From 19c25c6de92eb21c0085f5502be6949cf6df25ab Mon Sep 17 00:00:00 2001 From: Nick Phura Date: Tue, 21 Jun 2022 09:51:59 -0700 Subject: [PATCH 1/2] BHBC-1814: Promote Dev to Test (#795) BHBC-1814: Promote Dev to Test --- .github/workflows/deploy.yml | 6 + .github/workflows/deployStatic.yml | 6 + .github/workflows/toDraft.yml | 25 + Makefile | 8 +- api/.pipeline/config.js | 15 +- api/.pipeline/lib/api.deploy.js | 4 + api/openshift/api.dc.yaml | 44 +- api/package-lock.json | 12533 +-------- api/package.json | 9 +- api/src/__mocks__/db.ts | 6 + api/src/database/db.test.ts | 46 +- api/src/database/db.ts | 69 +- .../models/project-survey-attachments.test.ts | 42 +- api/src/models/project-survey-attachments.ts | 3 +- api/src/models/project-view.ts | 88 +- api/src/models/public/project.ts | 3 +- api/src/models/survey-create.test.ts | 533 +- api/src/models/survey-create.ts | 159 +- api/src/models/survey-update.test.ts | 563 +- api/src/models/survey-update.ts | 185 +- api/src/models/survey-view-update.test.ts | 78 - api/src/models/survey-view-update.ts | 71 - api/src/models/survey-view.test.ts | 476 +- api/src/models/survey-view.ts | 255 +- api/src/openapi/schemas/draft.ts | 14 +- api/src/paths/draft.ts | 21 +- api/src/paths/drafts.ts | 11 +- api/src/paths/dwc/eml.test.ts | 643 +- api/src/paths/dwc/eml.ts | 902 +- api/src/paths/dwc/scrape-occurrences.ts | 19 +- api/src/paths/dwc/validate.ts | 2 +- .../{projectId}/attachments/list.test.ts | 78 +- .../paths/project/{projectId}/delete.test.ts | 32 - .../project/{projectId}/survey/create.test.ts | 681 +- .../project/{projectId}/survey/create.ts | 504 +- .../survey/funding-sources/list.test.ts | 149 +- .../survey/funding-sources/list.ts | 69 +- .../{projectId}/survey/permits/list.test.ts | 15 +- .../{projectId}/survey/permits/list.ts | 20 +- .../{surveyId}/attachments/list.test.ts | 78 +- .../survey/{surveyId}/delete.test.ts | 27 - .../{projectId}/survey/{surveyId}/delete.ts | 10 +- .../survey/{surveyId}/publish.test.ts | 272 +- .../{projectId}/survey/{surveyId}/publish.ts | 120 +- .../survey/{surveyId}/update.test.ts | 1190 +- .../{projectId}/survey/{surveyId}/update.ts | 879 +- .../survey/{surveyId}/view.test.ts | 562 +- .../{projectId}/survey/{surveyId}/view.ts | 629 +- api/src/paths/project/{projectId}/surveys.ts | 216 +- .../paths/project/{projectId}/update.test.ts | 14 +- api/src/paths/project/{projectId}/update.ts | 1 - .../{projectId}/attachments/list.test.ts | 50 +- api/src/paths/xlsx/process.ts | 139 + api/src/paths/xlsx/transform.ts | 5 +- .../queries/project/draft/draft-queries.ts | 6 +- .../queries/project/project-view-queries.ts | 1 + .../survey/survey-create-queries.test.ts | 127 +- .../queries/survey/survey-create-queries.ts | 91 +- .../survey/survey-delete-queries.test.ts | 68 +- .../queries/survey/survey-delete-queries.ts | 88 +- .../survey/survey-update-queries.test.ts | 149 +- .../queries/survey/survey-update-queries.ts | 243 +- .../survey/survey-view-queries.test.ts | 38 +- api/src/queries/survey/survey-view-queries.ts | 76 +- .../survey/survey-view-update-queries.test.ts | 27 +- .../survey/survey-view-update-queries.ts | 153 +- api/src/services/eml-service.test.ts | 17 + api/src/services/eml-service.ts | 817 + api/src/services/keycloak-service.ts | 3 + api/src/services/platform-service.test.ts | 51 + api/src/services/platform-service.ts | 58 + api/src/services/project-service.ts | 51 +- api/src/services/survey-service.test.ts | 85 + api/src/services/survey-service.ts | 599 +- api/src/services/taxonomy-service.ts | 2 +- api/src/utils/file-utils.ts | 15 +- .../transformation/xlsx-transformation.ts | 26 +- app/.pipeline/config.js | 2 +- app/openshift/app.dc.yaml | 33 +- app/package-lock.json | 22503 +--------------- app/server/index.js | 6 +- app/src/AppRouter.tsx | 12 +- app/src/components/boundary/MapBoundary.tsx | 6 +- app/src/components/dialog/EditDialog.tsx | 9 +- .../__snapshots__/EditDialog.test.tsx.snap | 4 + app/src/components/layout/Header.tsx | 6 +- app/src/components/map/MapContainer.test.tsx | 7 +- app/src/components/map/MapContainer.tsx | 29 +- .../__snapshots__/MapContainer.test.tsx.snap | 152 +- .../search-filter/ProjectAdvancedFilters.tsx | 2 +- .../components/surveys/SurveysList.test.tsx | 41 +- app/src/components/surveys/SurveysList.tsx | 42 +- app/src/contexts/configContext.tsx | 10 +- .../ProjectLocationForm.test.tsx.snap | 111 +- .../resources/ResourcesLayout.test.tsx | 15 - .../features/resources/ResourcesLayout.tsx | 35 - app/src/features/resources/ResourcesPage.tsx | 19 +- .../features/resources/ResourcesRouter.tsx | 28 - .../surveys/CreateSurveyPage.test.tsx | 68 +- app/src/features/surveys/CreateSurveyPage.tsx | 26 +- .../CreateSurveyPage.test.tsx.snap | 167 +- .../components/AgreementsForm.test.tsx | 23 +- .../surveys/components/AgreementsForm.tsx | 39 +- .../GeneralInformationForm.test.tsx | 71 +- .../components/GeneralInformationForm.tsx | 124 +- .../components/ProprietaryDataForm.test.tsx | 40 +- .../components/ProprietaryDataForm.tsx | 131 +- .../components/PurposeAndMethodologyForm.tsx | 66 +- .../surveys/components/StudyAreaForm.test.tsx | 42 +- .../surveys/components/StudyAreaForm.tsx | 21 +- .../AgreementsForm.test.tsx.snap | 12 +- .../GeneralInformationForm.test.tsx.snap | 307 +- .../ProprietaryDataForm.test.tsx.snap | 68 +- .../__snapshots__/StudyAreaForm.test.tsx.snap | 145 +- .../surveys/list/SurveysListPage.test.tsx | 39 +- .../features/surveys/list/SurveysListPage.tsx | 4 +- .../features/surveys/view/SurveyDetails.tsx | 4 +- .../surveys/view/SurveyHeader.test.tsx | 205 + .../features/surveys/view/SurveyHeader.tsx | 51 +- .../surveys/view/SurveyObservations.tsx | 20 +- .../features/surveys/view/SurveyPage.test.tsx | 188 +- .../__snapshots__/SurveyDetails.test.tsx.snap | 4 +- .../__snapshots__/SurveyPage.test.tsx.snap | 12 +- .../SurveyGeneralInformation.test.tsx | 273 +- .../components/SurveyGeneralInformation.tsx | 146 +- .../components/SurveyProprietaryData.test.tsx | 144 +- .../view/components/SurveyProprietaryData.tsx | 85 +- ...sx => SurveyPurposeAndMethodologyData.tsx} | 100 +- .../view/components/SurveyStudyArea.test.tsx | 115 +- .../view/components/SurveyStudyArea.tsx | 66 +- .../SurveyGeneralInformation.test.tsx.snap | 4 +- .../SurveyProprietaryData.test.tsx.snap | 4 +- app/src/hooks/api/useObservationApi.test.ts | 9 + app/src/hooks/api/useObservationApi.ts | 19 +- app/src/hooks/api/useSurveyApi.test.ts | 74 +- app/src/hooks/api/useSurveyApi.ts | 47 +- app/src/hooks/useAsync.ts | 66 + app/src/hooks/useCodes.ts | 36 +- app/src/hooks/useDataLoader.ts | 103 + app/src/hooks/useDataLoaderError.ts | 19 + app/src/interfaces/useProjectApi.interface.ts | 4 +- app/src/interfaces/useSurveyApi.interface.ts | 180 +- app/src/pages/access/AccessRequestPage.tsx | 2 +- app/src/pages/public/PublicProjectPage.tsx | 4 +- app/src/test-helpers/survey-helpers.ts | 71 +- .../ProjectStepComponents.test.tsx.snap | 37 +- .../backup-cronjob/backup-cronjob.yaml | 2 +- containers/n8n/Dockerfile | 21 + containers/n8n/n8n.bc.yaml | 14 +- containers/n8n/n8n.dc.yaml | 19 +- database/package-lock.json | 3050 +-- docker-compose.yml | 52 +- env_config/env.docker | 36 +- n8n/README.md | 2 +- n8n/package-lock.json | 1275 +- .../project/project-create-page.ts | 30 +- testing/e2e/package-lock.json | 458 +- testing/e2e/package.json | 2 +- 158 files changed, 8535 insertions(+), 48353 deletions(-) create mode 100644 .github/workflows/toDraft.yml delete mode 100644 api/src/models/survey-view-update.test.ts delete mode 100644 api/src/models/survey-view-update.ts create mode 100644 api/src/paths/xlsx/process.ts create mode 100644 api/src/services/eml-service.test.ts create mode 100644 api/src/services/eml-service.ts create mode 100644 api/src/services/platform-service.test.ts create mode 100644 api/src/services/platform-service.ts create mode 100644 api/src/services/survey-service.test.ts delete mode 100644 app/src/features/resources/ResourcesLayout.test.tsx delete mode 100644 app/src/features/resources/ResourcesLayout.tsx delete mode 100644 app/src/features/resources/ResourcesRouter.tsx create mode 100644 app/src/features/surveys/view/SurveyHeader.test.tsx rename app/src/features/surveys/view/components/{SurveyPurposeAndMethodology.tsx => SurveyPurposeAndMethodologyData.tsx} (71%) create mode 100644 app/src/hooks/useAsync.ts create mode 100644 app/src/hooks/useDataLoader.ts create mode 100644 app/src/hooks/useDataLoaderError.ts create mode 100644 containers/n8n/Dockerfile diff --git a/.github/workflows/deploy.yml b/.github/workflows/deploy.yml index c28d4958a1..8f6d3a8664 100644 --- a/.github/workflows/deploy.yml +++ b/.github/workflows/deploy.yml @@ -471,6 +471,12 @@ jobs: timeout: 120000 interval: 500 + # Install Node - for `node` and `npm` commands + - name: Setup Node.js + uses: actions/setup-node@v2 + with: + node-version: 16 + - name: E2E Smoke tests uses: cypress-io/github-action@v2 # let's give this action an ID so we can refer diff --git a/.github/workflows/deployStatic.yml b/.github/workflows/deployStatic.yml index bb8cf9ac10..f180460115 100644 --- a/.github/workflows/deployStatic.yml +++ b/.github/workflows/deployStatic.yml @@ -577,6 +577,12 @@ jobs: timeout: 240000 interval: 500 + # Install Node - for `node` and `npm` commands + - name: Setup Node.js + uses: actions/setup-node@v2 + with: + node-version: 16 + - name: E2E Smoke tests uses: cypress-io/github-action@v2 # let's give this action an ID so we can refer diff --git a/.github/workflows/toDraft.yml b/.github/workflows/toDraft.yml new file mode 100644 index 0000000000..3f6d73a17c --- /dev/null +++ b/.github/workflows/toDraft.yml @@ -0,0 +1,25 @@ +# Switch to Draft +# Scales down running PODS when switching to Draft +name: Draft Scale Down + +on: + pull_request: + types: [converted_to_draft] + +jobs: + scaleDownPods: + name: Scale down the pods for this PR + runs-on: ubuntu-latest + env: + BUILD_ID: ${{ github.event.number }} + steps: + # Log in to OpenShift. + # Note: The secrets needed to log in are NOT available if the PR comes from a FORK. + # PR's must originate from a branch off the original repo or else all openshift `oc` commands will fail. + - name: Log in to OpenShift + run: oc login --token=${{ secrets.TOOLS_SA_TOKEN }} --server=https://api.silver.devops.gov.bc.ca:6443 + + - name: Scale down + run: | + oc project af2668-dev + oc get deploymentconfig --selector env-id=$BUILD_ID -o name | awk '{print "oc scale --replicas=0 " $1}' | bash diff --git a/Makefile b/Makefile index 06a61125c8..ccbc88eb55 100644 --- a/Makefile +++ b/Makefile @@ -100,15 +100,17 @@ build-web: ## Builds all backend+web containers @echo "===============================================" @echo "Make: build-web - building web images" @echo "===============================================" - @docker-compose -f docker-compose.yml build db db_setup api app n8n n8n_nginx n8n_setup + @docker-compose -f docker-compose.yml build db db_setup api app +## @docker-compose -f docker-compose.yml build db db_setup api app n8n n8n_nginx n8n_setup run-web: ## Runs all backend+web containers @echo "===============================================" @echo "Make: run-web - running web images" @echo "===============================================" - @docker-compose -f docker-compose.yml up -d db db_setup api app n8n n8n_nginx n8n_setup + @docker-compose -f docker-compose.yml up -d db db_setup api app +## @docker-compose -f docker-compose.yml up -d db db_setup api app n8n n8n_nginx n8n_setup ## Restart n8n as a workaround to resolve this known issue: https://github.com/n8n-io/n8n/issues/2155 - @docker-compose restart n8n +## @docker-compose restart n8n ## ------------------------------------------------------------------------------ ## Commands to shell into the target container diff --git a/api/.pipeline/config.js b/api/.pipeline/config.js index 06e1c0ed76..5aced03a1f 100644 --- a/api/.pipeline/config.js +++ b/api/.pipeline/config.js @@ -64,7 +64,7 @@ const phases = { elasticsearchURL: 'https://elasticsearch-af2668-dev.apps.silver.devops.gov.bc.ca', tz: config.timezone.api, branch: branch, - logLevel: isStaticDeployment && 'info' || 'debug' + logLevel: (isStaticDeployment && 'info') || 'debug' }, dev: { namespace: 'af2668-dev', @@ -80,15 +80,16 @@ const phases = { (isStaticDeployment && (staticUrlsAPI.dev || defaultHost)) || `${name}-${changeId}-af2668-dev.apps.silver.devops.gov.bc.ca`, appHost: - (isStaticDeployment && (staticUrls.dev || defaultHostAPP)) || + (isStaticDeployment && (staticUrls.dev || defaultHostAPP)) || `${appName}-${changeId}-af2668-dev.apps.silver.devops.gov.bc.ca`, + backboneApiHost: 'https://api-dev-biohub-platform.apps.silver.devops.gov.bc.ca', env: 'dev', elasticsearchURL: 'https://elasticsearch-af2668-dev.apps.silver.devops.gov.bc.ca', tz: config.timezone.api, certificateURL: config.certificateURL.dev, replicas: 1, - maxReplicas: 2, - logLevel: isStaticDeployment && 'info' || 'debug' + maxReplicas: 1, + logLevel: (isStaticDeployment && 'info') || 'debug' }, test: { namespace: 'af2668-test', @@ -101,8 +102,10 @@ const phases = { version: `${version}`, tag: `test-${version}`, host: staticUrlsAPI.test, + appHost: staticUrls.test, + backboneApiHost: 'https://api-test-biohub-platform.apps.silver.devops.gov.bc.ca', env: 'test', - elasticsearchURL: 'https://elasticsearch-af2668-dev.apps.silver.devops.gov.bc.ca', + elasticsearchURL: 'http://es01:9200', tz: config.timezone.api, certificateURL: config.certificateURL.test, replicas: 3, @@ -120,6 +123,8 @@ const phases = { version: `${version}`, tag: `prod-${version}`, host: staticUrlsAPI.prod, + appHost: staticUrls.prod, + backboneApiHost: 'https://api-biohub-platform.apps.silver.devops.gov.bc.ca', env: 'prod', elasticsearchURL: 'http://es01:9200', tz: config.timezone.api, diff --git a/api/.pipeline/lib/api.deploy.js b/api/.pipeline/lib/api.deploy.js index b30076da6b..0f6b0b867b 100644 --- a/api/.pipeline/lib/api.deploy.js +++ b/api/.pipeline/lib/api.deploy.js @@ -30,9 +30,13 @@ module.exports = (settings) => { HOST: phases[phase].host, CHANGE_ID: phases.build.changeId || changeId, APP_HOST: phases[phase].appHost, + BACKBONE_API_HOST: phases[phase].backboneApiHost, NODE_ENV: phases[phase].env || 'dev', ELASTICSEARCH_URL: phases[phase].elasticsearchURL, TZ: phases[phase].tz, + KEYCLOAK_ADMIN_USERNAME: 'sims-svc', + KEYCLOAK_SECRET: 'keycloak-admin-password', + KEYCLOAK_SECRET_ADMIN_PASSWORD: 'keycloak_admin_password', DB_SERVICE_NAME: `${phases[phase].dbName}-postgresql${phases[phase].suffix}`, CERTIFICATE_URL: phases[phase].certificateURL, REPLICAS: phases[phase].replicas || 1, diff --git a/api/openshift/api.dc.yaml b/api/openshift/api.dc.yaml index 9c3a1ada84..3139914276 100644 --- a/api/openshift/api.dc.yaml +++ b/api/openshift/api.dc.yaml @@ -7,6 +7,10 @@ metadata: parameters: - name: ENABLE_FILE_VIRUS_SCAN value: 'true' + - name: CLAMAV_HOST + value: 'clamav' + - name: CLAMAV_PORT + value: '3310' - name: NAME value: biohubbc-api - name: SUFFIX @@ -20,6 +24,8 @@ parameters: - name: APP_HOST description: APP host for application frontend value: '' + - name: BACKBONE_API_HOST + description: API host for BioHub Platform Backbone - name: CHANGE_ID description: Change id of the project. This will help to pull image stream required: true @@ -51,10 +57,10 @@ parameters: value: 35r1iman - name: KEYCLOAK_ADMIN_USERNAME description: keycloak host admin username - value: biohubbc-svc - - name: KEYCLOAK_ADMIN_PASSWORD - description: keycloak host url - value: 'keycloak-admin-password' + - name: KEYCLOAK_SECRET + description: The name of the keycloak secret + - name: KEYCLOAK_SECRET_ADMIN_PASSWORD + description: The key of the admin password in the keycloak secret - name: API_PORT_DEFAULT value: '6100' - name: API_PORT_DEFAULT_NAME @@ -153,8 +159,14 @@ objects: value: ${API_PORT_DEFAULT} - name: APP_HOST value: ${APP_HOST} + - name: BACKBONE_API_HOST + value: ${BACKBONE_API_HOST} - name: ENABLE_FILE_VIRUS_SCAN value: ${ENABLE_FILE_VIRUS_SCAN} + - name: CLAMAV_HOST + value: ${CLAMAV_HOST} + - name: CLAMAV_PORT + value: ${CLAMAV_PORT} - name: DB_HOST value: ${DB_SERVICE_NAME} - name: DB_USER_API @@ -185,8 +197,8 @@ objects: - name: KEYCLOAK_ADMIN_PASSWORD valueFrom: secretKeyRef: - key: keycloak_admin_password - name: ${KEYCLOAK_ADMIN_PASSWORD} + name: ${KEYCLOAK_SECRET} + key: ${KEYCLOAK_SECRET_ADMIN_PASSWORD} - name: CHANGE_VERSION value: ${CHANGE_ID} - name: NODE_ENV @@ -291,13 +303,6 @@ objects: name: ${NAME}:${VERSION} type: ImageChange - type: ConfigChange - status: - availableReplicas: 0 - latestVersion: 0 - observedGeneration: 0 - replicas: 0 - unavailableReplicas: 0 - updatedReplicas: 0 - apiVersion: v1 stringData: database-name: '' @@ -350,7 +355,7 @@ objects: wildcardPolicy: None status: ingress: null - - apiVersion: autoscaling/v1 + - apiVersion: autoscaling/v2beta2 kind: HorizontalPodAutoscaler metadata: annotations: {} @@ -361,8 +366,13 @@ objects: maxReplicas: '${{REPLICA_MAX}}' minReplicas: '${{REPLICAS}}' scaleTargetRef: - apiVersion: v1 + apiVersion: apps.openshift.io/v1 kind: DeploymentConfig name: ${NAME}${SUFFIX} - cpuUtilization: - targetPercentage: 95 + metrics: + - type: Resource + resource: + name: cpu + target: + type: Utilization + averageUtilization: 80 diff --git a/api/package-lock.json b/api/package-lock.json index 5537c2d33e..6f5b522728 100644 --- a/api/package-lock.json +++ b/api/package-lock.json @@ -1,12427 +1,8 @@ { "name": "sims-api", "version": "0.0.0", - "lockfileVersion": 2, + "lockfileVersion": 1, "requires": true, - "packages": { - "": { - "name": "sims-api", - "version": "0.0.0", - "license": "Apache-2.0", - "dependencies": { - "@elastic/elasticsearch": "~8.1.0", - "adm-zip": "~0.5.5", - "ajv": "~8.6.3", - "aws-sdk": "~2.742.0", - "axios": "~0.21.4", - "clamdjs": "~1.0.2", - "db-migrate": "~0.11.11", - "db-migrate-pg": "~1.2.2", - "express": "~4.17.1", - "express-openapi": "~9.3.0", - "jsonpath": "~1.1.1", - "jsonwebtoken": "~8.5.1", - "jwks-rsa": "~2.0.5", - "knex": "~1.0.1", - "lodash": "~4.17.21", - "mime": "~2.5.2", - "moment": "~2.29.2", - "multer": "~1.4.3", - "pg": "~8.7.1", - "qs": "~6.10.1", - "sql-template-strings": "~2.2.2", - "swagger-ui-express": "~4.3.0", - "typescript": "~4.1.6", - "uuid": "~8.3.2", - "winston": "~3.3.3", - "xlsx": "~0.17.0", - "xml2js": "~0.4.23" - }, - "devDependencies": { - "@istanbuljs/nyc-config-typescript": "~1.0.1", - "@types/adm-zip": "~0.4.34", - "@types/chai": "~4.2.22", - "@types/express": "~4.17.13", - 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"dev": true, - "requires": {} + "dev": true }, "slash": { "version": "3.0.0", @@ -20964,14 +8621,6 @@ "resolved": "https://registry.npmjs.org/streamsearch/-/streamsearch-0.1.2.tgz", "integrity": "sha1-gIudDlb8Jz2Am6VzOOkpkZoanxo=" }, - "string_decoder": { - "version": "1.3.0", - "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-1.3.0.tgz", - "integrity": "sha512-hkRX8U1WjJFd8LsDJ2yQ/wWWxaopEsABU1XfkM8A+j0+85JAGppt16cr1Whg6KIbb4okU6Mql6BOj+uup/wKeA==", - "requires": { - "safe-buffer": "~5.2.0" - } - }, "string-width": { "version": "4.2.0", "resolved": "https://registry.npmjs.org/string-width/-/string-width-4.2.0.tgz", @@ -21013,6 +8662,14 @@ "define-properties": "^1.1.3" } }, + "string_decoder": { + "version": "1.3.0", + "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-1.3.0.tgz", + "integrity": "sha512-hkRX8U1WjJFd8LsDJ2yQ/wWWxaopEsABU1XfkM8A+j0+85JAGppt16cr1Whg6KIbb4okU6Mql6BOj+uup/wKeA==", + "requires": { + "safe-buffer": "~5.2.0" + } + }, "strip-ansi": { "version": "6.0.0", "resolved": "https://registry.npmjs.org/strip-ansi/-/strip-ansi-6.0.0.tgz", diff --git a/api/package.json b/api/package.json index 32093db960..51db4a569b 100644 --- a/api/package.json +++ b/api/package.json @@ -29,6 +29,10 @@ }, "dependencies": { "@elastic/elasticsearch": "~8.1.0", + "@turf/bbox": "~6.5.0", + "@turf/circle": "~6.5.0", + "@turf/helpers": "~6.5.0", + "@turf/meta": "~6.5.0", "adm-zip": "~0.5.5", "ajv": "~8.6.3", "aws-sdk": "~2.742.0", @@ -38,6 +42,9 @@ "db-migrate-pg": "~1.2.2", "express": "~4.17.1", "express-openapi": "~9.3.0", + "fast-deep-equal": "~3.1.3", + "fast-json-patch": "~3.1.1", + "form-data": "~4.0.0", "jsonpath": "~1.1.1", "jsonwebtoken": "~8.5.1", "jwks-rsa": "~2.0.5", @@ -75,7 +82,7 @@ "@types/sinon-chai": "~3.2.5", "@types/swagger-ui-express": "~4.1.3", "@types/uuid": "~8.3.1", - "@types/xml2js": "^0.4.9", + "@types/xml2js": "~0.4.9", "@types/yamljs": "~0.2.31", "@typescript-eslint/eslint-plugin": "~4.33.0", "@typescript-eslint/parser": "~4.33.0", diff --git a/api/src/__mocks__/db.ts b/api/src/__mocks__/db.ts index a758f95324..4d03c9a282 100644 --- a/api/src/__mocks__/db.ts +++ b/api/src/__mocks__/db.ts @@ -29,6 +29,12 @@ export const getMockDBConnection = (config?: Partial): IDBConnect query: async () => { return (undefined as unknown) as QueryResult; }, + sql: async () => { + return (undefined as unknown) as QueryResult; + }, + knex: async () => { + return (undefined as unknown) as QueryResult; + }, ...config }; }; diff --git a/api/src/database/db.test.ts b/api/src/database/db.test.ts index ae219bcf14..5af73ff347 100644 --- a/api/src/database/db.test.ts +++ b/api/src/database/db.test.ts @@ -2,11 +2,12 @@ import { expect } from 'chai'; import { describe } from 'mocha'; import * as pg from 'pg'; import Sinon from 'sinon'; +import SQL from 'sql-template-strings'; import { SYSTEM_IDENTITY_SOURCE } from '../constants/database'; import { HTTPError } from '../errors/custom-error'; import { setSystemUserContextSQL } from '../queries/database/user-context-queries'; import * as db from './db'; -import { getAPIUserDBConnection, getDBConnection, getDBPool, IDBConnection, initDBPool } from './db'; +import { getAPIUserDBConnection, getDBConnection, getDBPool, getKnex, IDBConnection, initDBPool } from './db'; describe('db', () => { beforeEach(() => { @@ -277,6 +278,41 @@ describe('db', () => { }); }); }); + + describe('sql', () => { + describe('when a connection is open', () => { + it('sends a sql statement', async () => { + sinonSandbox.stub(db, 'getDBPool').returns((mockPool as unknown) as pg.Pool); + + await connection.open(); + + const sqlStatement = SQL`sql query ${123}`; + + await connection.sql(sqlStatement); + + expect(queryStub).to.have.been.calledWith('sql query $1', [123]); + }); + }); + + describe('when a connection is not open', () => { + it('throws an error', async () => { + sinonSandbox.stub(db, 'getDBPool').returns((mockPool as unknown) as pg.Pool); + + let expectedError: Error; + try { + const sqlStatement = SQL`sql query ${123}`; + + await connection.sql(sqlStatement); + + expect.fail('Expected an error to be thrown'); + } catch (error) { + expectedError = error as Error; + } + + expect(expectedError.message).to.equal('DBConnection is not open'); + }); + }); + }); }); }); @@ -297,4 +333,12 @@ describe('db', () => { }); }); }); + + describe('getKnex', () => { + it('returns a Knex instance', () => { + const knex = getKnex(); + + expect(knex.queryBuilder().client.config).to.eql({ client: 'pg' }); + }); + }); }); diff --git a/api/src/database/db.ts b/api/src/database/db.ts index 9fc484969f..2cd86c2f0f 100644 --- a/api/src/database/db.ts +++ b/api/src/database/db.ts @@ -1,4 +1,6 @@ +import knex, { Knex } from 'knex'; import * as pg from 'pg'; +import { SQLStatement } from 'sql-template-strings'; import { ApiExecuteSQLError, ApiGeneralError } from '../errors/custom-error'; import { queries } from '../queries/queries'; import { getUserIdentifier, getUserIdentitySource } from '../utils/keycloak-utils'; @@ -16,6 +18,8 @@ const DB_POOL_SIZE: number = Number(process.env.DB_POOL_SIZE) || 20; const DB_CONNECTION_TIMEOUT: number = Number(process.env.DB_CONNECTION_TIMEOUT) || 0; const DB_IDLE_TIMEOUT: number = Number(process.env.DB_IDLE_TIMEOUT) || 10000; +const DB_CLIENT = 'pg'; + export const defaultPoolConfig: pg.PoolConfig = { user: DB_USERNAME, password: DB_PASSWORD, @@ -115,6 +119,24 @@ export interface IDBConnection { * @memberof IDBConnection */ query: (text: string, values?: any[]) => Promise>; + /** + * Performs a query against this connection, returning the results. + * + * @param {SQLStatement} sqlStatement SQL statement object + * @return {*} {(Promise>)} + * @throws If the connection is not open. + * @memberof IDBConnection + */ + sql: (sqlStatement: SQLStatement) => Promise>; + /** + * Performs a query against this connection, returning the results. + * + * @param {Knex.QueryBuilder} queryBuilder Knex query builder object + * @return {*} {(Promise>)} + * @throws If the connection is not open. + * @memberof IDBConnection + */ + knex: (queryBuilder: Knex.QueryBuilder) => Promise>; /** * Get the ID of the system user in context. * @@ -130,12 +152,14 @@ export interface IDBConnection { * * Usage Example: * + * const sqlStatement = SQL\`select * from table where id = ${id};\`; + * * const connection = await getDBConnection(req['keycloak_token']); + * * try { * await connection.open(); * await connection.query(sqlStatement1.text, sqlStatement1.values); - * await connection.query(sqlStatement2.text, sqlStatement2.values); - * await connection.query(sqlStatement3.text, sqlStatement3.values); + * await connection.sql(sqlStatement2); * await connection.commit(); * } catch (error) { * await connection.rollback(); @@ -258,6 +282,31 @@ export const getDBConnection = function (keycloakToken: object): IDBConnection { return _systemUserId; }; + /** + * Performs a query against this connection, returning the results. + * + * @template T + * @param {SQLStatement} sqlStatement SQL statement object + * @throws {Error} if the connection is not open + * @return {*} {Promise>} + */ + const _sql = async (sqlStatement: SQLStatement): Promise> => { + return _query(sqlStatement.text, sqlStatement.values); + }; + + /** + * Performs a query against this connection, returning the results. + * + * @param {Knex.QueryBuilder} queryBuilder Knex query builder object + * @throws {Error} if the connection is not open + * @return {*} {Promise>} + */ + const _knex = async (queryBuilder: Knex.QueryBuilder) => { + const { sql, bindings } = queryBuilder.toSQL().toNative(); + + return _query(sql, bindings as any[]); + }; + /** * Set the user context. * @@ -296,6 +345,8 @@ export const getDBConnection = function (keycloakToken: object): IDBConnection { return { open: _open, query: _query, + sql: _sql, + knex: _knex, release: _release, commit: _commit, rollback: _rollback, @@ -314,3 +365,17 @@ export const getDBConnection = function (keycloakToken: object): IDBConnection { export const getAPIUserDBConnection = (): IDBConnection => { return getDBConnection({ preferred_username: 'biohub_api@database' }); }; + +/** + * Get a Knex instance. + * + * @template TRecord + * @template TResult + * @return {*} {Knex} + */ +export const getKnex = = any, TResult = Record[]>(): Knex< + TRecord, + TResult +> => { + return knex({ client: DB_CLIENT }); +}; diff --git a/api/src/models/project-survey-attachments.test.ts b/api/src/models/project-survey-attachments.test.ts index a6e7a2166c..926b08d400 100644 --- a/api/src/models/project-survey-attachments.test.ts +++ b/api/src/models/project-survey-attachments.test.ts @@ -16,7 +16,7 @@ describe('GetAttachmentsData', () => { getAttachmentsData = new GetAttachmentsData(null); }); - it('sets attachmentsList', function () { + it('sets attachmentsList', () => { expect(getAttachmentsData.attachmentsList).to.eql([]); }); }); @@ -39,17 +39,19 @@ describe('GetAttachmentsData', () => { getAttachmentsData = new GetAttachmentsData(attachmentsData); }); - it('sets attachmentsList', function () { - expect(getAttachmentsData.attachmentsList).to.eql([ - { - id: 1, - fileName: 'filename', - lastModified: '2020/04/04', - size: 24, - fileType: 'Video', - securityToken: 'token123' - } - ]); + it('sets attachmentsList', () => { + expect(getAttachmentsData).to.be.an('object'); + expect(getAttachmentsData).to.have.property('attachmentsList'); + + expect(getAttachmentsData.attachmentsList).to.be.an('array'); + expect(getAttachmentsData.attachmentsList).to.have.length(1); + + expect(getAttachmentsData.attachmentsList[0].fileName).to.equal('filename'); + expect(getAttachmentsData.attachmentsList[0].fileType).to.equal('Video'); + expect(getAttachmentsData.attachmentsList[0].id).to.equal(1); + expect(getAttachmentsData.attachmentsList[0].lastModified).to.match(new RegExp('2020-04-04T.*')); + expect(getAttachmentsData.attachmentsList[0].size).to.equal(24); + expect(getAttachmentsData.attachmentsList[0].securityToken).to.equal('token123'); }); }); }); @@ -62,7 +64,7 @@ describe('PostReportAttachmentsMetaData', () => { postReportAttachmentsData = new PostReportAttachmentMetadata(null); }); - it('sets attachmentsData', function () { + it('sets attachmentsData', () => { expect(postReportAttachmentsData).to.eql({ title: null, year_published: 0, authors: [], description: null }); }); }); @@ -81,7 +83,7 @@ describe('PostReportAttachmentsMetaData', () => { postReportAttachmentsData = new PostReportAttachmentMetadata(input); }); - it('sets the report metadata', function () { + it('sets the report metadata', () => { expect(postReportAttachmentsData).to.eql({ title: 'Report 1', year_published: 2000, @@ -94,7 +96,7 @@ describe('PostReportAttachmentsMetaData', () => { describe('PutReportAttachmentMetaData', () => { describe('No values provided', () => { - it('sets attachmentsData', function () { + it('sets attachmentsData', () => { const putReportAttachmentData = new PutReportAttachmentMetadata(null); expect(putReportAttachmentData.title).to.equal(null); @@ -114,7 +116,7 @@ describe('PutReportAttachmentMetaData', () => { revision_count: 1 }; - it('sets the report metadata', function () { + it('sets the report metadata', () => { const putReportAttachmentData = new PutReportAttachmentMetadata(input); expect(putReportAttachmentData.title).to.equal(input.title); expect(putReportAttachmentData.year_published).to.equal(input.year_published); @@ -127,7 +129,7 @@ describe('PutReportAttachmentMetaData', () => { describe('GetReportAttachmentMetaData', () => { describe('No values provided', () => { - it('sets the report metadata', function () { + it('sets the report metadata', () => { const getReportAttachmentData = new GetReportAttachmentMetadata(null); expect(getReportAttachmentData).to.eql({ @@ -153,7 +155,7 @@ describe('GetReportAttachmentMetaData', () => { authors: [{ first_name: 'John', last_name: 'Smith' }] }; - it('sets the report metadata', function () { + it('sets the report metadata', () => { const getReportAttachmentData = new GetReportAttachmentMetadata(input); expect(getReportAttachmentData.title).to.equal(input.title); @@ -167,7 +169,7 @@ describe('GetReportAttachmentMetaData', () => { describe('GetReportAttachmentAuthor', () => { describe('No values provided', () => { - it('sets the authors', function () { + it('sets the authors', () => { const getReportAttachmentAuthor = new GetReportAttachmentAuthor(null); expect(getReportAttachmentAuthor).to.eql({ first_name: null, @@ -182,7 +184,7 @@ describe('GetReportAttachmentAuthor', () => { last_name: 'Smith' }; - it('sets the report metadata', function () { + it('sets the report metadata', () => { const getReportAttachmentAuthor = new GetReportAttachmentAuthor(input); expect(getReportAttachmentAuthor.first_name).to.equal(input.first_name); diff --git a/api/src/models/project-survey-attachments.ts b/api/src/models/project-survey-attachments.ts index 2e24a73b45..b9a8df31f3 100644 --- a/api/src/models/project-survey-attachments.ts +++ b/api/src/models/project-survey-attachments.ts @@ -1,3 +1,4 @@ +import moment from 'moment'; import { getLogger } from '../utils/logger'; const defaultLog = getLogger('models/project-survey-attachments'); @@ -21,7 +22,7 @@ export class GetAttachmentsData { id: item.id, fileName: item.file_name, fileType: item.file_type || 'Report', - lastModified: (item.update_date || item.create_date).toString(), + lastModified: moment(item.update_date || item.create_date).toISOString(), size: item.file_size, securityToken: item.security_token }; diff --git a/api/src/models/project-view.ts b/api/src/models/project-view.ts index 76a8afb13d..a577f15c42 100644 --- a/api/src/models/project-view.ts +++ b/api/src/models/project-view.ts @@ -1,20 +1,17 @@ import { Feature } from 'geojson'; import moment from 'moment'; import { COMPLETION_STATUS } from '../constants/status'; -import { getLogger } from '../utils/logger'; - -const defaultLog = getLogger('models/project-view'); export interface IGetProject { id: number; - coordinator: GetCoordinatorData | null; - permit: GetPermitData | null; - project: GetProjectData | null; - objectives: GetObjectivesData | null; - location: GetLocationData | null; - iucn: GetIUCNClassificationData | null; - funding: GetFundingData | null; - partnerships: GetPartnershipsData | null; + coordinator: GetCoordinatorData; + permit: GetPermitData; + project: GetProjectData; + objectives: GetObjectivesData; + location: GetLocationData; + iucn: GetIUCNClassificationData; + funding: GetFundingData; + partnerships: GetPartnershipsData; } /** @@ -24,6 +21,7 @@ export interface IGetProject { * @class GetProjectData */ export class GetProjectData { + uuid: string; project_name: string; project_type: number; project_activities: number[]; @@ -35,13 +33,7 @@ export class GetProjectData { revision_count: number; constructor(projectData?: any, activityData?: any[]) { - defaultLog.debug({ - label: 'GetProjectData', - message: 'params', - projectData: { ...projectData, geometry: 'Too big to print' }, - activityData - }); - + this.uuid = projectData?.uuid || ''; this.project_name = projectData?.name || ''; this.project_type = projectData?.pt_id || -1; this.project_activities = (activityData?.length && activityData.map((item) => item.activity_id)) || []; @@ -71,12 +63,6 @@ export class GetObjectivesData { revision_count: number; constructor(objectivesData?: any) { - defaultLog.debug({ - label: 'GetObjectivesData', - message: 'params', - objectivesData: { ...objectivesData, geometry: 'Too big to print' } - }); - this.objectives = objectivesData?.objectives || ''; this.caveats = objectivesData?.caveats || ''; this.revision_count = objectivesData?.revision_count ?? null; @@ -98,12 +84,6 @@ export class GetCoordinatorData { revision_count: number; constructor(coordinatorData?: any) { - defaultLog.debug({ - label: 'GetCoordinatorData', - message: 'params', - coordinatorData: { ...coordinatorData, geometry: 'Too big to print' } - }); - this.first_name = coordinatorData?.coordinator_first_name || ''; this.last_name = coordinatorData?.coordinator_last_name || ''; this.email_address = coordinatorData?.coordinator_email_address || ''; @@ -128,12 +108,6 @@ export class GetPermitData { permits: IGetPermit[]; constructor(permitData?: any[]) { - defaultLog.debug({ - label: 'GetPermitData', - message: 'params', - permitData: permitData - }); - this.permits = (permitData?.length && permitData.map((item: any) => { @@ -158,14 +132,6 @@ export class GetLocationData { revision_count: number; constructor(locationData?: any) { - defaultLog.debug({ - label: 'GetLocationData', - message: 'params', - locationData: locationData?.map((item: any) => { - return { ...item, geometry: 'Too big to print' }; - }) - }); - const locationDataItem = locationData && locationData.length && locationData[0]; this.location_description = locationDataItem?.location_description || ''; @@ -190,12 +156,6 @@ export class GetIUCNClassificationData { classificationDetails: IGetIUCN[]; constructor(iucnClassificationData?: any[]) { - defaultLog.debug({ - label: 'GetIUCNClassificationData', - message: 'params', - iucnClassificationData: iucnClassificationData - }); - this.classificationDetails = (iucnClassificationData && iucnClassificationData.map((item: any) => { @@ -226,12 +186,6 @@ export class GetFundingData { fundingSources: IGetFundingSource[]; constructor(fundingData?: any[]) { - defaultLog.debug({ - label: 'GetFundingData', - message: 'params', - fundingData: fundingData - }); - this.fundingSources = (fundingData && fundingData.map((item: any) => { @@ -263,31 +217,9 @@ export class GetPartnershipsData { stakeholder_partnerships: string[]; constructor(indigenous_partnerships?: any[], stakeholder_partnerships?: any[]) { - defaultLog.debug({ - label: 'GetPartnershipsData', - message: 'params', - indigenous_partnerships, - stakeholder_partnerships - }); - this.indigenous_partnerships = (indigenous_partnerships?.length && indigenous_partnerships.map((item: any) => item.id)) || []; this.stakeholder_partnerships = (stakeholder_partnerships?.length && stakeholder_partnerships.map((item: any) => item.partnership_name)) || []; } } - -export class GetSpeciesData { - focal_species: number[]; - focal_species_names: string[]; - - constructor(input?: any[]) { - this.focal_species = []; - this.focal_species_names = []; - input?.length && - input.forEach((item: any) => { - this.focal_species.push(Number(item.id)); - this.focal_species_names.push(item.label); - }); - } -} diff --git a/api/src/models/public/project.ts b/api/src/models/public/project.ts index 7f3f9c20d6..e548491774 100644 --- a/api/src/models/public/project.ts +++ b/api/src/models/public/project.ts @@ -1,3 +1,4 @@ +import moment from 'moment'; import { getLogger } from '../../utils/logger'; const defaultLog = getLogger('models/public/project'); @@ -47,7 +48,7 @@ export class GetPublicAttachmentsData { id: item.id, fileName: item.file_name, fileType: item.file_type || 'Report', - lastModified: (item.update_date || item.create_date).toString(), + lastModified: moment(item.update_date || item.create_date).toISOString(), size: item.file_size, securityToken: item.is_secured ? 'true' : 'false' }; diff --git a/api/src/models/survey-create.test.ts b/api/src/models/survey-create.test.ts index 4702836ec4..dbc7bbec8d 100644 --- a/api/src/models/survey-create.test.ts +++ b/api/src/models/survey-create.test.ts @@ -1,6 +1,16 @@ import { expect } from 'chai'; import { describe } from 'mocha'; -import { PostSurveyObject, PostSurveyProprietorData } from './survey-create'; +import { + PostAgreementsData, + PostFundingData, + PostLocationData, + PostPermitData, + PostProprietorData, + PostPurposeAndMethodologyData, + PostSpeciesData, + PostSurveyDetailsData, + PostSurveyObject +} from './survey-create'; describe('PostSurveyObject', () => { describe('No values provided', () => { @@ -10,257 +20,271 @@ describe('PostSurveyObject', () => { data = new PostSurveyObject(null); }); - it('sets survey_name', () => { - expect(data.survey_name).to.equal(null); + it('sets survey_details', () => { + expect(data.survey_details).to.equal(null); }); - it('sets focal_species', () => { - expect(data.focal_species).to.eql([]); + it('sets species', () => { + expect(data.species).to.equal(null); }); - it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql([]); + it('sets permit', () => { + expect(data.permit).to.equal(null); }); - it('sets start_date', () => { - expect(data.start_date).to.equal(null); + it('sets funding', () => { + expect(data.funding).to.equal(null); }); - it('sets end_date', () => { - expect(data.end_date).to.equal(null); + it('sets proprietor', () => { + expect(data.proprietor).to.equal(null); }); - it('sets biologist_first_name', () => { - expect(data.biologist_first_name).to.equal(null); + it('sets purpose_and_methodology', () => { + expect(data.purpose_and_methodology).to.equal(null); }); - it('sets biologist_last_name', () => { - expect(data.biologist_last_name).to.equal(null); + it('sets location', () => { + expect(data.location).to.equal(null); }); - it('sets survey_area_name', () => { - expect(data.survey_area_name).to.equal(null); + it('sets agreements', () => { + expect(data.agreements).to.equal(null); }); + }); - it('sets foippa_requirements_accepted', () => { - expect(data.foippa_requirements_accepted).to.equal(false); - }); + describe('All values provided', () => { + let data: PostSurveyObject; - it('sets sedis_procedures_accepted', () => { - expect(data.sedis_procedures_accepted).to.equal(false); + const obj = { + survey_details: {}, + species: {}, + permit: {}, + funding: {}, + proprietor: {}, + purpose_and_methodology: {}, + location: {}, + agreements: {} + }; + + before(() => { + data = new PostSurveyObject(obj); }); - it('sets survey_data_proprietary', () => { - expect(data.survey_data_proprietary).to.equal(false); + it('sets survey_details', () => { + expect(data.survey_details).to.be.instanceOf(PostSurveyDetailsData); }); - it('sets survey_proprietor', () => { - expect(data.survey_proprietor).to.equal(undefined); + it('sets species', () => { + expect(data.species).to.instanceOf(PostSpeciesData); }); - it('sets surveyed_all_areas', () => { - expect(data.surveyed_all_areas).to.equal(false); + it('sets permit', () => { + expect(data.permit).to.instanceOf(PostPermitData); }); - }); - describe('All values provided with survey data proprietary is false', () => { - let data: PostSurveyObject; + it('sets funding', () => { + expect(data.funding).to.instanceOf(PostFundingData); + }); - const surveyObj = { - biologist_first_name: 'first', - biologist_last_name: 'last', - end_date: '2020/04/04', - foippa_requirements_accepted: 'true', - sedis_procedures_accepted: 'true', - focal_species: [1, 2], - ancillary_species: [3, 4], - common_survey_methodology_id: 1, - start_date: '2020/03/03', - survey_area_name: 'area name', - survey_data_proprietary: 'false', - survey_name: 'survey name', - survey_purpose: 'purpose', - geometry: [ - { - type: 'Polygon', - coordinates: [ - [ - [-128, 55], - [-128, 55.5], - [-128, 56], - [-126, 58], - [-128, 55] - ] - ], - properties: { - name: 'Biohub Islands' - } - } - ], - proprietary_data_category: null, - first_nations_id: null, - category_rationale: null, - proprietor_name: null, - data_sharing_agreement_required: 'false', - surveyed_all_areas: 'true' - }; + it('sets proprietor', () => { + expect(data.proprietor).to.instanceOf(PostProprietorData); + }); - before(() => { - data = new PostSurveyObject(surveyObj); + it('sets purpose_and_methodology', () => { + expect(data.purpose_and_methodology).to.instanceOf(PostPurposeAndMethodologyData); }); - it('sets survey_name', () => { - expect(data.survey_name).to.equal(surveyObj.survey_name); + it('sets location', () => { + expect(data.location).to.instanceOf(PostLocationData); }); - it('sets focal_species', () => { - expect(data.focal_species).to.eql(surveyObj.focal_species); + it('sets agreements', () => { + expect(data.agreements).to.instanceOf(PostAgreementsData); }); + }); +}); - it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql(surveyObj.ancillary_species); +describe('PostSurveyDetailsData', () => { + describe('No values provided', () => { + let data: PostSurveyDetailsData; + + before(() => { + data = new PostSurveyDetailsData(null); }); - it('sets start_date', () => { - expect(data.start_date).to.equal(surveyObj.start_date); + it('sets survey_name', () => { + expect(data.survey_name).to.equal(null); }); it('sets end_date', () => { - expect(data.end_date).to.equal(surveyObj.end_date); + expect(data.end_date).to.equal(null); + }); + + it('sets start_date', () => { + expect(data.start_date).to.equal(null); }); it('sets biologist_first_name', () => { - expect(data.biologist_first_name).to.equal(surveyObj.biologist_first_name); + expect(data.biologist_first_name).to.equal(null); }); it('sets biologist_last_name', () => { - expect(data.biologist_last_name).to.equal(surveyObj.biologist_last_name); + expect(data.biologist_last_name).to.equal(null); }); + }); - it('sets survey_area_name', () => { - expect(data.survey_area_name).to.equal(surveyObj.survey_area_name); + describe('All values provided', () => { + let data: PostSurveyDetailsData; + + const obj = { + survey_name: 'survey name', + end_date: '2020/04/04', + start_date: '2020/03/03', + biologist_first_name: 'first', + biologist_last_name: 'last' + }; + + before(() => { + data = new PostSurveyDetailsData(obj); }); - it('sets foippa_requirements_accepted', () => { - expect(data.foippa_requirements_accepted).to.equal(true); + it('sets survey_name', () => { + expect(data.survey_name).to.equal(obj.survey_name); }); - it('sets sedis_procedures_accepted', () => { - expect(data.sedis_procedures_accepted).to.equal(true); + it('sets end_date', () => { + expect(data.end_date).to.equal(obj.end_date); + }); + + it('sets start_date', () => { + expect(data.start_date).to.equal(obj.start_date); }); - it('sets survey_data_proprietary', () => { - expect(data.survey_data_proprietary).to.equal(false); + it('sets biologist_first_name', () => { + expect(data.biologist_first_name).to.equal(obj.biologist_first_name); }); - it('sets survey_proprietor', () => { - expect(data.survey_proprietor).to.equal(undefined); + it('sets biologist_last_name', () => { + expect(data.biologist_last_name).to.equal(obj.biologist_last_name); }); + }); +}); + +describe('PostSpeciesData', () => { + describe('No values provided', () => { + let data: PostSpeciesData; - it('sets the geometry', () => { - expect(data.geometry).to.eql(surveyObj.geometry); + before(() => { + data = new PostSpeciesData(null); }); - it('sets surveyed_all_areas', () => { - expect(data.surveyed_all_areas).to.equal(true); + it('sets focal_species', () => { + expect(data.focal_species).to.eql([]); + }); + + it('sets ancillary_species', () => { + expect(data.ancillary_species).to.eql([]); }); }); - describe('All values provided with survey data proprietary is true', () => { - let data: PostSurveyObject; + describe('All values provided', () => { + let data: PostSpeciesData; - const surveyObj = { - biologist_first_name: 'first', - biologist_last_name: 'last', - end_date: '2020/04/04', - foippa_requirements_accepted: 'true', - sedis_procedures_accepted: 'true', + const obj = { focal_species: [1, 2], - ancillary_species: [3, 4], - common_survey_methodology_id: 1, - start_date: '2020/03/03', - survey_area_name: 'area name', - survey_data_proprietary: 'true', - survey_name: 'survey name', - survey_purpose: 'purpose', - proprietary_data_category: 1, - first_nations_id: null, - category_rationale: 'rationale', - proprietor_name: 'name', - data_sharing_agreement_required: 'true', - surveyed_all_areas: 'true' + ancillary_species: [3] }; before(() => { - data = new PostSurveyObject(surveyObj); - }); - - it('sets survey_name', () => { - expect(data.survey_name).to.equal(surveyObj.survey_name); + data = new PostSpeciesData(obj); }); it('sets focal_species', () => { - expect(data.focal_species).to.eql(surveyObj.focal_species); + expect(data.focal_species).to.eql([1, 2]); }); it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql(surveyObj.ancillary_species); + expect(data.ancillary_species).to.eql([3]); }); + }); +}); - it('sets start_date', () => { - expect(data.start_date).to.equal(surveyObj.start_date); +describe('PostPermitData', () => { + describe('No values provided', () => { + let data: PostPermitData; + + before(() => { + data = new PostPermitData(null); }); - it('sets end_date', () => { - expect(data.end_date).to.equal(surveyObj.end_date); + it('sets permit_number', () => { + expect(data.permit_number).to.eql(null); }); - it('sets biologist_first_name', () => { - expect(data.biologist_first_name).to.equal(surveyObj.biologist_first_name); + it('sets ancillary_species', () => { + expect(data.permit_type).to.eql(null); }); + }); - it('sets biologist_last_name', () => { - expect(data.biologist_last_name).to.equal(surveyObj.biologist_last_name); + describe('All values provided', () => { + let data: PostPermitData; + + const obj = { + permit_number: '12345', + permit_type: 'permit_type' + }; + + before(() => { + data = new PostPermitData(obj); }); - it('sets survey_area_name', () => { - expect(data.survey_area_name).to.equal(surveyObj.survey_area_name); + it('sets