch.rest_url`
+        + `elasticsearch.protocol`
+        + `elasticsearch.username`
+        + `elasticsearch.password`
+        + `elasticsearch.enabled`
+        + `elasticsearch.enabled`
+    * src/main/java/org/hl7/davinci/ehrserver/ClientAuthorizationInterceptor.java
+        + `use_oauth`
+        + `client_secret`
+        + `client_id`
+        + `introspect_url`
+    * src/main/java/org/hl7/davinci/ehrserver/authproxy/AuthProxy.java
+        + `oauth_authorize`
+        + `oauth_token`
+        + `redirect_base`
+
+
+- mcode/crd-request-generator
+    * src/registerServiceWorker.js
+        + `NODE_ENV`
+        + `PUBLIC_URL`
+    * src/containers/RequestBuilder.js
+        + `REACT_APP_EHR_BASE`
+        + `REACT_APP_EHR_SERVER`
+    * src/util/auth.js
+        + `REACT_APP_AUTH`
+        + `REACT_APP_REALM`
+        + `REACT_APP_USER`
+        + `REACT_APP_PASSWORD`
+        + `REACT_APP_CLIENT`
+        + `REACT_APP_PUBLIC_KEYS`
+    * src/util/data.js
+        + `REACT_APP_EHR_SERVER`
+        + `REACT_APP_CDS_SERVICE`
+        + `REACT_APP_ORDER_SELECT`
+        + `REACT_APP_ORDER_SIGN`
+        + `REACT_APP_AUTH`
+        + `REACT_APP_ALTERNATIVE_THERAPY`
+        + `LAUNCH_URL`
+        + `FORM_EXPIRATION_DAYS`
+        + `PIMS_URL`
+    * src/util/fhir.js
+        + `REACT_APP_AUTH`
+        + `REACT_APP_REALM`
+        + `REACT_APP_CLIENT`
+- mcode/dtr
+    * bin/prod
+        + `REACT_APP_SERVER_PORT`
+        + `REACT_APP_INITIAL_CLIENT`
+    * bin/template
+        + `REACT_APP_SERVER_PORT`
+        + `REACT_APP_INITIAL_CLIENT`
+    * src/backend/routes/metadata.js
+        + `FHIR_VERSION`
+    * bin/www
+        + `PORT`
+    * src/elmExecutor/buildPopulatedResourceBundle.js
+        + `REACT_APP_EPIC_SUPPORTED_QUERIES`
+- mcode/pims
+    * src/backend/server.js
+        + `BACKEND_PORT`
+        + `ALLOWED_ORIGIN`
+        + `MONGO_HOSTNAME`
+        + `AUTH_SOURCE`
+        + `MONGO_USERNAME`
+        + `MONGO_PASSWORD`
+    * src/backend/server.ts
+        + `PORT`
+        + `ALLOWED_ORIGIN`
+        + `MONGO_HOSTNAME`
+        + `AUTH_SOURCE`
+        + `MONGO_USERNAME`
+        + `MONGO_PASSWORD`
+    * src/backend/routes/doctorOrders.js
+        + `REMS_ADMIN_BASE`
+    * frontend/src/App.tsx
+        + `REACT_APP_PIMS_BACKEND_URL`
+        + `REACT_APP_PIMS_BACKEND_PORT`
+- mcode/rems-smart-on-fhir
+    * src/views/Patient/MedReqDropDown/MedReqDropDown.tsx
+        + `REACT_APP_REMS_ADMIN_SERVER_BASE`
+    * src/views/Patient/MedReqDropDown/etasuStatus/EtasuStatus.tsx
+        + `REACT_APP_REMS_ADMIN_SERVER_BASE`
+    * src/views/Patient/MedReqDropDown/pharmacyStatus/PharmacyStatus.tsx
+        + `REACT_APP_REMS_ADMIN_SERVER_BASE`