permit_number', () => { + expect(data.permit_number).to.equal(obj.permit_number); }); - it('sets foippa_requirements_accepted', () => { - expect(data.foippa_requirements_accepted).to.equal(true); + it('sets permit_type', () => { + expect(data.permit_type).to.equal(obj.permit_type); }); + }); +}); - it('sets sedis_procedures_accepted', () => { - expect(data.sedis_procedures_accepted).to.equal(true); +describe('PostFundingData', () => { + describe('No values provided', () => { + let data: PostFundingData; + + before(() => { + data = new PostFundingData(null); }); - it('sets survey_data_proprietary', () => { - expect(data.survey_data_proprietary).to.equal(true); + it('sets permit_number', () => { + expect(data.funding_sources).to.eql([]); }); + }); + + describe('All values provided', () => { + let data: PostFundingData; - it('sets survey_proprietor', () => { - expect(data.survey_proprietor).to.eql({ - prt_id: 1, - fn_id: null, - rationale: 'rationale', - proprietor_name: 'name', - disa_required: true - }); + const obj = { + funding_sources: [1, 2] + }; + + before(() => { + data = new PostFundingData(obj); }); - it('sets surveyed_all_areas', () => { - expect(data.surveyed_all_areas).to.equal(true); + it('sets funding_sources', () => { + expect(data.funding_sources).to.eql([1, 2]); }); }); }); -describe('PostSurveyProprietorData', () => { +describe('PostProprietorData', () => { describe('No values provided', () => { - let data: PostSurveyProprietorData; + let data: PostProprietorData; before(() => { - data = new PostSurveyProprietorData(null); + data = new PostProprietorData(null); }); it('sets prt_id', () => { @@ -284,35 +308,35 @@ describe('PostSurveyProprietorData', () => { }); }); - describe('All values provided with no first nations id', () => { - let data: PostSurveyProprietorData; + describe('All values provided with first nations id', () => { + let data: PostProprietorData; - const proprietorData = { - proprietary_data_category: 1, - first_nations_id: null, - category_rationale: 'rationale', + const obj = { + proprietary_data_category: 'survey name', + first_nations_id: 1, + category_rationale: 2, proprietor_name: 'name', - data_sharing_agreement_required: 'true' + disa_required: 'true' }; before(() => { - data = new PostSurveyProprietorData(proprietorData); + data = new PostProprietorData(obj); }); it('sets prt_id', () => { - expect(data.prt_id).to.equal(proprietorData.proprietary_data_category); + expect(data.prt_id).to.equal(obj.proprietary_data_category); }); it('sets fn_id', () => { - expect(data.fn_id).to.equal(null); + expect(data.fn_id).to.equal(obj.first_nations_id); }); it('sets rationale', () => { - expect(data.rationale).to.equal(proprietorData.category_rationale); + expect(data.rationale).to.equal(obj.category_rationale); }); it('sets proprietor_name', () => { - expect(data.proprietor_name).to.equal(proprietorData.proprietor_name); + expect(data.proprietor_name).to.equal(null); }); it('sets disa_required', () => { @@ -320,39 +344,192 @@ describe('PostSurveyProprietorData', () => { }); }); - describe('All values provided with first nations id', () => { - let data: PostSurveyProprietorData; + describe('All values provided without first nations id', () => { + let data: PostProprietorData; - const proprietorData = { - proprietary_data_category: 1, - first_nations_id: 2, - category_rationale: 'rationale', + const obj = { + proprietary_data_category: 'survey name', + first_nations_id: null, + category_rationale: 2, proprietor_name: 'name', - data_sharing_agreement_required: 'true' + disa_required: 'false' }; before(() => { - data = new PostSurveyProprietorData(proprietorData); + data = new PostProprietorData(obj); }); it('sets prt_id', () => { - expect(data.prt_id).to.equal(proprietorData.proprietary_data_category); + expect(data.prt_id).to.equal(obj.proprietary_data_category); }); it('sets fn_id', () => { - expect(data.fn_id).to.equal(proprietorData.first_nations_id); + expect(data.fn_id).to.equal(obj.first_nations_id); }); it('sets rationale', () => { - expect(data.rationale).to.equal(proprietorData.category_rationale); + expect(data.rationale).to.equal(obj.category_rationale); }); it('sets proprietor_name', () => { - expect(data.proprietor_name).to.equal(null); + expect(data.proprietor_name).to.equal(obj.proprietor_name); }); it('sets disa_required', () => { - expect(data.disa_required).to.equal(true); + expect(data.disa_required).to.equal(false); + }); + }); +}); + +describe('PostLocationData', () => { + describe('No values provided', () => { + let data: PostLocationData; + + before(() => { + data = new PostLocationData(null); + }); + + it('sets survey_area_name', () => { + expect(data.survey_area_name).to.equal(null); + }); + + it('sets geometry', () => { + expect(data.geometry).to.eql([]); + }); + }); + + describe('All values provided with first nations id', () => { + let data: PostLocationData; + + const obj = { + survey_area_name: 'area_name', + geometry: [{}] + }; + + before(() => { + data = new PostLocationData(obj); + }); + + it('sets survey_area_name', () => { + expect(data.survey_area_name).to.equal(obj.survey_area_name); + }); + + it('sets geometry', () => { + expect(data.geometry).to.eql(obj.geometry); + }); + }); +}); + +describe('PostPurposeAndMethodologyData', () => { + describe('No values provided', () => { + let data: PostPurposeAndMethodologyData; + + before(() => { + data = new PostPurposeAndMethodologyData(null); + }); + + it('sets intended_outcome_id', () => { + expect(data.intended_outcome_id).to.equal(null); + }); + + it('sets additional_details', () => { + expect(data.additional_details).to.equal(null); + }); + + it('sets field_method_id', () => { + expect(data.field_method_id).to.equal(null); + }); + + it('sets ecological_season_id', () => { + expect(data.ecological_season_id).to.equal(null); + }); + + it('sets vantage_code_ids', () => { + expect(data.vantage_code_ids).to.eql([]); + }); + + it('sets surveyed_all_areas', () => { + expect(data.surveyed_all_areas).to.equal(null); + }); + }); + + describe('All values provided with first nations id', () => { + let data: PostPurposeAndMethodologyData; + + const obj = { + intended_outcome_id: 1, + additional_details: 'additional_detail', + field_method_id: 2, + ecological_season_id: 3, + vantage_code_ids: [4, 5], + surveyed_all_areas: true + }; + + before(() => { + data = new PostPurposeAndMethodologyData(obj); + }); + + it('sets intended_outcome_id', () => { + expect(data.intended_outcome_id).to.equal(obj.intended_outcome_id); + }); + + it('sets additional_details', () => { + expect(data.additional_details).to.eql(obj.additional_details); + }); + + it('sets field_method_id', () => { + expect(data.field_method_id).to.eql(obj.field_method_id); + }); + + it('sets ecological_season_id', () => { + expect(data.ecological_season_id).to.eql(obj.ecological_season_id); + }); + + it('sets vantage_code_ids', () => { + expect(data.vantage_code_ids).to.eql(obj.vantage_code_ids); + }); + + it('sets surveyed_all_areas', () => { + expect(data.surveyed_all_areas).to.eql(obj.surveyed_all_areas); + }); + }); +}); + +describe('PostAgreementsData', () => { + describe('No values provided', () => { + let data: PostAgreementsData; + + before(() => { + data = new PostAgreementsData(null); + }); + + it('sets foippa_requirements_accepted', () => { + expect(data.foippa_requirements_accepted).to.equal(false); + }); + + it('sets sedis_procedures_accepted', () => { + expect(data.sedis_procedures_accepted).to.equal(false); + }); + }); + + describe('All values provided with first nations id', () => { + let data: PostAgreementsData; + + const obj = { + foippa_requirements_accepted: 'true', + sedis_procedures_accepted: 'true' + }; + + before(() => { + data = new PostAgreementsData(obj); + }); + + it('sets foippa_requirements_accepted', () => { + expect(data.foippa_requirements_accepted).to.equal(true); + }); + + it('sets sedis_procedures_accepted', () => { + expect(data.sedis_procedures_accepted).to.eql(true); }); }); }); diff --git a/api/src/models/survey-create.ts b/api/src/models/survey-create.ts index fe28051811..260f4c5edd 100644 --- a/api/src/models/survey-create.ts +++ b/api/src/models/survey-create.ts @@ -1,96 +1,123 @@ import { Feature } from 'geojson'; -import { getLogger } from '../utils/logger'; -const defaultLog = getLogger('models/survey-create'); - -/** - * Processes all POST /project/{projectId}/survey/create request data. - * - * @export - * @class PostSurveyObject - */ export class PostSurveyObject { + survey_details: PostSurveyDetailsData; + species: PostSpeciesData; + permit: PostPermitData; + funding: PostFundingData; + proprietor: PostProprietorData; + purpose_and_methodology: PostPurposeAndMethodologyData; + location: PostLocationData; + agreements: PostAgreementsData; + + constructor(obj?: any) { + this.survey_details = (obj?.survey_details && new PostSurveyDetailsData(obj.survey_details)) || null; + this.species = (obj?.species && new PostSpeciesData(obj.species)) || null; + this.permit = (obj?.permit && new PostPermitData(obj.permit)) || null; + this.funding = (obj?.funding && new PostFundingData(obj.funding)) || null; + this.proprietor = (obj?.proprietor && new PostProprietorData(obj.proprietor)) || null; + this.purpose_and_methodology = + (obj?.purpose_and_methodology && new PostPurposeAndMethodologyData(obj.purpose_and_methodology)) || null; + this.location = (obj?.location && new PostLocationData(obj.location)) || null; + this.agreements = (obj?.agreements && new PostAgreementsData(obj.agreements)) || null; + } +} +export class PostSurveyDetailsData { survey_name: string; - biologist_first_name: string; - biologist_last_name: string; - foippa_requirements_accepted: boolean; - sedis_procedures_accepted: boolean; - focal_species: number[]; - ancillary_species: number[]; - field_method_id: number; - ecological_season_id: number; - vantage_code_ids: number[]; - surveyed_all_areas: boolean; start_date: string; end_date: string; - survey_area_name: string; - survey_data_proprietary: boolean; - intended_outcome_id: number; - additional_details: string; - geometry: Feature[]; - permit_number: string; - permit_type: string; - funding_sources: number[]; - survey_proprietor?: PostSurveyProprietorData; + biologist_first_name: string; + biologist_last_name: string; constructor(obj?: any) { - defaultLog.debug({ - label: 'PostSurveyData', - message: 'params', - obj: { - ...obj, - geometry: obj?.geometry?.map((item: any) => { - return { ...item, geometry: 'Too big to print' }; - }) - } - }); - + this.survey_name = obj?.survey_name || null; + this.start_date = obj?.start_date || null; + this.end_date = obj?.end_date || null; this.biologist_first_name = obj?.biologist_first_name || null; this.biologist_last_name = obj?.biologist_last_name || null; - this.end_date = obj?.end_date || null; - this.foippa_requirements_accepted = obj?.foippa_requirements_accepted === 'true' || false; - this.sedis_procedures_accepted = obj?.sedis_procedures_accepted === 'true' || false; + } +} + +export class PostSpeciesData { + focal_species: number[]; + ancillary_species: number[]; + + constructor(obj?: any) { this.focal_species = (obj?.focal_species?.length && obj.focal_species) || []; this.ancillary_species = (obj?.ancillary_species?.length && obj.ancillary_species) || []; - this.field_method_id = obj?.field_method_id || null; - this.start_date = obj?.start_date || null; - this.survey_area_name = obj?.survey_area_name || null; + } +} + +export class PostPermitData { + permit_number: string; + permit_type: string; + + constructor(obj?: any) { this.permit_number = obj?.permit_number || null; this.permit_type = obj?.permit_type || null; - this.funding_sources = (obj?.funding_sources?.length && obj.funding_sources) || []; - this.survey_data_proprietary = obj?.survey_data_proprietary === 'true' || false; - this.survey_name = obj?.survey_name || null; - this.intended_outcome_id = obj?.intended_outcome_id || null; - this.ecological_season_id = obj?.ecological_season_id || null; - this.additional_details = obj?.additional_details || null; - this.vantage_code_ids = (obj?.vantage_code_ids?.length && obj.vantage_code_ids) || []; - this.surveyed_all_areas = obj?.surveyed_all_areas === 'true' || false; - this.geometry = (obj?.geometry?.length && obj.geometry) || []; - this.survey_proprietor = - (obj && obj.survey_data_proprietary === 'true' && new PostSurveyProprietorData(obj)) || undefined; } } -/** - * Processes POST /project/{projectId}/survey/create survey proprietor data - * - * @export - * @class PostSurveyProprietorData - */ -export class PostSurveyProprietorData { +export class PostFundingData { + funding_sources: number[]; + + constructor(obj?: any) { + this.funding_sources = obj?.funding_sources || []; + } +} + +export class PostProprietorData { prt_id: number; fn_id: number; rationale: string; proprietor_name: string; disa_required: boolean; + survey_data_proprietary: boolean; constructor(obj?: any) { - defaultLog.debug({ label: 'PostSurveyProprietorData', message: 'params', obj }); - this.prt_id = obj?.proprietary_data_category || null; this.fn_id = obj?.first_nations_id || null; this.rationale = obj?.category_rationale || null; this.proprietor_name = (!obj?.first_nations_id && obj?.proprietor_name) || null; - this.disa_required = obj?.data_sharing_agreement_required === 'true' || false; + this.disa_required = obj?.disa_required === 'true' || false; + this.survey_data_proprietary = obj?.survey_data_proprietary === 'true' || false; + } +} + +export class PostLocationData { + survey_area_name: string; + geometry: Feature[]; + + constructor(obj?: any) { + this.survey_area_name = obj?.survey_area_name || null; + this.geometry = (obj?.geometry?.length && obj.geometry) || []; + } +} + +export class PostPurposeAndMethodologyData { + intended_outcome_id: number; + additional_details: string; + field_method_id: number; + ecological_season_id: number; + vantage_code_ids: number[]; + surveyed_all_areas: boolean; + + constructor(obj?: any) { + this.intended_outcome_id = obj?.intended_outcome_id || null; + this.additional_details = obj?.additional_details || null; + this.field_method_id = obj?.field_method_id || null; + this.ecological_season_id = obj?.ecological_season_id || null; + this.vantage_code_ids = obj?.vantage_code_ids || []; + this.surveyed_all_areas = obj?.surveyed_all_areas || null; + } +} + +export class PostAgreementsData { + foippa_requirements_accepted: boolean; + sedis_procedures_accepted: boolean; + + constructor(obj?: any) { + this.foippa_requirements_accepted = obj?.foippa_requirements_accepted === 'true' || false; + this.sedis_procedures_accepted = obj?.sedis_procedures_accepted === 'true' || false; } } diff --git a/api/src/models/survey-update.test.ts b/api/src/models/survey-update.test.ts index 066eb2d92c..bab8234439 100644 --- a/api/src/models/survey-update.test.ts +++ b/api/src/models/survey-update.test.ts @@ -1,375 +1,387 @@ import { expect } from 'chai'; import { describe } from 'mocha'; -import { GetUpdateSurveyDetailsData, PutSurveyDetailsData, PutSurveyPurposeAndMethodologyData } from './survey-update'; - -describe('GetUpdateSurveyDetailsData', () => { +import { + PutSurveyDetailsData, + PutSurveyFundingData, + PutSurveyLocationData, + PutSurveyObject, + PutSurveyPermitData, + PutSurveyProprietorData, + PutSurveyPurposeAndMethodologyData, + PutSurveySpeciesData +} from './survey-update'; + +describe('PutSurveyObject', () => { describe('No values provided', () => { - let data: GetUpdateSurveyDetailsData; + let data: PutSurveyObject; before(() => { - data = new GetUpdateSurveyDetailsData(null); + data = new PutSurveyObject(null); }); - it('sets survey_name', () => { - expect(data.survey_name).to.equal(''); + it('sets survey_details', () => { + expect(data.survey_details).to.equal(null); }); - it('sets focal_species', () => { - expect(data.focal_species).to.eql([]); + it('sets species', () => { + expect(data.species).to.equal(null); }); - it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql([]); + it('sets permit', () => { + expect(data.permit).to.equal(null); }); - it('sets start_date', () => { - expect(data.start_date).to.equal(''); + it('sets funding', () => { + expect(data.funding).to.equal(null); }); - it('sets end_date', () => { - expect(data.end_date).to.equal(''); + it('sets proprietor', () => { + expect(data.proprietor).to.equal(null); }); - it('sets biologist_first_name', () => { - expect(data.biologist_first_name).to.equal(''); + it('sets purpose_and_methodology', () => { + expect(data.purpose_and_methodology).to.equal(null); }); - it('sets biologist_last_name', () => { - expect(data.biologist_last_name).to.equal(''); + it('sets location', () => { + expect(data.location).to.equal(null); }); + }); - it('sets survey_area_name', () => { - expect(data.survey_area_name).to.equal(''); + describe('All values provided', () => { + let data: PutSurveyObject; + + const obj = { + survey_details: {}, + species: {}, + permit: {}, + funding: {}, + proprietor: {}, + purpose_and_methodology: {}, + location: {}, + agreements: {} + }; + + before(() => { + data = new PutSurveyObject(obj); }); - it('sets revision_count', () => { - expect(data.revision_count).to.equal(null); + it('sets survey_details', () => { + expect(data.survey_details).to.be.instanceOf(PutSurveyDetailsData); }); - it('sets permit number', () => { - expect(data.permit_number).to.equal(''); + it('sets species', () => { + expect(data.species).to.instanceOf(PutSurveySpeciesData); }); - it('sets permit type', () => { - expect(data.permit_type).to.equal(''); + it('sets permit', () => { + expect(data.permit).to.instanceOf(PutSurveyPermitData); }); - it('sets funding sources', () => { - expect(data.funding_sources).to.eql([]); + it('sets funding', () => { + expect(data.funding).to.instanceOf(PutSurveyFundingData); }); - }); - describe('all values provided with species as strings', () => { - let data: GetUpdateSurveyDetailsData; - - const surveyData = { - id: 1, - name: 'survey name', - objectives: 'purpose of survey', - start_date: '2020-04-20T07:00:00.000Z', - end_date: '2020-05-20T07:00:00.000Z', - revision_count: 1, - focal_species: ['species'], - ancillary_species: ['ancillary'], - common_survey_methodology_id: 1, - lead_first_name: 'lead', - lead_last_name: 'last', - location_name: 'area', - type: 'scientific', - number: '123', - pfs_id: [1], - geometry: [ - { - type: 'Feature', - geometry: { - type: 'Point', - coordinates: [125.6, 10.1] - }, - properties: { - name: 'Dinagat Islands' - } - } - ] - }; - before(() => { - data = new GetUpdateSurveyDetailsData(surveyData); + it('sets proprietor', () => { + expect(data.proprietor).to.instanceOf(PutSurveyProprietorData); }); - it('sets survey_name', () => { - expect(data.survey_name).to.equal(surveyData.name); + it('sets purpose_and_methodology', () => { + expect(data.purpose_and_methodology).to.instanceOf(PutSurveyPurposeAndMethodologyData); }); - it('sets focal_species', () => { - expect(data.focal_species).to.eql(surveyData.focal_species); + it('sets location', () => { + expect(data.location).to.instanceOf(PutSurveyLocationData); }); + }); +}); - it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql(surveyData.ancillary_species); +describe('PutSurveyDetailsData', () => { + describe('No values provided', () => { + let data: PutSurveyDetailsData; + + before(() => { + data = new PutSurveyDetailsData(null); }); - it('sets start_date', () => { - expect(data.start_date).to.equal(surveyData.start_date); + it('sets name', () => { + expect(data.name).to.equal(null); }); it('sets end_date', () => { - expect(data.end_date).to.equal(surveyData.end_date); + expect(data.end_date).to.equal(null); }); - it('sets biologist_first_name', () => { - expect(data.biologist_first_name).to.equal(surveyData.lead_first_name); + it('sets start_date', () => { + expect(data.start_date).to.equal(null); }); - it('sets biologist_last_name', () => { - expect(data.biologist_last_name).to.equal(surveyData.lead_last_name); + it('sets lead_first_name', () => { + expect(data.lead_first_name).to.equal(null); }); - it('sets survey_area_name', () => { - expect(data.survey_area_name).to.equal(surveyData.location_name); + it('sets lead_last_name', () => { + expect(data.lead_last_name).to.equal(null); }); it('sets revision_count', () => { - expect(data.revision_count).to.equal(surveyData.revision_count); + expect(data.revision_count).to.equal(null); }); + }); + + describe('All values provided', () => { + let data: PutSurveyDetailsData; + + const obj = { + survey_name: 'survey name', + end_date: '2020/04/04', + start_date: '2020/03/03', + biologist_first_name: 'first', + biologist_last_name: 'last', + revision_count: 0 + }; - it('sets the geometry', () => { - expect(data.geometry).to.eql(surveyData.geometry); + before(() => { + data = new PutSurveyDetailsData(obj); }); - it('sets permit number', () => { - expect(data.permit_number).to.equal(surveyData.number); + it('sets name', () => { + expect(data.name).to.equal(obj.survey_name); }); - it('sets permit type', () => { - expect(data.permit_type).to.equal(surveyData.type); + it('sets end_date', () => { + expect(data.end_date).to.equal(obj.end_date); }); - it('sets funding sources', () => { - expect(data.funding_sources).to.eql(surveyData.pfs_id); + it('sets start_date', () => { + expect(data.start_date).to.equal(obj.start_date); }); - }); - describe('all values provided with species as numbers', () => { - let data: GetUpdateSurveyDetailsData; - - const surveyData = { - id: 1, - name: 'survey name', - objectives: 'purpose of survey', - start_date: '2020-04-20T07:00:00.000Z', - end_date: '2020-05-20T07:00:00.000Z', - revision_count: 1, - focal_species: [1], - ancillary_species: [2], - common_survey_methodology_id: 1, - lead_first_name: 'lead', - lead_last_name: 'last', - location_name: 'area', - type: 'scientific', - number: '123', - pfs_id: [1], - geometry: [ - { - type: 'Feature', - geometry: { - type: 'Point', - coordinates: [125.6, 10.1] - }, - properties: { - name: 'Dinagat Islands' - } - } - ] - }; - before(() => { - data = new GetUpdateSurveyDetailsData(surveyData); + it('sets lead_first_name', () => { + expect(data.lead_first_name).to.equal(obj.biologist_first_name); }); - it('sets survey_name', () => { - expect(data.survey_name).to.equal(surveyData.name); + it('sets lead_last_name', () => { + expect(data.lead_last_name).to.equal(obj.biologist_last_name); + }); + + it('sets revision_count', () => { + expect(data.revision_count).to.equal(obj.revision_count); + }); + }); +}); + +describe('PutSpeciesData', () => { + describe('No values provided', () => { + let data: PutSurveySpeciesData; + + before(() => { + data = new PutSurveySpeciesData(null); }); it('sets focal_species', () => { - expect(data.focal_species).to.eql(surveyData.focal_species); + expect(data.focal_species).to.eql([]); }); it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql(surveyData.ancillary_species); + expect(data.ancillary_species).to.eql([]); }); + }); - it('sets start_date', () => { - expect(data.start_date).to.equal(surveyData.start_date); - }); + describe('All values provided', () => { + let data: PutSurveySpeciesData; - it('sets end_date', () => { - expect(data.end_date).to.equal(surveyData.end_date); + const obj = { + focal_species: [1, 2], + ancillary_species: [3] + }; + + before(() => { + data = new PutSurveySpeciesData(obj); }); - it('sets biologist_first_name', () => { - expect(data.biologist_first_name).to.equal(surveyData.lead_first_name); + it('sets focal_species', () => { + expect(data.focal_species).to.eql([1, 2]); }); - it('sets biologist_last_name', () => { - expect(data.biologist_last_name).to.equal(surveyData.lead_last_name); + it('sets ancillary_species', () => { + expect(data.ancillary_species).to.eql([3]); }); + }); +}); - it('sets survey_area_name', () => { - expect(data.survey_area_name).to.equal(surveyData.location_name); +describe('PutPermitData', () => { + describe('No values provided', () => { + let data: PutSurveyPermitData; + + before(() => { + data = new PutSurveyPermitData(null); }); - it('sets revision_count', () => { - expect(data.revision_count).to.equal(surveyData.revision_count); + it('sets permit_number', () => { + expect(data.permit_number).to.eql(null); }); - it('sets the geometry', () => { - expect(data.geometry).to.eql(surveyData.geometry); + it('sets ancillary_species', () => { + expect(data.permit_type).to.eql(null); }); + }); - it('sets permit number', () => { - expect(data.permit_number).to.equal(surveyData.number); + describe('All values provided', () => { + let data: PutSurveyPermitData; + + const obj = { + permit_number: '12345', + permit_type: 'permit_type' + }; + + before(() => { + data = new PutSurveyPermitData(obj); }); - it('sets permit type', () => { - expect(data.permit_type).to.equal(surveyData.type); + it('sets permit_number', () => { + expect(data.permit_number).to.equal('12345'); }); - it('sets funding sources', () => { - expect(data.funding_sources).to.eql(surveyData.pfs_id); + it('sets permit_type', () => { + expect(data.permit_type).to.equal('permit_type'); }); }); }); -describe('PutSurveyData', () => { +describe('PutFundingData', () => { describe('No values provided', () => { - let data: PutSurveyDetailsData; + let data: PutSurveyFundingData; before(() => { - data = new PutSurveyDetailsData(null); + data = new PutSurveyFundingData(null); }); - it('sets name', () => { - expect(data.name).to.equal(null); + it('sets permit_number', () => { + expect(data.funding_sources).to.eql([]); }); + }); - it('sets focal_species', () => { - expect(data.focal_species).to.eql([]); - }); + describe('All values provided', () => { + let data: PutSurveyFundingData; - it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql([]); + const obj = { + funding_sources: [1, 2] + }; + + before(() => { + data = new PutSurveyFundingData(obj); }); - it('sets geometry', () => { - expect(data.geometry).to.equal(null); + it('sets funding_sources', () => { + expect(data.funding_sources).to.eql([1, 2]); }); + }); +}); - it('sets start_date', () => { - expect(data.start_date).to.equal(null); +describe('PutProprietorData', () => { + describe('No values provided', () => { + let data: PutSurveyProprietorData; + + before(() => { + data = new PutSurveyProprietorData(null); }); - it('sets end_date', () => { - expect(data.end_date).to.equal(null); + it('sets prt_id', () => { + expect(data.prt_id).to.equal(null); }); - it('sets lead_first_name', () => { - expect(data.lead_first_name).to.equal(null); + it('sets fn_id', () => { + expect(data.fn_id).to.equal(null); }); - it('sets lead_last_name', () => { - expect(data.lead_last_name).to.equal(null); + it('sets rationale', () => { + expect(data.rationale).to.equal(null); }); - it('sets location_name', () => { - expect(data.location_name).to.equal(null); + it('sets proprietor_name', () => { + expect(data.proprietor_name).to.equal(null); }); - it('sets revision_count', () => { - expect(data.revision_count).to.equal(null); + it('sets disa_required', () => { + expect(data.disa_required).to.equal(false); }); }); - describe('All values provided', () => { - let data: PutSurveyDetailsData; + describe('All values provided with first nations id', () => { + let data: PutSurveyProprietorData; - const surveyData = { - survey_details: { - survey_name: 'survey name', - survey_purpose: 'survey purpose', - focal_species: [1, 2], - ancillary_species: [3, 4], - common_survey_methodology_id: 1, - start_date: '2020/04/04', - end_date: '2020/05/05', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'survey area name', - geometry: [ - { - type: 'Polygon', - coordinates: [ - [ - [-128, 55], - [-128, 55.5], - [-128, 56], - [-126, 58], - [-128, 55] - ] - ], - properties: { - name: 'Biohub Islands' - } - } - ], - revision_count: 1 - } + const obj = { + proprietary_data_category: 'survey name', + first_nations_id: 1, + category_rationale: 2, + proprietor_name: 'name', + disa_required: 'true' }; before(() => { - data = new PutSurveyDetailsData(surveyData); + data = new PutSurveyProprietorData(obj); }); - it('sets name', () => { - expect(data.name).to.equal(surveyData.survey_details.survey_name); + it('sets prt_id', () => { + expect(data.prt_id).to.equal(obj.proprietary_data_category); }); - it('sets focal_species', () => { - expect(data.focal_species).to.eql(surveyData.survey_details.focal_species); + it('sets fn_id', () => { + expect(data.fn_id).to.equal(obj.first_nations_id); }); - it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql(surveyData.survey_details.ancillary_species); + it('sets rationale', () => { + expect(data.rationale).to.equal(obj.category_rationale); }); - it('sets start_date', () => { - expect(data.start_date).to.equal(surveyData.survey_details.start_date); + it('sets proprietor_name', () => { + expect(data.proprietor_name).to.equal(null); }); - it('sets end_date', () => { - expect(data.end_date).to.equal(surveyData.survey_details.end_date); + it('sets disa_required', () => { + expect(data.disa_required).to.equal(true); }); + }); - it('sets lead_first_name', () => { - expect(data.lead_first_name).to.equal(surveyData.survey_details.biologist_first_name); + describe('All values provided without first nations id', () => { + let data: PutSurveyProprietorData; + + const obj = { + proprietary_data_category: 'survey name', + first_nations_id: null, + category_rationale: 2, + proprietor_name: 'name', + disa_required: 'true' + }; + + before(() => { + data = new PutSurveyProprietorData(obj); }); - it('sets lead_last_name', () => { - expect(data.lead_last_name).to.equal(surveyData.survey_details.biologist_last_name); + it('sets prt_id', () => { + expect(data.prt_id).to.equal(obj.proprietary_data_category); }); - it('sets geometry', () => { - expect(data.geometry).to.eql(surveyData.survey_details.geometry); + it('sets fn_id', () => { + expect(data.fn_id).to.equal(obj.first_nations_id); }); - it('sets location_name', () => { - expect(data.location_name).to.equal(surveyData.survey_details.survey_area_name); + it('sets rationale', () => { + expect(data.rationale).to.equal(obj.category_rationale); }); - it('sets revision_count', () => { - expect(data.revision_count).to.equal(surveyData.survey_details.revision_count); + it('sets proprietor_name', () => { + expect(data.proprietor_name).to.equal(obj.proprietor_name); + }); + + it('sets disa_required', () => { + expect(data.disa_required).to.equal(true); }); }); }); -describe('PutSurveyPurposeAndMethodologyData', () => { +describe('PutPurposeAndMethodologyData', () => { describe('No values provided', () => { let data: PutSurveyPurposeAndMethodologyData; @@ -377,20 +389,16 @@ describe('PutSurveyPurposeAndMethodologyData', () => { data = new PutSurveyPurposeAndMethodologyData(null); }); - it('sets id', () => { - expect(data.id).to.equal(null); + it('sets intended_outcome_id', () => { + expect(data.intended_outcome_id).to.equal(null); }); - it('sets intended_outcomes_id', () => { - expect(data.intended_outcome_id).to.eql(null); + it('sets additional_details', () => { + expect(data.additional_details).to.equal(null); }); it('sets field_method_id', () => { - expect(data.field_method_id).to.eql(null); - }); - - it('sets additional_details', () => { - expect(data.additional_details).to.equal(null); + expect(data.field_method_id).to.equal(null); }); it('sets ecological_season_id', () => { @@ -410,46 +418,41 @@ describe('PutSurveyPurposeAndMethodologyData', () => { }); }); - describe('All values provided', () => { + describe('All values provided with first nations id', () => { let data: PutSurveyPurposeAndMethodologyData; - const purposeAndMethodologyData = { - id: 1, - field_method_id: 1, - additional_details: 'additional details', - vantage_code_ids: [1, 2], - ecological_season_id: 1, + const obj = { intended_outcome_id: 1, + additional_details: 'additional_detail', + field_method_id: 2, + ecological_season_id: 3, + vantage_code_ids: [4, 5], surveyed_all_areas: 'true', - revision_count: 1 + revision_count: 0 }; before(() => { - data = new PutSurveyPurposeAndMethodologyData(purposeAndMethodologyData); - }); - - it('sets id', () => { - expect(data.id).to.equal(purposeAndMethodologyData.id); + data = new PutSurveyPurposeAndMethodologyData(obj); }); - it('sets intended_outcomes_id', () => { - expect(data.intended_outcome_id).to.eql(purposeAndMethodologyData.intended_outcome_id); + it('sets intended_outcome_id', () => { + expect(data.intended_outcome_id).to.equal(obj.intended_outcome_id); }); it('sets additional_details', () => { - expect(data.additional_details).to.eql(purposeAndMethodologyData.additional_details); + expect(data.additional_details).to.equal(obj.additional_details); }); it('sets field_method_id', () => { - expect(data.field_method_id).to.equal(purposeAndMethodologyData.field_method_id); + expect(data.field_method_id).to.equal(obj.field_method_id); }); it('sets ecological_season_id', () => { - expect(data.ecological_season_id).to.equal(purposeAndMethodologyData.ecological_season_id); + expect(data.ecological_season_id).to.equal(obj.ecological_season_id); }); it('sets vantage_code_ids', () => { - expect(data.vantage_code_ids).to.equal(purposeAndMethodologyData.vantage_code_ids); + expect(data.vantage_code_ids).to.eql(obj.vantage_code_ids); }); it('sets surveyed_all_areas', () => { @@ -457,7 +460,55 @@ describe('PutSurveyPurposeAndMethodologyData', () => { }); it('sets revision_count', () => { - expect(data.revision_count).to.equal(purposeAndMethodologyData.revision_count); + expect(data.revision_count).to.equal(obj.revision_count); + }); + }); +}); + +describe('PutLocationData', () => { + describe('No values provided', () => { + let data: PutSurveyLocationData; + + before(() => { + data = new PutSurveyLocationData(null); + }); + + it('sets survey_area_name', () => { + expect(data.survey_area_name).to.equal(null); + }); + + it('sets geometry', () => { + expect(data.geometry).to.eql([]); + }); + + it('sets revision_count', () => { + expect(data.revision_count).to.equal(null); + }); + }); + + describe('All values provided with first nations id', () => { + let data: PutSurveyLocationData; + + const obj = { + survey_area_name: 'area_name', + geometry: [{}], + revision_count: 0 + }; + + before(() => { + data = new PutSurveyLocationData(obj); + }); + + it('sets survey_area_name', () => { + expect(data.survey_area_name).to.equal(obj.survey_area_name); + }); + + it('sets geometry', () => { + expect(data.geometry).to.eql(obj.geometry); + }); + + it('sets revision_count', () => { + expect(data.revision_count).to.equal(obj.revision_count); }); }); }); diff --git a/api/src/models/survey-update.ts b/api/src/models/survey-update.ts index e623ca9e57..0ca90a9b2d 100644 --- a/api/src/models/survey-update.ts +++ b/api/src/models/survey-update.ts @@ -1,158 +1,90 @@ import { Feature } from 'geojson'; -import moment from 'moment'; -import { COMPLETION_STATUS } from '../constants/status'; -import { getLogger } from '../utils/logger'; -const defaultLog = getLogger('models/survey-update'); +export class PutSurveyObject { + survey_details: PutSurveyDetailsData; + species: PutSurveySpeciesData; + permit: PutSurveyPermitData; + funding: PutSurveyFundingData; + proprietor: PutSurveyProprietorData; + purpose_and_methodology: PutSurveyPurposeAndMethodologyData; + location: PutSurveyLocationData; -/** - * Pre-processes GET /project/{projectId}/survey/{surveyId} survey details data for update - * - * @export - * @class GetUpdateSurveyDetailsData - */ -export class GetUpdateSurveyDetailsData { - id: number; - survey_name: string; - focal_species: (string | number)[]; - ancillary_species: (string | number)[]; - start_date: string; - end_date: string; - biologist_first_name: string; - biologist_last_name: string; - survey_area_name: string; - geometry: Feature[]; - revision_count: number; - permit_number: string; - permit_type: string; - funding_sources: number[]; - completion_status: string; - publish_date: string; - - constructor(surveyDetailsData?: any) { - defaultLog.debug({ - label: 'GetUpdateSurveyDetailsData', - message: 'params', - surveyDetailsData: { - ...surveyDetailsData, - geometry: surveyDetailsData?.geometry?.map((item: any) => { - return { ...item, geometry: 'Too big to print' }; - }) - } - }); - - this.id = surveyDetailsData?.id ?? null; - this.survey_name = surveyDetailsData?.name || ''; - this.focal_species = surveyDetailsData?.focal_species || []; - this.ancillary_species = surveyDetailsData?.ancillary_species || []; - this.start_date = surveyDetailsData?.start_date || ''; - this.end_date = surveyDetailsData?.end_date || ''; - this.biologist_first_name = surveyDetailsData?.lead_first_name || ''; - this.biologist_last_name = surveyDetailsData?.lead_last_name || ''; - this.survey_area_name = surveyDetailsData?.location_name || ''; - this.geometry = (surveyDetailsData?.geometry?.length && surveyDetailsData.geometry) || []; - this.permit_number = surveyDetailsData?.number || ''; - this.permit_type = surveyDetailsData?.type || ''; - this.funding_sources = surveyDetailsData?.pfs_id || []; - this.revision_count = surveyDetailsData?.revision_count ?? null; - this.completion_status = - (surveyDetailsData && - surveyDetailsData.end_date && - moment(surveyDetailsData.end_date).endOf('day').isBefore(moment()) && - COMPLETION_STATUS.COMPLETED) || - COMPLETION_STATUS.ACTIVE; - this.publish_date = String(surveyDetailsData?.publish_date || ''); + constructor(obj?: any) { + this.survey_details = (obj?.survey_details && new PutSurveyDetailsData(obj.survey_details)) || null; + this.species = (obj?.species && new PutSurveySpeciesData(obj.species)) || null; + this.permit = (obj?.permit && new PutSurveyPermitData(obj.permit)) || null; + this.funding = (obj?.funding && new PutSurveyFundingData(obj.funding)) || null; + this.proprietor = (obj?.proprietor && new PutSurveyProprietorData(obj.proprietor)) || null; + this.purpose_and_methodology = + (obj?.purpose_and_methodology && new PutSurveyPurposeAndMethodologyData(obj.purpose_and_methodology)) || null; + this.location = (obj?.location && new PutSurveyLocationData(obj.location)) || null; } } -/** - * Pre-processes PUT /project/{projectId}/survey/{surveyId} survey data for update - * - * @export - * @class PutSurveyDetailsData - */ export class PutSurveyDetailsData { name: string; - focal_species: number[]; - ancillary_species: number[]; start_date: string; end_date: string; lead_first_name: string; lead_last_name: string; - location_name: string; - geometry: Feature[]; + revision_count: number; + + constructor(obj?: any) { + this.name = obj?.survey_name || null; + this.start_date = obj?.start_date || null; + this.end_date = obj?.end_date || null; + this.lead_first_name = obj?.biologist_first_name || null; + this.lead_last_name = obj?.biologist_last_name || null; + this.revision_count = obj?.revision_count ?? null; + } +} + +export class PutSurveySpeciesData { + focal_species: number[]; + ancillary_species: number[]; + + constructor(obj?: any) { + this.focal_species = (obj?.focal_species?.length && obj?.focal_species) || []; + this.ancillary_species = (obj?.ancillary_species?.length && obj?.ancillary_species) || []; + } +} + +export class PutSurveyPermitData { permit_number: string; permit_type: string; - funding_sources: number[]; - revision_count: number; constructor(obj?: any) { - defaultLog.debug({ - label: 'PutSurveyDetailsData', - message: 'params', - obj: { - ...obj, - geometry: obj?.geometry?.map((item: any) => { - return { ...item, geometry: 'Too big to print' }; - }) - } - }); + this.permit_number = obj?.permit_number || null; + this.permit_type = obj?.permit_type || null; + } +} - this.name = obj?.survey_details?.survey_name || null; - this.focal_species = (obj?.survey_details?.focal_species?.length && obj.survey_details?.focal_species) || []; - this.ancillary_species = - (obj?.survey_details?.ancillary_species?.length && obj.survey_details?.ancillary_species) || []; - this.start_date = obj?.survey_details?.start_date || null; - this.end_date = obj?.survey_details?.end_date || null; - this.lead_first_name = obj?.survey_details?.biologist_first_name || null; - this.lead_last_name = obj?.survey_details?.biologist_last_name || null; - this.location_name = obj?.survey_details?.survey_area_name || null; - this.geometry = obj?.survey_details?.geometry || null; - this.permit_number = obj?.survey_details.permit_number || null; - this.permit_type = obj?.survey_details.permit_type || null; - this.funding_sources = (obj?.survey_details?.funding_sources?.length && obj.survey_details?.funding_sources) || []; - this.revision_count = obj?.survey_details?.revision_count ?? null; +export class PutSurveyFundingData { + funding_sources: number[]; + + constructor(obj?: any) { + this.funding_sources = (obj?.funding_sources?.length && obj?.funding_sources) || []; } } -/** - * Pre-processes PUT /project/{projectId}/survey/{surveyId} survey proprietor data for update - * - * @export - * @class PutSurveyProprietorData - */ export class PutSurveyProprietorData { - id: number; prt_id: number; fn_id: number; rationale: string; proprietor_name: string; - survey_data_proprietary: boolean; disa_required: boolean; - revision_count: number; + survey_data_proprietary: boolean; constructor(obj?: any) { - defaultLog.debug({ label: 'PutSurveyProprietorData', message: 'params', obj }); - - this.id = obj?.id ?? null; this.prt_id = obj?.proprietary_data_category || null; this.fn_id = obj?.first_nations_id || null; this.rationale = obj?.category_rationale || null; this.proprietor_name = (!obj?.first_nations_id && obj?.proprietor_name) || null; + this.disa_required = obj?.disa_required === 'true' || false; this.survey_data_proprietary = obj?.survey_data_proprietary === 'true' || false; - this.disa_required = obj?.data_sharing_agreement_required === 'true' || false; - this.revision_count = obj?.revision_count ?? null; } } - -/** - * Pre-processes PUT /project/{projectId}/survey/{surveyId} survey purpose and methodology data for update - * - * @export - * @class PutSurveyPurposeAndMethodologyData - */ export class PutSurveyPurposeAndMethodologyData { - id: number; intended_outcome_id: number; field_method_id: number; additional_details: string; @@ -162,9 +94,6 @@ export class PutSurveyPurposeAndMethodologyData { revision_count: number; constructor(obj?: any) { - defaultLog.debug({ label: 'PutSurveyPurposeAndMethodologyData', message: 'params', obj }); - - this.id = obj?.id ?? null; this.intended_outcome_id = obj?.intended_outcome_id || null; this.field_method_id = obj?.field_method_id || null; this.additional_details = obj?.additional_details || null; @@ -174,3 +103,15 @@ export class PutSurveyPurposeAndMethodologyData { this.revision_count = obj?.revision_count ?? null; } } + +export class PutSurveyLocationData { + survey_area_name: string; + geometry: Feature[]; + revision_count: number; + + constructor(obj?: any) { + this.survey_area_name = obj?.survey_area_name || null; + this.geometry = (obj?.geometry?.length && obj.geometry) || []; + this.revision_count = obj?.revision_count ?? null; + } +} diff --git a/api/src/models/survey-view-update.test.ts b/api/src/models/survey-view-update.test.ts deleted file mode 100644 index 114e957f28..0000000000 --- a/api/src/models/survey-view-update.test.ts +++ /dev/null @@ -1,78 +0,0 @@ -import { expect } from 'chai'; -import { describe } from 'mocha'; -import { GetSurveyProprietorData } from './survey-view-update'; - -describe('GetSurveyProprietorData', () => { - describe('No values provided', () => { - let data: GetSurveyProprietorData; - - before(() => { - data = new GetSurveyProprietorData(null); - }); - - it('sets proprietor_type_name', () => { - expect(data.proprietary_data_category_name).to.equal(''); - }); - - it('sets first_nations_name', () => { - expect(data.first_nations_name).to.equal(''); - }); - - it('sets category_rationale', () => { - expect(data.category_rationale).to.equal(''); - }); - - it('sets proprietor_name', () => { - expect(data.proprietor_name).to.equal(''); - }); - - it('sets data_sharing_agreement_required', () => { - expect(data.data_sharing_agreement_required).to.equal('false'); - }); - - it('sets survey_data_proprietary', () => { - expect(data.survey_data_proprietary).to.equal('false'); - }); - }); - - describe('All values provided', () => { - let data: GetSurveyProprietorData; - - const proprietorData = { - id: 1, - proprietor_type_name: 'type', - first_nations_name: 'fn name', - category_rationale: 'rationale', - proprietor_name: 'name', - disa_required: true - }; - - before(() => { - data = new GetSurveyProprietorData(proprietorData); - }); - - it('sets proprietary_data_category_name', () => { - expect(data.proprietary_data_category_name).to.equal(proprietorData.proprietor_type_name); - }); - - it('sets first_nations_name', () => { - expect(data.first_nations_name).to.equal(proprietorData.first_nations_name); - }); - - it('sets category_rationale', () => { - expect(data.category_rationale).to.equal(proprietorData.category_rationale); - }); - - it('sets proprietor_name', () => { - expect(data.proprietor_name).to.equal(proprietorData.proprietor_name); - }); - - it('sets data_sharing_agreement_required', () => { - expect(data.data_sharing_agreement_required).to.equal('true'); - }); - - it('sets survey_data_proprietary', () => { - expect(data.survey_data_proprietary).to.equal('true'); - }); - }); -}); diff --git a/api/src/models/survey-view-update.ts b/api/src/models/survey-view-update.ts deleted file mode 100644 index 87ea63d1aa..0000000000 --- a/api/src/models/survey-view-update.ts +++ /dev/null @@ -1,71 +0,0 @@ -import { getLogger } from '../utils/logger'; - -const defaultLog = getLogger('models/survey-view-update'); - -/** - * Pre-processes GET /project/{projectId}/survey/{surveyId} survey proprietor data - * - * @export - * @class GetSurveyProprietorData - */ -export class GetSurveyProprietorData { - id: number; - proprietary_data_category_name: string; - first_nations_name: string; - proprietary_data_category: number; - first_nations_id: number; - category_rationale: string; - proprietor_name: string; - data_sharing_agreement_required: string; - survey_data_proprietary: string; - revision_count: number; - - constructor(data?: any) { - defaultLog.debug({ - label: 'GetSurveyProprietorData', - message: 'params', - surveyProprietorData: data - }); - - this.id = data?.id ?? null; - this.proprietary_data_category_name = data?.proprietor_type_name || ''; - this.first_nations_name = data?.first_nations_name || ''; - this.proprietary_data_category = data?.proprietor_type_id ?? null; - this.first_nations_id = data?.first_nations_id ?? null; - this.category_rationale = data?.category_rationale || ''; - this.proprietor_name = data?.proprietor_name || ''; - this.data_sharing_agreement_required = data?.disa_required ? 'true' : 'false'; - this.survey_data_proprietary = (data?.id && 'true') || 'false'; // The existence of a survey proprietor record indicates the survey data is proprietary - this.revision_count = data?.revision_count ?? null; - } -} - -export class GetSurveyPurposeAndMethodologyData { - constructor(responseData?: any) { - defaultLog.debug({ - label: 'GetSurveyPurposeAndMethodologyData', - message: 'params', - data: responseData - }); - - const obj = {}; - - responseData.forEach((item: any) => { - if (!obj[item.id]) { - obj[item.id] = { - id: item.id, - intended_outcome_id: item.intended_outcome_id, - additional_details: item.additional_details, - field_method_id: item.field_method_id, - ecological_season_id: item.ecological_season_id, - revision_count: item.revision_count, - vantage_code_ids: (item.vantage_id && [item.vantage_id]) || [], - surveyed_all_areas: (item.surveyed_all_areas && 'true') || 'false' - }; - } else { - obj[item.id].vantage_code_ids.push(item.vantage_id); - } - }); - return Object.values(obj); - } -} diff --git a/api/src/models/survey-view.test.ts b/api/src/models/survey-view.test.ts index 307d92479e..a2012c765e 100644 --- a/api/src/models/survey-view.test.ts +++ b/api/src/models/survey-view.test.ts @@ -1,166 +1,468 @@ import { expect } from 'chai'; import { describe } from 'mocha'; -import { GetViewSurveyDetailsData } from './survey-view'; +import { + GetAncillarySpeciesData, + GetFocalSpeciesData, + GetPermitData, + GetSurveyData, + GetSurveyFundingSources, + GetSurveyLocationData, + GetSurveyProprietorData, + GetSurveyPurposeAndMethodologyData +} from './survey-view'; -describe('GetViewSurveyDetailsData', () => { +describe('GetSurveyData', () => { describe('No values provided', () => { - let data: GetViewSurveyDetailsData; + let data: GetSurveyData; before(() => { - data = new GetViewSurveyDetailsData(null); + data = new GetSurveyData(null); }); it('sets survey_name', () => { expect(data.survey_name).to.equal(''); }); - it('sets focal_species', () => { - expect(data.focal_species).to.eql([]); + it('sets end_date', () => { + expect(data.end_date).to.equal(null); }); - it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql([]); + it('sets start_date', () => { + expect(data.start_date).to.equal(null); }); - it('sets start_date', () => { - expect(data.start_date).to.equal(''); + it('sets biologist_first_name', () => { + expect(data.biologist_first_name).to.equal(''); + }); + + it('sets biologist_last_name', () => { + expect(data.biologist_last_name).to.equal(''); + }); + }); + + describe('All values provided', () => { + let data: GetSurveyData; + + const obj = { + name: 'survey name', + end_date: '2020/04/04', + start_date: '2020/03/03', + lead_first_name: 'first', + lead_last_name: 'last' + }; + + before(() => { + data = new GetSurveyData(obj); + }); + + it('sets survey_name', () => { + expect(data.survey_name).to.equal(obj.name); }); it('sets end_date', () => { - expect(data.end_date).to.equal(''); + expect(data.end_date).to.equal(obj.end_date); + }); + + it('sets start_date', () => { + expect(data.start_date).to.equal(obj.start_date); }); it('sets biologist_first_name', () => { - expect(data.biologist_first_name).to.equal(''); + expect(data.biologist_first_name).to.equal(obj.lead_first_name); }); it('sets biologist_last_name', () => { - expect(data.biologist_last_name).to.equal(''); + expect(data.biologist_last_name).to.equal(obj.lead_last_name); }); + }); +}); - it('sets survey_area_name', () => { - expect(data.survey_area_name).to.equal(''); +describe('GetFocalSpeciesData', () => { + describe('No values provided', () => { + let data: GetFocalSpeciesData; + + before(() => { + data = new GetFocalSpeciesData([]); }); - it('sets revision_count', () => { - expect(data.revision_count).to.equal(null); + it('sets focal_species', () => { + expect(data.focal_species).to.eql([]); }); - it('sets permit number', () => { + it('sets focal_species_names', () => { + expect(data.focal_species_names).to.eql([]); + }); + }); + + describe('All values provided', () => { + let data: GetFocalSpeciesData; + + const obj = [ + { id: 1, label: 'species1' }, + { id: 2, label: 'species2' } + ]; + + before(() => { + data = new GetFocalSpeciesData(obj); + }); + + it('sets focal_species', () => { + expect(data.focal_species).to.eql([1, 2]); + }); + + it('sets focal_species_names', () => { + expect(data.focal_species_names).to.eql(['species1', 'species2']); + }); + }); +}); + +describe('GetAncillarySpeciesData', () => { + describe('No values provided', () => { + let data: GetAncillarySpeciesData; + + before(() => { + data = new GetAncillarySpeciesData([]); + }); + + it('sets ancillary_species', () => { + expect(data.ancillary_species).to.eql([]); + }); + + it('sets ancillary_species_names', () => { + expect(data.ancillary_species_names).to.eql([]); + }); + }); + + describe('All values provided', () => { + let data: GetAncillarySpeciesData; + + const obj = [ + { id: 1, label: 'species1' }, + { id: 2, label: 'species2' } + ]; + + before(() => { + data = new GetAncillarySpeciesData(obj); + }); + + it('sets ancillary_species', () => { + expect(data.ancillary_species).to.eql([1, 2]); + }); + + it('sets ancillary_species_names', () => { + expect(data.ancillary_species_names).to.eql(['species1', 'species2']); + }); + }); +}); + +describe('GetPermitData', () => { + describe('No values provided', () => { + let data: GetPermitData; + + before(() => { + data = new GetPermitData(null); + }); + + it('sets permit_number', () => { expect(data.permit_number).to.equal(''); }); - it('sets permit type', () => { + it('sets ancillary_species', () => { expect(data.permit_type).to.equal(''); }); + }); + + describe('All values provided', () => { + let data: GetPermitData; + + const obj = { + number: '12345', + type: 'permit_type' + }; + + before(() => { + data = new GetPermitData(obj); + }); + + it('sets permit_number', () => { + expect(data.permit_number).to.equal(obj.number); + }); + + it('sets permit_type', () => { + expect(data.permit_type).to.equal(obj.type); + }); + }); +}); + +describe('GetSurveyFundingSources', () => { + describe('No values provided', () => { + let data: GetSurveyFundingSources; + + before(() => { + data = new GetSurveyFundingSources([]); + }); - it('sets funding sources', () => { + it('sets funding_sources', () => { expect(data.funding_sources).to.eql([]); }); }); - describe('all values provided', () => { - let data: GetViewSurveyDetailsData; + describe('All values provided', () => { + let data: GetSurveyFundingSources; - const surveyData = { - id: 1, - name: 'survey name', - objectives: 'purpose of survey', - start_date: '2020-04-20T07:00:00.000Z', - end_date: '2020-05-20T07:00:00.000Z', - revision_count: 1, - focal_species: ['species'], - ancillary_species: ['ancillary'], - common_survey_methodology: 'method', - lead_first_name: 'lead', - lead_last_name: 'last', - location_name: 'area', - type: 'scientific', - number: '123', - funding_sources: [ + const obj = [ + { + project_funding_source_id: 1, + funding_amount: 2, + funding_source_id: 3, + funding_start_date: '2020/04/04', + funding_end_date: '2020/04/05', + investment_action_category_id: 4, + investment_action_category_name: 'name11', + agency_name: 'name1', + funding_source_project_id: '5' + }, + { + project_funding_source_id: 6, + funding_amount: 7, + funding_source_id: 8, + funding_start_date: '2020/04/06', + funding_end_date: '2020/04/07', + investment_action_category_id: 9, + investment_action_category_name: 'name22', + agency_name: 'name2', + funding_source_project_id: '10' + } + ]; + + before(() => { + data = new GetSurveyFundingSources(obj); + }); + + it('sets funding_sources', () => { + expect(data.funding_sources).to.eql([ { pfs_id: 1, - funding_amount: 100, - agency_name: 'name agency', + funding_amount: 2, + funding_source_id: 3, funding_start_date: '2020/04/04', - funding_end_date: '2020/05/05' - } - ], - geometry: [ + funding_end_date: '2020/04/05', + investment_action_category_id: 4, + investment_action_category_name: 'name11', + agency_name: 'name1', + funding_source_project_id: '5' + }, { - type: 'Feature', - geometry: { - type: 'Point', - coordinates: [125.6, 10.1] - }, - properties: { - name: 'Dinagat Islands' - } + pfs_id: 6, + funding_amount: 7, + funding_source_id: 8, + funding_start_date: '2020/04/06', + funding_end_date: '2020/04/07', + investment_action_category_id: 9, + investment_action_category_name: 'name22', + agency_name: 'name2', + funding_source_project_id: '10' } - ] + ]); + }); + }); +}); + +describe('GetSurveyProprietorData', () => { + describe('No values provided', () => { + let data: GetSurveyProprietorData; + + before(() => { + data = new GetSurveyProprietorData(null); + }); + + it('sets proprietor_type_name', () => { + expect(data.proprietor_type_name).to.equal(null); + }); + + it('sets proprietor_type_id', () => { + expect(data.proprietor_type_id).to.equal(null); + }); + + it('sets first_nations_id', () => { + expect(data.first_nations_id).to.equal(null); + }); + + it('sets first_nations_name', () => { + expect(data.first_nations_name).to.equal(null); + }); + + it('sets category_rationale', () => { + expect(data.category_rationale).to.equal(null); + }); + + it('sets proprietor_name', () => { + expect(data.proprietor_name).to.equal(null); + }); + + it('sets disa_required', () => { + expect(data.disa_required).to.equal(false); + }); + }); + + describe('All values provided', () => { + let data: GetSurveyProprietorData; + + const obj = { + proprietor_type_name: 'proprietor_type_name', + proprietor_type_id: 1, + proprietary_data_category: 'survey name', + first_nations_id: '2020/04/04', + first_nations_name: 'first_nations_name', + category_rationale: '2020/03/03', + proprietor_name: 'proprietor_name', + disa_required: true }; + before(() => { - data = new GetViewSurveyDetailsData(surveyData); + data = new GetSurveyProprietorData(obj); }); - it('sets survey_name', () => { - expect(data.survey_name).to.equal(surveyData.name); + it('sets proprietor_type_name', () => { + expect(data.proprietor_type_name).to.equal(obj.proprietor_type_name); }); - it('sets focal_species', () => { - expect(data.focal_species).to.eql(surveyData.focal_species); + it('sets proprietor_type_id', () => { + expect(data.proprietor_type_id).to.equal(obj.proprietor_type_id); }); - it('sets ancillary_species', () => { - expect(data.ancillary_species).to.eql(surveyData.ancillary_species); + it('sets first_nations_id', () => { + expect(data.first_nations_id).to.equal(obj.first_nations_id); }); - it('sets start_date', () => { - expect(data.start_date).to.equal(surveyData.start_date); + it('sets first_nations_name', () => { + expect(data.first_nations_name).to.equal(obj.first_nations_name); }); - it('sets end_date', () => { - expect(data.end_date).to.equal(surveyData.end_date); + it('sets category_rationale', () => { + expect(data.category_rationale).to.equal(obj.category_rationale); }); - it('sets biologist_first_name', () => { - expect(data.biologist_first_name).to.equal(surveyData.lead_first_name); + it('sets proprietor_name', () => { + expect(data.proprietor_name).to.equal(obj.proprietor_name); }); - it('sets biologist_last_name', () => { - expect(data.biologist_last_name).to.equal(surveyData.lead_last_name); + it('sets disa_required', () => { + expect(data.disa_required).to.equal(obj.disa_required); + }); + }); +}); + +describe('GetSurveyLocationData', () => { + describe('No values provided', () => { + let data: GetSurveyLocationData; + + before(() => { + data = new GetSurveyLocationData(null); }); it('sets survey_area_name', () => { - expect(data.survey_area_name).to.equal(surveyData.location_name); + expect(data.survey_area_name).to.equal(''); }); - it('sets revision_count', () => { - expect(data.revision_count).to.equal(surveyData.revision_count); + it('sets geometry', () => { + expect(data.geometry).to.eql([]); }); + }); - it('sets the geometry', () => { - expect(data.geometry).to.eql(surveyData.geometry); + describe('All values provided with first nations id', () => { + let data: GetSurveyLocationData; + + const obj = { + location_name: 'area_name', + geojson: [{}] + }; + + before(() => { + data = new GetSurveyLocationData(obj); }); - it('sets permit number', () => { - expect(data.permit_number).to.equal(surveyData.number); + it('sets survey_area_name', () => { + expect(data.survey_area_name).to.equal(obj.location_name); }); - it('sets permit type', () => { - expect(data.permit_type).to.equal(surveyData.type); + it('sets geometry', () => { + expect(data.geometry).to.eql(obj.geojson); }); + }); +}); - it('sets funding sources', () => { - expect(data.funding_sources).to.eql([ - { - pfs_id: 1, - funding_amount: 100, - agency_name: 'name agency', - funding_start_date: '2020/04/04', - funding_end_date: '2020/05/05' - } - ]); +describe('GetSurveyPurposeAndMethodologyData', () => { + describe('No values provided', () => { + let data: GetSurveyPurposeAndMethodologyData; + + before(() => { + data = new GetSurveyPurposeAndMethodologyData(null); + }); + + it('sets intended_outcome_id', () => { + expect(data.intended_outcome_id).to.equal(null); + }); + + it('sets additional_details', () => { + expect(data.additional_details).to.equal(null); + }); + + it('sets field_method_id', () => { + expect(data.field_method_id).to.equal(null); + }); + + it('sets ecological_season_id', () => { + expect(data.ecological_season_id).to.equal(null); + }); + + it('sets vantage_code_ids', () => { + expect(data.vantage_code_ids).to.eql([]); + }); + + it('sets surveyed_all_areas', () => { + expect(data.surveyed_all_areas).to.equal('false'); + }); + }); + + describe('All values provided with first nations id', () => { + let data: GetSurveyPurposeAndMethodologyData; + + const obj = { + intended_outcome_id: 1, + additional_details: 'additional_detail', + field_method_id: 2, + ecological_season_id: 3, + vantage_ids: [4, 5], + surveyed_all_areas: true + }; + + before(() => { + data = new GetSurveyPurposeAndMethodologyData(obj); + }); + + it('sets intended_outcome_id', () => { + expect(data.intended_outcome_id).to.equal(obj.intended_outcome_id); + }); + + it('sets additional_details', () => { + expect(data.additional_details).to.eql(obj.additional_details); + }); + + it('sets field_method_id', () => { + expect(data.field_method_id).to.eql(obj.field_method_id); + }); + + it('sets ecological_season_id', () => { + expect(data.ecological_season_id).to.eql(obj.ecological_season_id); + }); + + it('sets vantage_code_ids', () => { + expect(data.vantage_code_ids).to.eql(obj.vantage_ids); + }); + + it('sets surveyed_all_areas', () => { + expect(data.surveyed_all_areas).to.eql('true'); }); }); }); diff --git a/api/src/models/survey-view.ts b/api/src/models/survey-view.ts index 84c2c2ba88..ea863ffacd 100644 --- a/api/src/models/survey-view.ts +++ b/api/src/models/survey-view.ts @@ -1,117 +1,40 @@ import { Feature } from 'geojson'; -import moment from 'moment'; -import { COMPLETION_STATUS } from '../constants/status'; -import { getLogger } from '../utils/logger'; - -const defaultLog = getLogger('models/survey-view'); - -/** - * Pre-processes GET /project/{projectId}/survey/{surveyId} survey details data for view - * - * @export - * @class GetViewSurveyDetailsData - */ -export class GetViewSurveyDetailsData { + +export type SurveyObject = { + survey_details: GetSurveyData; + species: GetFocalSpeciesData & GetAncillarySpeciesData; + permit: GetPermitData; + purpose_and_methodology: GetSurveyPurposeAndMethodologyData; + funding: GetSurveyFundingSources; + proprietor: GetSurveyProprietorData | null; + location: GetSurveyLocationData; +}; + +export class GetSurveyData { id: number; + uuid: string; survey_name: string; - focal_species: number[]; - focal_species_names: string[]; - ancillary_species: number[]; - ancillary_species_names: string[]; start_date: string; end_date: string; biologist_first_name: string; biologist_last_name: string; + publish_date: string; survey_area_name: string; geometry: Feature[]; revision_count: number; - permit_number: string; - permit_type: string; - funding_sources: object[]; - completion_status: string; - publish_date: string; - occurrence_submission_id: number; - - constructor(surveyDetailsData?: any) { - defaultLog.debug({ - label: 'GetViewSurveyDetailsData', - message: 'params', - surveyDetailsData: { - ...surveyDetailsData, - geometry: surveyDetailsData?.geometry?.map((item: any) => { - return { ...item, geometry: 'Too big to print' }; - }) - } - }); - - this.id = surveyDetailsData?.id ?? null; - this.occurrence_submission_id = surveyDetailsData?.occurrence_submission_id ?? null; - this.survey_name = surveyDetailsData?.name || ''; - this.focal_species = surveyDetailsData?.focal_species || []; - this.focal_species_names = surveyDetailsData?.focal_species_names || []; - this.ancillary_species = surveyDetailsData?.ancillary_species || []; - this.ancillary_species_names = surveyDetailsData?.ancillary_species_names || []; - this.start_date = surveyDetailsData?.start_date || ''; - this.end_date = surveyDetailsData?.end_date || ''; - this.biologist_first_name = surveyDetailsData?.lead_first_name || ''; - this.biologist_last_name = surveyDetailsData?.lead_last_name || ''; - this.survey_area_name = surveyDetailsData?.location_name || ''; - this.geometry = (surveyDetailsData?.geometry?.length && surveyDetailsData.geometry) || []; - this.permit_number = surveyDetailsData?.number || ''; - this.permit_type = surveyDetailsData?.type || ''; - this.funding_sources = surveyDetailsData?.funding_sources || []; - this.revision_count = surveyDetailsData?.revision_count ?? null; - this.completion_status = - (surveyDetailsData && - surveyDetailsData.end_date && - moment(surveyDetailsData.end_date).endOf('day').isBefore(moment()) && - COMPLETION_STATUS.COMPLETED) || - COMPLETION_STATUS.ACTIVE; - this.publish_date = String(surveyDetailsData?.publish_date || ''); - } -} - -export class GetSpeciesData { - species: number[]; - species_names: string[]; - - constructor(input?: any[]) { - this.species = []; - this.species_names = []; - input?.length && - input.forEach((item: any) => { - this.species.push(Number(item.id)); - this.species_names.push(item.label); - }); - } -} - -/** - * Pre-processes GET survey funding sources list data - * - * @export - * @class GetSurveyFundingSources - */ -export class GetSurveyFundingSources { - fundingSources: any[]; constructor(obj?: any) { - defaultLog.debug({ label: 'GetSurveyFundingSources', message: 'params', obj }); - - const surveyFundingSourcesList: any[] = []; - - obj && - obj.map((fundingSource: any) => { - surveyFundingSourcesList.push({ - pfsId: fundingSource.id, - amount: fundingSource.funding_amount, - startDate: fundingSource.start_date, - endDate: fundingSource.end_date, - agencyName: fundingSource.agency_name - }); - }); - - this.fundingSources = surveyFundingSourcesList; + this.id = obj?.survey_id || null; + this.uuid = obj?.uuid || null; + this.survey_name = obj?.name || ''; + this.start_date = obj?.start_date || null; + this.end_date = obj?.end_date || null; + this.publish_date = String(obj?.publish_date || ''); + this.geometry = (obj?.geojson?.length && obj.geojson) || []; + this.biologist_first_name = obj?.lead_first_name || ''; + this.biologist_last_name = obj?.lead_last_name || ''; + this.survey_area_name = obj?.location_name || ''; + this.revision_count = obj?.revision_count || 0; } } @@ -119,12 +42,12 @@ export class GetFocalSpeciesData { focal_species: number[]; focal_species_names: string[]; - constructor(input?: any[]) { + constructor(obj?: any[]) { this.focal_species = []; this.focal_species_names = []; - input?.length && - input.forEach((item: any) => { + obj?.length && + obj.forEach((item: any) => { this.focal_species.push(Number(item.id)); this.focal_species_names.push(item.label); }); @@ -135,41 +58,113 @@ export class GetAncillarySpeciesData { ancillary_species: number[]; ancillary_species_names: string[]; - constructor(input?: any[]) { + constructor(obj?: any[]) { this.ancillary_species = []; this.ancillary_species_names = []; - input?.length && - input.forEach((item: any) => { + obj?.length && + obj.forEach((item: any) => { this.ancillary_species.push(Number(item.id)); this.ancillary_species_names.push(item.label); }); } } +export class GetPermitData { + permit_number: number; + permit_type: string; -export type SurveyObject = { - survey: GetSurveyData; - species: GetSpeciesData; + constructor(obj?: any) { + this.permit_number = obj?.number || ''; + this.permit_type = obj?.type || ''; + } +} + +export class GetSurveyPurposeAndMethodologyData { + intended_outcome_id: number; + additional_details: string; + field_method_id: number; + ecological_season_id: number; + revision_count: number; + vantage_code_ids: number[]; + surveyed_all_areas: string; + + constructor(obj?: any) { + this.intended_outcome_id = obj?.intended_outcome_id || null; + this.additional_details = obj?.additional_details || null; + this.field_method_id = obj?.field_method_id || null; + this.ecological_season_id = obj?.ecological_season_id || null; + this.vantage_code_ids = (obj?.vantage_ids?.length && obj.vantage_ids) || []; + this.surveyed_all_areas = (obj?.surveyed_all_areas && 'true') || 'false'; + this.revision_count = obj?.revision_count ?? 0; + } +} + +interface IGetSurveyFundingSource { + pfs_id: number; + funding_amount: number; + funding_source_id: number; + funding_start_date: string; + funding_end_date: string; + investment_action_category_id: number; + investment_action_category_name: string; + agency_name: string; + funding_source_project_id: string; +} + +export class GetSurveyFundingSources { + funding_sources: IGetSurveyFundingSource[]; + + constructor(obj?: any[]) { + this.funding_sources = + (obj && + obj.map((item: any) => { + return { + pfs_id: item.project_funding_source_id, + funding_amount: item.funding_amount, + funding_source_id: item.funding_source_id, + funding_start_date: item.funding_start_date, + funding_end_date: item.funding_end_date, + investment_action_category_id: item.investment_action_category_id, + investment_action_category_name: item.investment_action_category_name, + agency_name: item.agency_name, + funding_source_project_id: item.funding_source_project_id + }; + })) || + []; + } +} + +export class GetSurveyProprietorData { + proprietor_type_name: string; + proprietor_type_id: number; + first_nations_name: string; + first_nations_id: number; + category_rationale: string; + proprietor_name: string; + disa_required: boolean; + + constructor(obj?: any) { + this.proprietor_type_name = obj?.proprietor_type_name || null; + this.proprietor_type_id = obj?.proprietor_type_id || null; + this.first_nations_name = obj?.first_nations_name || null; + this.first_nations_id = obj?.first_nations_id || null; + this.category_rationale = obj?.category_rationale || null; + this.proprietor_name = obj?.proprietor_name || null; + this.disa_required = obj?.disa_required || false; + } +} + +export type SurveySupplementaryData = { + occurrence_submission: number; + summary_result: number; }; -export class GetSurveyData { - id: number; - name: string; - start_date: string; - end_date: string; - publish_status: string; - completion_status: number; - - constructor(surveyData?: any) { - this.id = surveyData?.survey_id || null; - this.name = surveyData?.name || ''; - this.start_date = surveyData?.start_date || null; - this.end_date = surveyData?.end_date || null; - this.publish_status = surveyData?.publish_timestamp ? 'Published' : 'Unpublished'; - this.completion_status = - (surveyData.end_date && - moment(surveyData.end_date).endOf('day').isBefore(moment()) && - COMPLETION_STATUS.COMPLETED) || - COMPLETION_STATUS.ACTIVE; +export class GetSurveyLocationData { + survey_area_name: string; + geometry: Feature[]; + + constructor(obj?: any) { + this.survey_area_name = obj?.location_name || ''; + this.geometry = (obj?.geojson?.length && obj.geojson) || []; } } diff --git a/api/src/openapi/schemas/draft.ts b/api/src/openapi/schemas/draft.ts index 2dc2e848c6..96e13286eb 100644 --- a/api/src/openapi/schemas/draft.ts +++ b/api/src/openapi/schemas/draft.ts @@ -4,14 +4,18 @@ export const draftResponseObject = { title: 'Draft Response Object', type: 'object', - required: ['id', 'date'], + required: ['id', 'name', 'date'], properties: { id: { type: 'number' }, - date: { + name: { type: 'string', - description: 'The date this draft was last updated or created' + description: 'The name of the draft' + }, + date: { + description: 'The date this draft was last updated or created', + oneOf: [{ type: 'string', format: 'date' }, { type: 'object' }] } } }; @@ -32,8 +36,8 @@ export const draftGetResponseObject = { description: 'The name of the draft' }, data: { - type: 'string', - description: 'The data associated with this draft' + title: 'JSON data associated with the draft', + type: 'object' } } }; diff --git a/api/src/paths/draft.ts b/api/src/paths/draft.ts index a0056fd432..9599a74735 100644 --- a/api/src/paths/draft.ts +++ b/api/src/paths/draft.ts @@ -91,9 +91,8 @@ POST.apiDoc = { type: 'string' }, data: { - title: 'Draft json data', - type: 'object', - properties: {} + title: 'JSON data associated with the draft', + type: 'object' } } } @@ -132,8 +131,7 @@ PUT.apiDoc = { }, data: { title: 'Draft json data', - type: 'object', - properties: {} + type: 'object' } } } @@ -187,7 +185,11 @@ export function createDraft(): RequestHandler { throw new HTTP400('Failed to save draft'); } - return res.status(200).json({ id: draftResult.id, date: draftResult.update_date || draftResult.create_date }); + return res.status(200).json({ + id: draftResult.id, + name: draftResult.name, + date: draftResult.update_date || draftResult.create_date + }); } catch (error) { defaultLog.error({ label: 'createProject', message: 'error', error }); await connection.rollback(); @@ -231,14 +233,17 @@ export function updateDraft(): RequestHandler { const updateDraftResponse = await connection.query(putDraftSQLStatement.text, putDraftSQLStatement.values); const draftResult = (updateDraftResponse && updateDraftResponse.rows && updateDraftResponse.rows[0]) || null; - if (!draftResult || !draftResult.id) { throw new HTTP400('Failed to update draft'); } await connection.commit(); - return res.status(200).json({ id: draftResult.id, date: draftResult.update_date || draftResult.create_date }); + return res.status(200).json({ + id: draftResult.id, + name: draftResult.name, + date: draftResult.update_date || draftResult.create_date + }); } catch (error) { defaultLog.error({ label: 'createProject', message: 'error', error }); await connection.rollback(); diff --git a/api/src/paths/drafts.ts b/api/src/paths/drafts.ts index c181fbe597..78b5236eb9 100644 --- a/api/src/paths/drafts.ts +++ b/api/src/paths/drafts.ts @@ -88,7 +88,8 @@ export function getDraftList(): RequestHandler { const getDraftsResponse = await connection.query(getDraftsSQLStatement.text, getDraftsSQLStatement.values); - const draftResult = (getDraftsResponse && getDraftsResponse.rows) || null; + const draftResult: { name: string; id: string; update_date: string; create_date: string }[] | null = + (getDraftsResponse && getDraftsResponse.rows) || null; if (!draftResult) { throw new HTTP400('Failed to get drafts'); @@ -96,7 +97,13 @@ export function getDraftList(): RequestHandler { await connection.commit(); - return res.status(200).json(draftResult); + return res.status(200).json( + draftResult.map((result) => ({ + id: result.id, + name: result.name, + date: result.update_date || result.create_date + })) + ); } catch (error) { defaultLog.error({ label: 'getDraftsList', message: 'error', error }); await connection.rollback(); diff --git a/api/src/paths/dwc/eml.test.ts b/api/src/paths/dwc/eml.test.ts index 2fb3611698..faf27db3e7 100644 --- a/api/src/paths/dwc/eml.test.ts +++ b/api/src/paths/dwc/eml.test.ts @@ -2,657 +2,58 @@ import chai, { expect } from 'chai'; import { describe } from 'mocha'; import sinon from 'sinon'; import sinonChai from 'sinon-chai'; -import SQL from 'sql-template-strings'; import * as db from '../../database/db'; import { HTTPError } from '../../errors/custom-error'; -import eml_queries from '../../queries/dwc'; -import { getMockDBConnection } from '../../__mocks__/db'; -import * as eml from './eml'; +import { EmlService } from '../../services/eml-service'; +import { getMockDBConnection, getRequestHandlerMocks } from '../../__mocks__/db'; +import { getProjectEml } from './eml'; chai.use(sinonChai); -const dbConnectionObj = getMockDBConnection({ - systemUserId: () => { - return 20; - } -}); - -describe('getSurveyDataPackageEML', () => { - const sampleReq = { - keycloak_token: {}, - body: { - data_package_id: 1 - } - } as any; - +describe('getProjectEml', () => { afterEach(() => { sinon.restore(); }); - it('should throw a 400 error when no data package id is provided', async () => { - sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); + it('should throw a 400 error when no projectId is provided', async () => { + const dbConnectionObj = getMockDBConnection(); - try { - const requestHandler = eml.getSurveyDataPackageEML(); - await requestHandler( - { ...sampleReq, body: { ...sampleReq.body, data_package_id: null } }, - (null as unknown) as any, - (null as unknown) as any - ); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Missing required body param `data_package_id`.'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getSurveyOccurrenceSubmission', () => { - const sampleReq = { - keycloak_token: {}, - body: { - data_package_id: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no data package id is provided', async () => { sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - try { - await eml.getSurveyOccurrenceSubmission(sampleReq.data_package_id, dbConnectionObj); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal( - 'Failed to acquire distinct survey occurrence submission record' - ); - expect((actualError as HTTPError).status).to.equal(400); - } - }); - - it('should throw a 400 error when no sql statement returned for getSurveyOccurrenceSubmissionSQL', async () => { - const fake = sinon.replace(eml_queries, 'getSurveyOccurrenceSubmissionSQL', sinon.fake.returns(null)); - - try { - await eml.getSurveyOccurrenceSubmission(sampleReq.data_package_id, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); - - it('should throw a 400 error when no rows returned', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ - rows: [] - }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - query: mockQuery - }); - - sinon.stub(eml_queries, 'getSurveyOccurrenceSubmissionSQL').returns(SQL`something`); + mockReq.query = { projectId: undefined }; try { - await eml.getSurveyOccurrenceSubmission(sampleReq.data_package_id, dbConnectionObj); - + await getProjectEml()(mockReq, mockRes, mockNext); expect.fail(); } catch (actualError) { - expect((actualError as HTTPError).message).to.equal( - 'Failed to acquire distinct survey occurrence submission record' - ); expect((actualError as HTTPError).status).to.equal(400); + expect((actualError as HTTPError).message).to.equal('Failed to build SQL get statement'); } }); -}); -describe('getDataPackage', () => { - const sampleReq = { - keycloak_token: {}, - body: { - data_package_id: null - } - } as any; + it('should throw an error when buildProjectEml fails', async () => { + const dbConnectionObj = getMockDBConnection({ rollback: sinon.stub(), release: sinon.stub() }); - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no data package id is provided', async () => { sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - try { - await eml.getDataPackage(sampleReq.data_package_id, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to acquire data package record'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); - - it('should throw a 400 error when no sql statement returned for getDataPackageSQL', async () => { - const fake = sinon.replace(eml_queries, 'getDataPackageSQL', sinon.fake.returns(null)); - - try { - await eml.getDataPackage(sampleReq.data_package_id, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); - - it('should throw a 400 error when no rows returned', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ - rows: [] - }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - query: mockQuery - }); - - sinon.stub(eml_queries, 'getDataPackageSQL').returns(SQL`something`); - - try { - await eml.getDataPackage(sampleReq.data_package_id, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to acquire data package record'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getPublishedSurveyStatus', () => { - const sampleReq = { - keycloak_token: {}, - body: { - occurrenceSubmissionId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getDataPackageSQL', async () => { - const fake = sinon.replace(eml_queries, 'getPublishedSurveyStatusSQL', sinon.fake.returns(null)); - - try { - await eml.getPublishedSurveyStatus(sampleReq.data_package_id, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getSurvey', () => { - const sampleReq = { - keycloak_token: {}, - body: { - surveyId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getSurveySQL', async () => { - const fake = sinon.replace(eml_queries, 'getSurveySQL', sinon.fake.returns(null)); - - try { - await eml.getSurvey(sampleReq.surveyId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProject', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectSQL', async () => { - const fake = sinon.replace(eml_queries, 'getProjectSQL', sinon.fake.returns(null)); - - try { - await eml.getProject(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getSurveyFundingSource', () => { - const sampleReq = { - keycloak_token: {}, - body: { - surveyId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getSurveyFundingSourceSQL', async () => { - const fake = sinon.replace(eml_queries, 'getSurveyFundingSourceSQL', sinon.fake.returns(null)); - - try { - await eml.getSurveyFundingSource(sampleReq.surveyId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectFundingSource', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getSurveyFundingSourceSQL', async () => { - const fake = sinon.replace(eml_queries, 'getProjectFundingSourceSQL', sinon.fake.returns(null)); - - try { - await eml.getProjectFundingSource(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getSurveyBoundingBox', () => { - const sampleReq = { - keycloak_token: {}, - body: { - surveyId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getSurveyBoundingBoxSQL', async () => { - const fake = sinon.replace(eml_queries, 'getGeometryBoundingBoxSQL', sinon.fake.returns(null)); - - try { - await eml.getSurveyBoundingBox(sampleReq.surveyId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectBoundingBox', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectBoundingBoxSQL', async () => { - const fake = sinon.replace(eml_queries, 'getGeometryBoundingBoxSQL', sinon.fake.returns(null)); - - try { - await eml.getSurveyBoundingBox(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectBoundingBox', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectBoundingBoxSQL', async () => { - const fake = sinon.replace(eml_queries, 'getGeometryBoundingBoxSQL', sinon.fake.returns(null)); - - try { - await eml.getProjectBoundingBox(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getSurveyPolygons', () => { - const sampleReq = { - keycloak_token: {}, - body: { - surveyId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getSurveyPolygonsSQL', async () => { - const fake = sinon.replace(eml_queries, 'getGeometryPolygonsSQL', sinon.fake.returns(null)); - - try { - await eml.getSurveyPolygons(sampleReq.surveyId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectPolygons', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectPolygonsSQL', async () => { - const fake = sinon.replace(eml_queries, 'getGeometryPolygonsSQL', sinon.fake.returns(null)); - - try { - await eml.getProjectPolygons(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getFocalTaxonomicCoverage', () => { - const sampleReq = { - keycloak_token: {}, - body: { - surveyId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getTaxonomicCoverageSQL', async () => { - const fake = sinon.replace(eml_queries, 'getTaxonomicCoverageSQL', sinon.fake.returns(null)); - - try { - await eml.getFocalTaxonomicCoverage(sampleReq.surveyId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectIucnConservation', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectIucnConservationSQL', async () => { - const fake = sinon.replace(eml_queries, 'getProjectIucnConservationSQL', sinon.fake.returns(null)); + sinon.stub(EmlService.prototype, 'buildProjectEml').rejects(new Error('a test error')); - try { - await eml.getProjectIucnConservation(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectStakeholderPartnership', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectStakeholderPartnershipSQL', async () => { - const fake = sinon.replace(eml_queries, 'getProjectStakeholderPartnershipSQL', sinon.fake.returns(null)); + mockReq.params = { + projectId: '1' + }; try { - await eml.getProjectStakeholderPartnership(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - + const requestHandler = getProjectEml(); + await requestHandler(mockReq, mockRes, mockNext); expect.fail(); } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectActivity', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectActivitySQL', async () => { - const fake = sinon.replace(eml_queries, 'getProjectActivitySQL', sinon.fake.returns(null)); - - try { - await eml.getProjectActivity(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectClimateInitiative', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectClimateInitiativeSQL', async () => { - const fake = sinon.replace(eml_queries, 'getProjectClimateInitiativeSQL', sinon.fake.returns(null)); - - try { - await eml.getProjectClimateInitiative(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectFirstNations', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectFirstNationsSQL', async () => { - const fake = sinon.replace(eml_queries, 'getProjectFirstNationsSQL', sinon.fake.returns(null)); - - try { - await eml.getProjectFirstNations(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); -}); - -describe('getProjectManagementActions', () => { - const sampleReq = { - keycloak_token: {}, - body: { - projectId: null - } - } as any; - - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no sql statement returned for getProjectManagementActionsSQL', async () => { - const fake = sinon.replace(eml_queries, 'getProjectManagementActionsSQL', sinon.fake.returns(null)); - - try { - await eml.getProjectManagementActions(sampleReq.projectId, dbConnectionObj); - - fake.should.have.returned(null); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); + expect(dbConnectionObj.rollback).to.have.been.called; + expect(dbConnectionObj.release).to.have.been.called; + expect((actualError as HTTPError).message).to.equal('a test error'); } }); }); diff --git a/api/src/paths/dwc/eml.ts b/api/src/paths/dwc/eml.ts index 9e75847f6e..73daaec1a9 100644 --- a/api/src/paths/dwc/eml.ts +++ b/api/src/paths/dwc/eml.ts @@ -1,81 +1,95 @@ -import AdmZip from 'adm-zip'; import { RequestHandler } from 'express'; import { Operation } from 'express-openapi'; -import * as xml2js from 'xml2js'; import { PROJECT_ROLE, SYSTEM_ROLE } from '../../constants/roles'; -import { getDBConnection, IDBConnection } from '../../database/db'; -import { HTTP400, HTTP500 } from '../../errors/custom-error'; -import { queries } from '../../queries/queries'; +import { getDBConnection } from '../../database/db'; import { authorizeRequestHandler } from '../../request-handlers/security/authorization'; -import { getDbCharacterSystemMetaDataConstant } from '../../utils/db-constant-utils'; -import { getFileFromS3, uploadBufferToS3 } from '../../utils/file-utils'; +import { EmlService } from '../../services/eml-service'; import { getLogger } from '../../utils/logger'; -import { MediaFile } from '../../utils/media/media-file'; -import { parseS3File, parseUnknownZipFile } from '../../utils/media/media-utils'; -const simsEmlVersion = '1.0.0'; +const defaultLog = getLogger('paths/project/{projectId}/export/eml'); -type Eml = { [k: string]: any }; - -const defaultLog = getLogger('paths/dwc/eml'); - -const defaultEMLFileName = 'eml.xml'; -const defaultEMLMimeType = 'application/xml'; -const defaultArchiveMimeType = 'application/zip'; - -export const POST: Operation = [ +export const GET: Operation = [ authorizeRequestHandler((req) => { return { - and: [ + or: [ + { + validSystemRoles: [SYSTEM_ROLE.SYSTEM_ADMIN, SYSTEM_ROLE.DATA_ADMINISTRATOR], + discriminator: 'SystemRole' + }, { validProjectRoles: [PROJECT_ROLE.PROJECT_LEAD, PROJECT_ROLE.PROJECT_EDITOR], - projectId: Number(req.body.project_id), + projectId: Number(req.query.projectId), discriminator: 'ProjectRole' } ] }; }), - getSurveyDataPackageEML(), - sendResponse() + getProjectEml() ]; -POST.apiDoc = { +GET.apiDoc = { description: 'Produces an Ecological Metadata Language (EML) extract for a target data package.', tags: ['eml', 'dwc'], security: [ { - Bearer: [SYSTEM_ROLE.SYSTEM_ADMIN, SYSTEM_ROLE.PROJECT_CREATOR] + Bearer: [] } ], - requestBody: { - description: 'Request body', - content: { - 'application/json': { - schema: { - type: 'object', - required: ['data_package_id'], - properties: { - project_id: { - type: 'number' - }, - data_package_id: { - description: 'A data package ID', - type: 'number', - example: 1 - }, - supplied_title: { - description: 'A user supplied title', - type: 'string', - example: 'My dataset title' - } - } + parameters: [ + { + in: 'query', + name: 'projectId', + schema: { + type: 'integer', + minimum: 1 + }, + required: true + }, + { + in: 'query', + name: 'surveyId', + schema: { + type: 'array', + items: { + type: 'integer', + minimum: 1 } - } + }, + description: 'Specify which surveys to include in the EML. Defaults to all surveys if none specified.' + }, + { + in: 'query', + name: 'includeSensitive', + schema: { + type: 'string', + enum: ['true', 'false'], + default: 'false' + }, + description: 'Specify if sensitive metadata should be included in the EML. Defaults to false if not specified.' } - }, + ], responses: { 200: { - description: 'Ecological Metadata Language (EML) extract production OK' + description: 'Ecological Metadata Language (EML) extract production OK', + content: { + 'application/json': { + schema: { + type: 'object', + required: ['eml'], + properties: { + eml: { + type: 'string', + description: 'Project EML data in XML format' + } + } + }, + encoding: { + eml: { + contentType: 'application/xml; charset=utf-8' + } + } + } + } }, 400: { $ref: '#/components/responses/400' @@ -95,793 +109,37 @@ POST.apiDoc = { } }; -export function getSurveyDataPackageEML(): RequestHandler { - return async (req, res, next) => { - defaultLog.debug({ label: 'getSurveyDataPackageEML', message: 'params', files: req.body }); +export function getProjectEml(): RequestHandler { + return async (req, res) => { + const projectId = Number(req.query.projectId); - const connection = getDBConnection(req['keycloak_token']); + const surveyIds = (req.query.surveyId as string[] | undefined)?.map((item) => Number(item)); - if (!req.body.data_package_id) { - throw new HTTP400('Missing required body param `data_package_id`.'); - } + const connection = getDBConnection(req['keycloak_token']); try { await connection.open(); - // get required data - const occurrenceSubmission = await getSurveyOccurrenceSubmission(req.body.data_package_id, connection); + const emlService = new EmlService({ projectId: projectId }, connection); - // get the EML data for the survey - const dataPackageEML = await getDataPackageEML(req.body.data_package_id, connection, req.body.supplied_title); + const xmlData = await emlService.buildProjectEml({ + includeSensitiveData: req.query.includeSensitive === 'true' || false, + surveyIds: surveyIds + }); await connection.commit(); - // get the archive file from s3 - if (!occurrenceSubmission.output_key) { - throw new HTTP400('No S3 target output key found'); - } - const s3Key = occurrenceSubmission.output_key; - const s3File = await getFileFromS3(s3Key); - - if (!s3File) { - throw new HTTP500('Failed to get file from S3'); - } - - // parse the archive file and add EML file - const archiveFile = parseS3File(s3File); - const mediaFiles = parseUnknownZipFile(archiveFile.buffer); - mediaFiles.push(new MediaFile(defaultEMLFileName, defaultEMLMimeType, Buffer.from(dataPackageEML))); - - // build the archive zip file - const dwcArchiveZip = new AdmZip(); - mediaFiles.forEach((file) => dwcArchiveZip.addFile(file.fileName, file.buffer)); - - // upload archive to s3 - await uploadBufferToS3(dwcArchiveZip.toBuffer(), defaultArchiveMimeType, s3Key); + res.setHeader('Access-Control-Expose-Headers', 'Content-Disposition'); + res.attachment(`project_${projectId}_eml.xml`); + res.contentType('application/xml'); - next(); + return res.status(200).json({ eml: xmlData }); } catch (error) { - defaultLog.error({ label: 'getSurveyDataPackageEML', message: 'error', error }); + defaultLog.error({ label: 'getProjectEml', message: 'error', error }); + await connection.rollback(); throw error; } finally { connection.release(); } }; } - -export function sendResponse(): RequestHandler { - return async (req, res) => { - return res.status(200).send(); - }; -} - -/** - * Get database application constants value. - * - * @param {number} dataPackageId - * @param {IDBConnection} connection - * @param {string} suppliedTitle - * @return {*} {Promise} - */ -export const getDataPackageEML = async ( - dataPackageId: number, - connection: IDBConnection, - suppliedTitle?: string -): Promise => { - defaultLog.debug({ - label: 'getDataPackageEML', - message: 'params', - dataPackageId, - suppliedTitle - }); - - // get all required data - const dataPackage = await getDataPackage(dataPackageId, connection); - const occurrenceSubmission = await getSurveyOccurrenceSubmission(dataPackageId, connection); - const publishedSurveyStatus = await getPublishedSurveyStatus( - occurrenceSubmission.occurrence_submission_id, - connection - ); - const survey = await getSurvey(occurrenceSubmission.survey_id, connection); - const project = await getProject(survey.project_id, connection); - const surveyFundingSource = await getSurveyFundingSource(survey.survey_id, connection); - const projectFundingSource = await getProjectFundingSource(project.project_id, connection); - const surveyBoundingBox = await getSurveyBoundingBox(survey.survey_id, connection); - const surveyPolygons = await getSurveyPolygons(survey.survey_id, connection); - const projectBoundingBox = await getProjectBoundingBox(project.project_id, connection); - const projectPolygons = await getProjectPolygons(project.project_id, connection); - const focalTaxonomicCoverage = await getFocalTaxonomicCoverage(survey.survey_id, connection); - const projectIucnConservation = await getProjectIucnConservation(project.project_id, connection); - const projectStakeholderPartnership = await getProjectStakeholderPartnership(project.project_id, connection); - const projectActivity = await getProjectActivity(project.project_id, connection); - const projectClimateInitiative = await getProjectClimateInitiative(project.project_id, connection); - const projectFirstNations = await getProjectFirstNations(project.project_id, connection); - const projectManagementActions = await getProjectManagementActions(project.project_id, connection); - const surveyProprietor = await getSurveyProprietor(survey.survey_id, connection); - // database constants - const simsProviderURL = checkProvided(await getDbCharacterSystemMetaDataConstant('PROVIDER_URL', connection)); - const securityProviderURL = checkProvided( - await getDbCharacterSystemMetaDataConstant('SECURITY_PROVIDER_URL', connection) - ); - const organizationFullName = checkProvided( - await getDbCharacterSystemMetaDataConstant('ORGANIZATION_NAME_FULL', connection) - ); - const organizationURL = checkProvided(await getDbCharacterSystemMetaDataConstant('ORGANIZATION_URL', connection)); - const intellectualRights = checkProvided( - await getDbCharacterSystemMetaDataConstant('INTELLECTUAL_RIGHTS', connection) - ); - const taxonomicProviderURL = checkProvided( - await getDbCharacterSystemMetaDataConstant('TAXONOMIC_PROVIDER_URL', connection) - ); - - // build eml object - const eml: Eml = { - 'eml:eml': { - $: { - packageId: 'urn:uuid:' + dataPackage.uuid, - system: simsProviderURL, - 'xmlns:eml': 'https://eml.ecoinformatics.org/eml-2.2.0', - 'xmlns:xsi': 'http://www.w3.org/2001/XMLSchema-instance', - 'xmlns:stmml': 'http://www.xml-cml.org/schema/stmml-1.1', - 'xsi:schemaLocation': 'https://eml.ecoinformatics.org/eml-2.2.0 xsd/eml.xsd' - } - } - }; - - const emlRoot = eml['eml:eml']; - - emlRoot.access = { - $: { authSystem: securityProviderURL, order: 'allowFirst' }, - allow: { principal: 'public', permission: 'read' } - }; - - emlRoot.dataset = { $: { system: simsProviderURL, id: dataPackage.uuid } }; - - if (suppliedTitle) { - emlRoot.dataset.title = suppliedTitle; - } else if (dataPackage) { - emlRoot.dataset.title = dataPackage.uuid; - } - - emlRoot.dataset.creator = { organizationName: project.coordinator_agency_name }; - - emlRoot.dataset.metadataProvider = { organizationName: organizationFullName, onlineUrl: organizationURL }; - - // TODO determine if this can be called without a publish date and if so what value to use? - emlRoot.dataset.pubDate = publishedSurveyStatus.rows[0].status_event_timestamp.toISOString().split('T')[0]; - - emlRoot.dataset.language = 'english'; - - emlRoot.dataset.intellectualRights = { para: intellectualRights }; - - emlRoot.dataset.contact = {}; - if (project.coordinator_public) { - emlRoot.dataset.contact = { - individualName: { givenName: project.coordinator_first_name, surName: project.coordinator_last_name }, - electronicMailAddress: project.coordinator_email_address - }; - } else { - emlRoot.dataset.contact = { organizationName: organizationFullName, onlineUrl: organizationURL }; - } - - // both projects and surveys are represented as "projects" in EML - // main EML "project" is the survey - emlRoot.dataset.project = { $: { id: survey.uuid, system: simsProviderURL }, title: survey.name }; - if (project.coordinator_public) { - emlRoot.dataset.project.personnel = { - individualName: { givenName: survey.lead_first_name, surName: survey.lead_last_name }, - organizationName: project.coordinator_agency_name, - role: 'pointOfContact' - }; - } else { - emlRoot.dataset.project.personnel = { - organizationName: organizationFullName, - onlineUrl: organizationURL, - role: 'custodianSteward' - }; - } - - emlRoot.dataset.project.abstract = { section: { title: 'Objectives', para: survey.objectives } }; - - if (surveyFundingSource.length) { - emlRoot.dataset.project.funding = getFundingEML(surveyFundingSource); - } - - emlRoot.dataset.project.studyAreaDescription = { coverage: {} }; - const surveyGeographicDescription = survey.location_description - ? survey.location_name + ' - ' + survey.location_description - : survey.location_name; - emlRoot.dataset.project.studyAreaDescription.coverage.geographicCoverage = getGeographicCoverageEML( - surveyGeographicDescription, - surveyBoundingBox, - surveyPolygons - ); - - emlRoot.dataset.project.studyAreaDescription.coverage.temporalCoverage = getTemporalCoverageEML(survey); - - emlRoot.dataset.project.studyAreaDescription.coverage.taxonomicCoverage = { taxonomicClassification: [] }; - focalTaxonomicCoverage.rows.forEach(function (row: any, i: number) { - emlRoot.dataset.project.studyAreaDescription.coverage.taxonomicCoverage.taxonomicClassification[i] = { - taxonRankName: row.tty_name, - taxonRankValue: row.unit_name1 + ' ' + row.unit_name2, - commonName: row.english_name, - taxonId: { $: { provider: taxonomicProviderURL }, _: row.code } - }; - }); - - emlRoot.dataset.project.relatedProject = { $: { id: project.uuid, system: simsProviderURL }, title: project.name }; - if (project.coordinator_public) { - emlRoot.dataset.project.relatedProject.personnel = { - individualName: { givenName: project.coordinator_first_name, surName: project.coordinator_last_name }, - organizationName: project.coordinator_agency_name, - electronicMailAddress: project.coordinator_email_address, - role: 'pointOfContact' - }; - } else { - emlRoot.dataset.project.relatedProject.personnel = { - organizationName: organizationFullName, - onlineUrl: organizationURL, - role: 'custodianSteward' - }; - } - - emlRoot.dataset.project.relatedProject.abstract = { - section: [ - { title: 'Objectives', para: project.objectives }, - { title: 'Caveats', para: project.caveats }, - { title: 'Comments', para: project.comments } - ] - }; - - if (projectFundingSource.length) { - emlRoot.dataset.project.relatedProject.funding = getFundingEML(projectFundingSource); - } - - emlRoot.dataset.project.relatedProject.studyAreaDescription = { coverage: {} }; - emlRoot.dataset.project.relatedProject.studyAreaDescription.coverage.geographicCoverage = getGeographicCoverageEML( - checkProvided(project.location_description), - projectBoundingBox, - projectPolygons - ); - - emlRoot.additionalMetadata = []; - let additionalMetadataCount = 0; - emlRoot.additionalMetadata[additionalMetadataCount] = { - describes: dataPackage.uuid, - metadata: { simsEML: { type: 'survey', version: simsEmlVersion } } - }; - - if (projectIucnConservation.rowCount) { - additionalMetadataCount++; - emlRoot.additionalMetadata[additionalMetadataCount] = { - describes: project.uuid, - metadata: { IUCNConservationActions: { IUCNConservationAction: [] } } - }; - projectIucnConservation.rows.forEach(function (row: any, i: number) { - emlRoot.additionalMetadata[additionalMetadataCount].metadata.IUCNConservationActions.IUCNConservationAction[i] = { - IUCNConservationActionLevel1Classification: row.level_1_name, - IUCNConservationActionLevel2SubClassification: row.level_2_name, - IUCNConservationActionLevel3SubClassification: row.level_3_name - }; - }); - } - - if (projectStakeholderPartnership.rowCount) { - additionalMetadataCount++; - emlRoot.additionalMetadata[additionalMetadataCount] = { - describes: project.uuid, - metadata: { stakeholderPartnerships: { stakeholderPartnership: [] } } - }; - projectStakeholderPartnership.rows.forEach(function (row: any, i: number) { - emlRoot.additionalMetadata[additionalMetadataCount].metadata.stakeholderPartnerships.stakeholderPartnership[i] = { - name: row.name - }; - }); - } - - if (projectActivity.rowCount) { - additionalMetadataCount++; - emlRoot.additionalMetadata[additionalMetadataCount] = { - describes: project.uuid, - metadata: { projectActivities: { projectActivity: [] } } - }; - projectActivity.rows.forEach(function (row: any, i: number) { - emlRoot.additionalMetadata[additionalMetadataCount].metadata.projectActivities.projectActivity[i] = { - name: row.name - }; - }); - } - - if (projectClimateInitiative.rowCount) { - additionalMetadataCount++; - emlRoot.additionalMetadata[additionalMetadataCount] = { - describes: project.uuid, - metadata: { climateChangeInitiatives: { climateChangeInitiative: [] } } - }; - projectClimateInitiative.rows.forEach(function (row: any, i: number) { - emlRoot.additionalMetadata[additionalMetadataCount].metadata.climateChangeInitiatives.climateChangeInitiative[ - i - ] = { - name: row.name - }; - }); - } - - if (projectFirstNations.rowCount) { - additionalMetadataCount++; - emlRoot.additionalMetadata[additionalMetadataCount] = { - describes: project.uuid, - metadata: { firstNations: { firstNation: [] } } - }; - projectFirstNations.rows.forEach(function (row: any, i: number) { - emlRoot.additionalMetadata[additionalMetadataCount].metadata.firstNations.firstNation[i] = { - name: row.name - }; - }); - } - - if (projectManagementActions.rowCount) { - additionalMetadataCount++; - emlRoot.additionalMetadata[additionalMetadataCount] = { - describes: project.uuid, - metadata: { managementActionTypes: { managementActionType: [] } } - }; - projectManagementActions.rows.forEach(function (row: any, i: number) { - emlRoot.additionalMetadata[additionalMetadataCount].metadata.managementActionTypes.managementActionType[i] = { - name: row.name - }; - }); - } - - if (surveyProprietor.rowCount) { - additionalMetadataCount++; - emlRoot.additionalMetadata[additionalMetadataCount] = { - describes: project.uuid, - metadata: { surveyProprietors: { surveyProprietor: [] } } - }; - surveyProprietor.rows.forEach(function (row: any, i: number) { - emlRoot.additionalMetadata[additionalMetadataCount].metadata.surveyProprietors.surveyProprietor[i] = { - firstNationsName: row.first_nations_name, - proprietorType: row.proprietor_type_name, - rationale: row.rationale, - proprietorName: row.proprietor_name, - DISARequired: row.disa_required ? 'YES' : 'NO' - }; - }); - } - - // convert object to xml - const builder = new xml2js.Builder(); - return builder.buildObject(eml); -}; - -/** - * Return temporal coverage eml. - * - * @param {*} projectRow - * @return {Eml} - */ -const getTemporalCoverageEML = (projectRow: any): Eml => { - const temporalCoverage: Eml = { - rangeOfDates: { beginDate: { calendarDate: projectRow.start_date }, endDate: { calendarDate: projectRow.end_date } } - }; - - return temporalCoverage; -}; - -/** - * Return geographic coverage eml. - * - * @param {string} geographicDescription - * @param {BoundingBox} boundingBox - * @param {*} polygonRows - * @return {Eml} - */ -const getGeographicCoverageEML = (geographicDescription: string, boundingBox: any, polygonRows: any): Eml => { - const geographicCoverage: Eml = { - geographicDescription: geographicDescription, - boundingCoordinates: { - westBoundingCoordinate: boundingBox.st_xmin, - eastBoundingCoordinate: boundingBox.st_xmax, - northBoundingCoordinate: boundingBox.st_ymax, - southBoundingCoordinate: boundingBox.st_ymin - } - }; - geographicCoverage.datasetGPolygon = []; - polygonRows.rows.forEach(function (row: any, i: number) { - geographicCoverage.datasetGPolygon[i] = { datasetGPolygonOuterGRing: { gRingPoint: [] } }; - row.points.forEach(function (point: any, g: number) { - geographicCoverage.datasetGPolygon[i].datasetGPolygonOuterGRing.gRingPoint[g] = { - gRingLatitude: point[0], - gRingLongitude: point[1] - }; - }); - }); - - return geographicCoverage; -}; - -/** - * Return funding source eml. - * - * @param {any[]} fundingSourceRows - * @return {Eml} - */ -const getFundingEML = (fundingSourceRows: any[]): Eml => { - const funding: Eml = { section: [] }; - - fundingSourceRows.forEach(function (row: any, i: number) { - funding.section[i] = { title: 'Funding Source', para: row.funding_source_name }; - funding.section[i].section = { - title: 'Investment Action Category', - para: row.investment_action_category_name, - section: [ - { title: 'Funding Source Project ID', para: row.funding_source_project_id }, - { title: 'Funding Amount', para: row.funding_amount }, - { title: 'Funding Start Date', para: new Date(row.funding_start_date).toISOString().split('T')[0] }, - { title: 'Funding End Date', para: new Date(row.funding_end_date).toISOString().split('T')[0] } - ] - }; - }); - - return funding; -}; - -type StringIfNull = T extends null | undefined ? string : T; - -/** - * Return default message if value not provided. - * - * @param {string} valueToCheck - * @param {IDBConnection} connection - * @return {string | number} - */ -const checkProvided = (valueToCheck: T): StringIfNull => { - // the EML specification requires all fields have values - // fail gracefully by providing standard message that data is not supplied - const notSuppliedMessage = 'Not Supplied'; - - if (valueToCheck === null) { - return notSuppliedMessage as StringIfNull; - } - - return valueToCheck as StringIfNull; -}; - -/** - * Get occurrence submission record associated with data package ID. - * - * @param {number} data_package_id - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getSurveyOccurrenceSubmission = async (dataPackageId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getSurveyOccurrenceSubmissionSQL(dataPackageId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response || response.rowCount != 1) { - throw new HTTP400('Failed to acquire distinct survey occurrence submission record'); - } - - return response.rows[0]; -}; - -/** - * Get data package record associated with data package ID. - * - * @param {number} data_package_id - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getDataPackage = async (dataPackageId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getDataPackageSQL(dataPackageId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response || !response.rowCount) { - throw new HTTP400('Failed to acquire data package record'); - } - - return response.rows[0]; -}; - -/** - * Get published survey status. - * - * @param {number} data_package_id - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getPublishedSurveyStatus = async ( - occurrenceSubmissionId: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.dwc.getPublishedSurveyStatusSQL(occurrenceSubmissionId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get survey record. - * - * @param {number} surveyId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getSurvey = async (surveyId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getSurveySQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return (await connection.query(sqlStatement.text, sqlStatement.values)).rows[0]; -}; - -/** - * Get project record. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProject = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getProjectSQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return (await connection.query(sqlStatement.text, sqlStatement.values)).rows[0]; -}; - -/** - * Get survey funding source records. - * - * @param {number} surveyId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getSurveyFundingSource = async (surveyId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getSurveyFundingSourceSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return (await connection.query(sqlStatement.text, sqlStatement.values)).rows; -}; - -/** - * Get project funding source records. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProjectFundingSource = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getProjectFundingSourceSQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return (await connection.query(sqlStatement.text, sqlStatement.values)).rows; -}; - -/** - * Get survey bounding box. - * - * @param {number} surveyId - * @param {IDBConnection} connection - * @return {BoundingBox} {Promise} - */ -export const getSurveyBoundingBox = async (surveyId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getGeometryBoundingBoxSQL(surveyId, 'survey_id', 'survey'); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return (await connection.query(sqlStatement.text, sqlStatement.values)).rows[0]; -}; - -/** - * Get project bounding box. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {BoundingBox} {Promise} - */ -export const getProjectBoundingBox = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getGeometryBoundingBoxSQL(projectId, 'project_id', 'project'); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return (await connection.query(sqlStatement.text, sqlStatement.values)).rows[0]; -}; - -/** - * Get survey polygons. - * - * @param {number} surveyId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getSurveyPolygons = async (surveyId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getGeometryPolygonsSQL(surveyId, 'survey_id', 'survey'); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get project polygons. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProjectPolygons = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getGeometryPolygonsSQL(projectId, 'project_id', 'project'); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get focal taxonomic coverage. - * - * @param {number} surveyId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getFocalTaxonomicCoverage = async (surveyId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getTaxonomicCoverageSQL(surveyId, true); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get project IUCN conservation data. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProjectIucnConservation = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getProjectIucnConservationSQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get project stakeholder partnership data. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProjectStakeholderPartnership = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getProjectStakeholderPartnershipSQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get project activity data. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProjectActivity = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getProjectActivitySQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get project climate initiative data. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProjectClimateInitiative = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getProjectClimateInitiativeSQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get project first nations data. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProjectFirstNations = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getProjectFirstNationsSQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get project management action data. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getProjectManagementActions = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getProjectManagementActionsSQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; - -/** - * Get project survey proprietor data. - * - * @param {number} projectId - * @param {IDBConnection} connection - * @return {*} {Promise} - */ -export const getSurveyProprietor = async (projectId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.dwc.getSurveyProprietorSQL(projectId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - return connection.query(sqlStatement.text, sqlStatement.values); -}; diff --git a/api/src/paths/dwc/scrape-occurrences.ts b/api/src/paths/dwc/scrape-occurrences.ts index 3997da799c..ac9ef5a07c 100644 --- a/api/src/paths/dwc/scrape-occurrences.ts +++ b/api/src/paths/dwc/scrape-occurrences.ts @@ -63,7 +63,24 @@ POST.apiDoc = { }, responses: { 200: { - description: 'Successfully scraped and uploaded occurrence information.' + description: 'Successfully scraped and uploaded occurrence information.', + content: { + 'application/json': { + schema: { + type: 'object', + required: ['status'], + properties: { + status: { + type: 'string', + enum: ['success', 'failed'] + }, + reason: { + type: 'string' + } + } + } + } + } }, 400: { $ref: '#/components/responses/400' diff --git a/api/src/paths/dwc/validate.ts b/api/src/paths/dwc/validate.ts index f6cfb3d2c3..d16c9e7a3e 100644 --- a/api/src/paths/dwc/validate.ts +++ b/api/src/paths/dwc/validate.ts @@ -405,7 +405,7 @@ export function persistValidationResults(statusTypeObject: any): RequestHandler }; } -function updateOccurrenceSubmission(): RequestHandler { +export function updateOccurrenceSubmission(): RequestHandler { return async (req, res, next) => { defaultLog.debug({ label: 'updateOccurrenceSubmission', message: 'Update output file name and output key' }); diff --git a/api/src/paths/project/{projectId}/attachments/list.test.ts b/api/src/paths/project/{projectId}/attachments/list.test.ts index 2eb4b71163..69b39fac03 100644 --- a/api/src/paths/project/{projectId}/attachments/list.test.ts +++ b/api/src/paths/project/{projectId}/attachments/list.test.ts @@ -105,26 +105,25 @@ describe('lists the project attachments', () => { await result(sampleReq, sampleRes as any, (null as unknown) as any); - expect(actualResult).to.be.eql({ - attachmentsList: [ - { - fileName: 'name1', - fileType: 'type', - id: 13, - lastModified: '2020-01-01', - size: 50, - securityToken: 'token123' - }, - { - fileName: 'name2', - fileType: 'Report', - id: 134, - lastModified: '2020-01-01', - size: 50, - securityToken: 'token123' - } - ] - }); + expect(actualResult).to.be.an('object'); + expect(actualResult).to.have.property('attachmentsList'); + + expect(actualResult.attachmentsList).to.be.an('array'); + expect(actualResult.attachmentsList).to.have.length(2); + + expect(actualResult.attachmentsList[0].fileName).to.equal('name1'); + expect(actualResult.attachmentsList[0].fileType).to.equal('type'); + expect(actualResult.attachmentsList[0].id).to.equal(13); + expect(actualResult.attachmentsList[0].lastModified).to.match(new RegExp('2020-01-01T.*')); + expect(actualResult.attachmentsList[0].size).to.equal(50); + expect(actualResult.attachmentsList[0].securityToken).to.equal('token123'); + + expect(actualResult.attachmentsList[1].fileName).to.equal('name2'); + expect(actualResult.attachmentsList[1].fileType).to.equal('Report'); + expect(actualResult.attachmentsList[1].id).to.equal(134); + expect(actualResult.attachmentsList[1].lastModified).to.match(new RegExp('2020-01-01T.*')); + expect(actualResult.attachmentsList[1].size).to.equal(50); + expect(actualResult.attachmentsList[1].securityToken).to.equal('token123'); }); it('should return a list of project attachments where the lastModified is the update_date', async () => { @@ -173,26 +172,25 @@ describe('lists the project attachments', () => { await result(sampleReq, sampleRes as any, (null as unknown) as any); - expect(actualResult).to.be.eql({ - attachmentsList: [ - { - fileName: 'name1', - fileType: 'type', - id: 13, - lastModified: '2020-01-02', - size: 50, - securityToken: 'token123' - }, - { - fileName: 'name2', - fileType: 'Report', - id: 134, - lastModified: '2020-01-02', - size: 50, - securityToken: 'token123' - } - ] - }); + expect(actualResult).to.be.an('object'); + expect(actualResult).to.have.property('attachmentsList'); + + expect(actualResult.attachmentsList).to.be.an('array'); + expect(actualResult.attachmentsList).to.have.length(2); + + expect(actualResult.attachmentsList[0].fileName).to.equal('name1'); + expect(actualResult.attachmentsList[0].fileType).to.equal('type'); + expect(actualResult.attachmentsList[0].id).to.equal(13); + expect(actualResult.attachmentsList[0].lastModified).to.match(new RegExp('2020-01-02T.*')); + expect(actualResult.attachmentsList[0].size).to.equal(50); + expect(actualResult.attachmentsList[0].securityToken).to.equal('token123'); + + expect(actualResult.attachmentsList[1].fileName).to.equal('name2'); + expect(actualResult.attachmentsList[1].fileType).to.equal('Report'); + expect(actualResult.attachmentsList[1].id).to.equal(134); + expect(actualResult.attachmentsList[1].lastModified).to.match(new RegExp('2020-01-02T.*')); + expect(actualResult.attachmentsList[1].size).to.equal(50); + expect(actualResult.attachmentsList[1].securityToken).to.equal('token123'); }); it('should return null if the project has no attachments, on success', async () => { diff --git a/api/src/paths/project/{projectId}/delete.test.ts b/api/src/paths/project/{projectId}/delete.test.ts index 94cf75266a..69e3571468 100644 --- a/api/src/paths/project/{projectId}/delete.test.ts +++ b/api/src/paths/project/{projectId}/delete.test.ts @@ -176,38 +176,6 @@ describe('deleteProject', () => { } }); - it('should throw a 400 error when no sql statement returned for getSurveyIdsSQL', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: async () => { - return { - rowCount: 1, - rows: [ - { - id: 1 - } - ] - } as QueryResult; - } - }); - - sinon.stub(project_queries, 'getProjectAttachmentsSQL').returns(SQL`some nice query`); - sinon.stub(survey_queries, 'getSurveyIdsSQL').returns(null); - - try { - const result = delete_project.deleteProject(); - - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL get statement'); - } - }); - it('should throw a 400 error when failed to get result for project attachments', async () => { const mockQuery = sinon.stub(); diff --git a/api/src/paths/project/{projectId}/survey/create.test.ts b/api/src/paths/project/{projectId}/survey/create.test.ts index 1b8e3e992d..a9bc40e934 100644 --- a/api/src/paths/project/{projectId}/survey/create.test.ts +++ b/api/src/paths/project/{projectId}/survey/create.test.ts @@ -2,673 +2,66 @@ import chai, { expect } from 'chai'; import { describe } from 'mocha'; import sinon from 'sinon'; import sinonChai from 'sinon-chai'; -import SQL from 'sql-template-strings'; import * as db from '../../../../database/db'; import { HTTPError } from '../../../../errors/custom-error'; -import survey_queries from '../../../../queries/survey'; -import { getMockDBConnection } from '../../../../__mocks__/db'; -import * as create from './create'; +import { SurveyService } from '../../../../services/survey-service'; +import { getMockDBConnection, getRequestHandlerMocks } from '../../../../__mocks__/db'; +import { createSurvey } from './create'; chai.use(sinonChai); -describe('createSurvey', () => { - afterEach(() => { - sinon.restore(); - }); - - const dbConnectionObj = getMockDBConnection(); - - const sampleReq = { - keycloak_token: {}, - body: { - biologist_first_name: 'Roanna', - biologist_last_name: 'Brown', - category_rationale: 'rationale', - data_sharing_agreement_required: 'false', - end_date: '2080-12-30', - first_nations_id: 0, - foippa_requirements_accepted: true, - sedis_procedures_accepted: true, - proprietary_data_category: 1, - proprietor_name: 'test name', - focal_species: [], - ancillary_species: [], - start_date: '1925-12-23', - survey_area_name: 'Armand French', - survey_data_proprietary: 'true', - survey_name: 'Odysseus Noel', - survey_purpose: 'Sint temporibus aut' - }, - params: { - projectId: 1 - } - } as any; - - let actualResult: any = null; - - const sampleRes = { - status: () => { - return { - json: (result: any) => { - actualResult = result; - } - }; - } - }; - - it('should throw an error when projectId is missing', async () => { - sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - - try { - const result = create.createSurvey(); - - await result( - { ...sampleReq, params: { ...sampleReq.params, projectId: null } }, - (null as unknown) as any, - (null as unknown) as any - ); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Missing required path param `projectId`'); - } - }); - - it('should throw a 400 error when no request body present', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - try { - const result = create.createSurvey(); - - await result({ ...sampleReq, body: null }, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Missing survey data'); - } - }); - - it('should throw a 400 error when no sql statement returned for postSurveySQL', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - sinon.stub(survey_queries, 'postSurveySQL').returns(null); - - try { - const result = create.createSurvey(); - - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build survey SQL insert statement'); - } - }); - - it('should throw a 400 error when the create survey fails because result has no id', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: null }] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`some query`); - - try { - const result = create.createSurvey(); - - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert survey data'); - } - }); - - it('should throw a 400 error when the create survey fails because result has no rows', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: null }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`some query`); - - try { - const result = create.createSurvey(); - - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert survey data'); - } - }); - - it('should throw a 400 error when no sql statement returned for postSurveyProprietorSQL', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: 1 }] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`something`); - sinon.stub(survey_queries, 'postSurveyProprietorSQL').returns(null); - - try { - const result = create.createSurvey(); - - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL insert statement'); - } - }); - - it('should return the survey id on success (no proprietary data and no permit number)', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: 23 }] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`something`); - - const result = create.createSurvey(); - - await result( - { ...sampleReq, body: { ...sampleReq.body, survey_data_proprietary: 'false' } }, - sampleRes as any, - (null as unknown) as any - ); - - expect(actualResult).to.eql({ - id: 23 - }); - }); - - it('should return the survey id on success (no proprietary data and permit number and funding sources)', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: 23 }] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery +describe('survey/create', () => { + describe('createSurvey', () => { + afterEach(() => { + sinon.restore(); }); - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`something`); - sinon.stub(create, 'insertSurveyPermit').resolves(); - sinon.stub(create, 'insertSurveyFundingSource').resolves(); + it('creates a survey', async () => { + const dbConnectionObj = getMockDBConnection(); - const result = create.createSurvey(); + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - await result( - { - ...sampleReq, - body: { ...sampleReq.body, survey_data_proprietary: 'false', permit_number: '123', funding_sources: [1, 2] } - }, - sampleRes as any, - (null as unknown) as any - ); + sinon.stub(SurveyService.prototype, 'createSurvey').resolves(2); - expect(actualResult).to.eql({ - id: 23 - }); - }); - - it('should return the survey id on success with focal and ancillary species (no proprietary data)', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: 23 }] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`something`); - sinon.stub(create, 'insertFocalSpecies').resolves(1); - sinon.stub(create, 'insertAncillarySpecies').resolves(1); - - const result = create.createSurvey(); - - await result( - { - ...sampleReq, - body: { - ...sampleReq.body, - survey_data_proprietary: 'false', - focal_species: ['species 1'], - ancillary_species: ['ancill1'] - } - }, - sampleRes as any, - (null as unknown) as any - ); - - expect(actualResult).to.eql({ - id: 23 - }); - }); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - it('should return the survey id on success (with proprietary data)', async () => { - const mockQuery = sinon.stub(); + mockReq.params = { projectId: '1' }; + mockReq.body = {}; - mockQuery - .onFirstCall() - .resolves({ rows: [{ id: 23 }] }) - .onSecondCall() - .resolves({ rows: [{ id: 23 }] }); + try { + const requestHandler = createSurvey(); - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`something`); - sinon.stub(survey_queries, 'postSurveyProprietorSQL').returns(SQL`something else`); - - const result = create.createSurvey(); - - await result(sampleReq, sampleRes as any, (null as unknown) as any); - - expect(actualResult).to.eql({ - id: 23 - }); - }); - - it('should throw a 400 error when the create survey fails because survey proprietor result has no id', async () => { - const mockQuery = sinon.stub(); - - mockQuery - .onFirstCall() - .resolves({ rows: [{ id: 23 }] }) - .onSecondCall() - .resolves({ rows: [{ id: null }] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`some query`); - sinon.stub(survey_queries, 'postSurveyProprietorSQL').returns(SQL`something else`); - - try { - const result = create.createSurvey(); - - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert survey proprietor data'); - } - }); - - it('should throw a 400 error when the create survey fails because survey proprietor result has no rows', async () => { - const mockQuery = sinon.stub(); - - mockQuery - .onFirstCall() - .resolves({ rows: [{ id: 23 }] }) - .onSecondCall() - .resolves({ rows: null }); + await requestHandler(mockReq, mockRes, mockNext); + } catch (actualError) { + expect.fail(); + } - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery + expect(mockRes.statusValue).to.equal(200); + expect(mockRes.jsonValue).to.eql({ id: 2 }); }); - sinon.stub(survey_queries, 'postSurveySQL').returns(SQL`some query`); - sinon.stub(survey_queries, 'postSurveyProprietorSQL').returns(SQL`something else`); + it('catches and re-throws error', async () => { + const dbConnectionObj = getMockDBConnection({ release: sinon.stub() }); - try { - const result = create.createSurvey(); + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert survey proprietor data'); - } - }); -}); + sinon.stub(SurveyService.prototype, 'createSurvey').rejects(new Error('a test error')); -describe('insertFocalSpecies', () => { - afterEach(() => { - sinon.restore(); - }); - - const dbConnectionObj = getMockDBConnection({ - systemUserId: () => { - return 20; - } - }); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - const focalSpeciesId = 1; - const surveyId = 2; + mockReq.params = { projectId: '1' }; + mockReq.body = {}; - it('should throw an error when cannot generate post sql statement', async () => { - sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); + try { + const requestHandler = createSurvey(); - sinon.stub(survey_queries, 'postFocalSpeciesSQL').returns(null); + await requestHandler(mockReq, mockRes, mockNext); + expect.fail(); + } catch (actualError) { + expect(dbConnectionObj.release).to.have.been.called; - try { - await create.insertFocalSpecies(focalSpeciesId, surveyId, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL insert statement'); - } - }); - - it('should throw a HTTP 400 error when failed to insert focal species data cause result is null', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [null] }); - - sinon.stub(survey_queries, 'postFocalSpeciesSQL').returns(SQL`some`); - - try { - await create.insertFocalSpecies(focalSpeciesId, surveyId, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert focal species data'); - } - }); - - it('should throw a HTTP 400 error when failed to insert focal species data cause result id is null', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: null }] }); - - sinon.stub(survey_queries, 'postFocalSpeciesSQL').returns(SQL`some`); - - try { - await create.insertFocalSpecies(focalSpeciesId, surveyId, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert focal species data'); - } - }); - - it('should return the result id on success', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: 12 }] }); - - sinon.stub(survey_queries, 'postFocalSpeciesSQL').returns(SQL`some`); - - const res = await create.insertFocalSpecies(focalSpeciesId, surveyId, { ...dbConnectionObj, query: mockQuery }); - - expect(res).to.equal(12); - }); -}); - -describe('insertAncillarySpecies', () => { - afterEach(() => { - sinon.restore(); - }); - - const dbConnectionObj = getMockDBConnection({ - systemUserId: () => { - return 20; - } - }); - - const ancillarySpeciesId = 1; - const surveyId = 2; - - it('should throw an error when cannot generate post sql statement', async () => { - sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - - sinon.stub(survey_queries, 'postAncillarySpeciesSQL').returns(null); - - try { - await create.insertAncillarySpecies(ancillarySpeciesId, surveyId, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL insert statement'); - } - }); - - it('should throw a HTTP 400 error when failed to insert ancillary species data cause result is null', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [null] }); - - sinon.stub(survey_queries, 'postAncillarySpeciesSQL').returns(SQL`some`); - - try { - await create.insertAncillarySpecies(ancillarySpeciesId, surveyId, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert ancillary species data'); - } - }); - - it('should throw a HTTP 400 error when failed to insert ancillary species data cause result id is null', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: null }] }); - - sinon.stub(survey_queries, 'postAncillarySpeciesSQL').returns(SQL`some`); - - try { - await create.insertAncillarySpecies(ancillarySpeciesId, surveyId, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert ancillary species data'); - } - }); - - it('should return the result id on success', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [{ id: 12 }] }); - - sinon.stub(survey_queries, 'postAncillarySpeciesSQL').returns(SQL`some`); - - const res = await create.insertAncillarySpecies(ancillarySpeciesId, surveyId, { - ...dbConnectionObj, - query: mockQuery + expect((actualError as HTTPError).message).to.equal('a test error'); + } }); - - expect(res).to.equal(12); - }); -}); - -describe('insertSurveyPermit', () => { - afterEach(() => { - sinon.restore(); - }); - - const dbConnectionObj = getMockDBConnection({ - systemUserId: () => { - return 20; - } - }); - - const permitNumber = '123'; - const projectId = 1; - const surveyId = 2; - - it('should throw an error when cannot generate post sql statement', async () => { - sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - - sinon.stub(survey_queries, 'postNewSurveyPermitSQL').returns(null); - - try { - await create.insertSurveyPermit(permitNumber, 'type', projectId, surveyId, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement for insertSurveyPermit'); - } - }); - - it('should throw an error when cannot generate put sql statement', async () => { - sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - - sinon.stub(survey_queries, 'putNewSurveyPermitNumberSQL').returns(null); - - try { - await create.insertSurveyPermit(permitNumber, null, projectId, surveyId, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement for insertSurveyPermit'); - } - }); - - it('should throw a HTTP 400 error when failed to post survey permit data cause result is null', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves(null); - - sinon.stub(survey_queries, 'postNewSurveyPermitSQL').returns(SQL`some`); - - try { - await create.insertSurveyPermit(permitNumber, 'type', projectId, surveyId, { - ...dbConnectionObj, - query: mockQuery - }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert survey permit number data'); - } - }); - - it('should throw a HTTP 400 error when failed to put survey permit data cause result is null', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves(null); - - sinon.stub(survey_queries, 'putNewSurveyPermitNumberSQL').returns(SQL`some`); - - try { - await create.insertSurveyPermit(permitNumber, null, projectId, surveyId, { - ...dbConnectionObj, - query: mockQuery - }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert survey permit number data'); - } - }); -}); - -describe('insertSurveyFundingSource', () => { - afterEach(() => { - sinon.restore(); - }); - - const dbConnectionObj = getMockDBConnection({ - systemUserId: () => { - return 20; - } - }); - const fundingSourceId = 1; - const surveyId = 2; - - it('should throw an error when cannot generate sql statement', async () => { - sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - - sinon.stub(survey_queries, 'insertSurveyFundingSourceSQL').returns(null); - - try { - await create.insertSurveyFundingSource(fundingSourceId, surveyId, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal( - 'Failed to build SQL statement for insertSurveyFundingSource' - ); - } - }); - - it('should throw a HTTP 400 error when failed to post survey permit data cause result is null', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves(null); - - sinon.stub(survey_queries, 'insertSurveyFundingSourceSQL').returns(SQL`something`); - - try { - await create.insertSurveyFundingSource(fundingSourceId, surveyId, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to insert survey funding source data'); - } }); }); diff --git a/api/src/paths/project/{projectId}/survey/create.ts b/api/src/paths/project/{projectId}/survey/create.ts index 38ad68e901..750c952ddf 100644 --- a/api/src/paths/project/{projectId}/survey/create.ts +++ b/api/src/paths/project/{projectId}/survey/create.ts @@ -1,11 +1,11 @@ import { RequestHandler } from 'express'; import { Operation } from 'express-openapi'; import { PROJECT_ROLE } from '../../../../constants/roles'; -import { getDBConnection, IDBConnection } from '../../../../database/db'; -import { HTTP400 } from '../../../../errors/custom-error'; -import { PostSurveyObject, PostSurveyProprietorData } from '../../../../models/survey-create'; -import { queries } from '../../../../queries/queries'; +import { getDBConnection } from '../../../../database/db'; +import { PostSurveyObject } from '../../../../models/survey-create'; +import { geoJsonFeature } from '../../../../openapi/schemas/geoJson'; import { authorizeRequestHandler } from '../../../../request-handlers/security/authorization'; +import { SurveyService } from '../../../../services/survey-service'; import { getLogger } from '../../../../utils/logger'; const defaultLog = getLogger('paths/project/{projectId}/survey/create'); @@ -33,6 +33,17 @@ POST.apiDoc = { Bearer: [] } ], + parameters: [ + { + in: 'path', + name: 'projectId', + schema: { + type: 'number', + minimum: 1 + }, + required: true + } + ], requestBody: { description: 'Survey post request object.', content: { @@ -41,121 +52,159 @@ POST.apiDoc = { title: 'SurveyProject post request object', type: 'object', required: [ - 'survey_name', - 'start_date', - 'end_date', - 'focal_species', - 'ancillary_species', - 'intended_outcome_id', - 'additional_details', - 'field_method_id', - 'vantage_code_ids', - 'ecological_season_id', - 'biologist_first_name', - 'biologist_last_name', - 'survey_area_name', - 'survey_data_proprietary', - 'foippa_requirements_accepted', - 'sedis_procedures_accepted' + 'survey_details', + 'species', + 'permit', + 'funding', + 'proprietor', + 'purpose_and_methodology', + 'location', + 'agreements' ], properties: { - survey_name: { - type: 'string' - }, - start_date: { - type: 'string', - description: 'ISO 8601 date string' - }, - end_date: { - type: 'string', - description: 'ISO 8601 date string' - }, - focal_species: { - type: 'array', - items: { - type: 'number' - }, - description: 'Selected focal species ids' - }, - ancillary_species: { - type: 'array', - items: { - type: 'number' - }, - description: 'Selected ancillary species ids' - }, - intended_outcome_id: { - type: 'number' - }, - additional_details: { - type: 'string' - }, - field_method_id: { - type: 'number' - }, - vantage_code_ids: { - type: 'array', - items: { - type: 'number' + survey_details: { + type: 'object', + properties: { + survey_name: { + type: 'string' + }, + start_date: { + type: 'string', + description: 'ISO 8601 date string' + }, + end_date: { + type: 'string', + description: 'ISO 8601 date string' + }, + biologist_first_name: { + type: 'string' + }, + biologist_last_name: { + type: 'string' + } } }, - ecological_season_id: { - type: 'number' - }, - surveyed_all_areas: { - type: 'string', - enum: ['true', 'false'] - }, - biologist_first_name: { - type: 'string' - }, - biologist_last_name: { - type: 'string' - }, - survey_area_name: { - type: 'string' - }, - survey_data_proprietary: { - type: 'string' - }, - proprietary_data_category: { - type: 'number' - }, - proprietor_name: { - type: 'string' - }, - category_rationale: { - type: 'string' - }, - first_nations_id: { - type: 'number' + species: { + type: 'object', + properties: { + focal_species: { + type: 'array', + items: { + type: 'number' + }, + description: 'Selected focal species ids' + }, + ancillary_species: { + type: 'array', + items: { + type: 'number' + }, + description: 'Selected ancillary species ids' + } + } }, - data_sharing_agreement_required: { - type: 'string' + permit: { + type: 'object', + properties: { + permit_number: { + type: 'string' + }, + permit_type: { + type: 'string' + } + } }, - foippa_requirements_accepted: { - type: 'boolean', - enum: [true], - description: - 'Data meets or exceeds the Freedom of Information and Protection of Privacy Act (FOIPPA) Requirements' + funding: { + type: 'object', + properties: { + funding_sources: { + type: 'array', + items: { + type: 'integer' + } + } + } }, - sedis_procedures_accepted: { - type: 'boolean', - enum: [true], - description: - 'Data is in accordance with the Species and Ecosystems Data and Information Security (SEDIS) Procedures' + proprietor: { + type: 'object', + properties: { + survey_data_proprietary: { + type: 'string' + }, + proprietary_data_category: { + type: 'number' + }, + proprietor_name: { + type: 'string' + }, + category_rationale: { + type: 'string' + }, + first_nations_id: { + type: 'number' + }, + disa_required: { + type: 'string' + } + } }, - funding_sources: { - type: 'array', - items: { - type: 'number' + purpose_and_methodology: { + type: 'object', + properties: { + intended_outcome_id: { + type: 'number' + }, + additional_details: { + type: 'string' + }, + field_method_id: { + type: 'number' + }, + vantage_code_ids: { + type: 'array', + items: { + type: 'number' + } + }, + ecological_season_id: { + type: 'number' + }, + surveyed_all_areas: { + type: 'string', + enum: ['true', 'false'] + } } }, - permit_number: { - type: 'string' + location: { + type: 'object', + properties: { + survey_area_name: { + type: 'string' + }, + geometry: { + type: 'array', + items: { + ...(geoJsonFeature as object) + } + } + } }, - permit_type: { - type: 'string' + agreements: { + type: 'object', + properties: { + foippa_requirements_accepted: { + type: 'boolean', + enum: [true], + description: + 'Data meets or exceeds the Freedom of Information and Protection of Privacy Act (FOIPPA) Requirements' + }, + sedis_procedures_accepted: { + type: 'boolean', + enum: [true], + description: + 'Data is in accordance with the Species and Ecosystems Data and Information Security (SEDIS) Procedures' + } + } } } } @@ -198,255 +247,30 @@ POST.apiDoc = { } }; -/** - * Creates a new survey record. - * - * @returns {RequestHandler} - */ export function createSurvey(): RequestHandler { return async (req, res) => { - defaultLog.debug({ - label: 'Add a survey to a project', - message: 'params and body', - 'req.params': req.params, - 'req.body': req.body - }); + const projectId = Number(req.params.projectId); - if (!req.params.projectId) { - throw new HTTP400('Missing required path param `projectId`'); - } + const sanitizedPostSurveyData = new PostSurveyObject(req.body); - const projectId = Number(req.params.projectId); const connection = getDBConnection(req['keycloak_token']); - const sanitizedPostSurveyData = (req.body && new PostSurveyObject(req.body)) || null; - - if (!sanitizedPostSurveyData) { - throw new HTTP400('Missing survey data'); - } try { - const postSurveySQLStatement = queries.survey.postSurveySQL(projectId, sanitizedPostSurveyData); - - if (!postSurveySQLStatement) { - throw new HTTP400('Failed to build survey SQL insert statement'); - } - - let surveyId: number; + await connection.open(); - try { - await connection.open(); + const surveyService = new SurveyService(connection); - // Handle survey details - const createSurveyResponse = await connection.query(postSurveySQLStatement.text, postSurveySQLStatement.values); + const surveyId = await surveyService.createSurvey(projectId, sanitizedPostSurveyData); - const surveyResult = - (createSurveyResponse && createSurveyResponse.rows && createSurveyResponse.rows[0]) || null; - - if (!surveyResult || !surveyResult.id) { - throw new HTTP400('Failed to insert survey data'); - } - - surveyId = surveyResult.id; - - const promises: Promise[] = []; - - // Handle focal species associated to this survey - promises.push( - Promise.all( - sanitizedPostSurveyData.focal_species.map((speciesId: number) => - insertFocalSpecies(speciesId, surveyId, connection) - ) - ) - ); - - // Handle ancillary species associated to this survey - promises.push( - Promise.all( - sanitizedPostSurveyData.ancillary_species.map((speciesId: number) => - insertAncillarySpecies(speciesId, surveyId, connection) - ) - ) - ); - - // Handle inserting any permit associated to this survey - if (sanitizedPostSurveyData.permit_number) { - promises.push( - insertSurveyPermit( - sanitizedPostSurveyData.permit_number, - sanitizedPostSurveyData.permit_type, - projectId, - surveyId, - connection - ) - ); - } - - // Handle inserting any funding sources associated to this survey - promises.push( - Promise.all( - sanitizedPostSurveyData.funding_sources.map((fsId: number) => - insertSurveyFundingSource(fsId, surveyId, connection) - ) - ) - ); - - // Handle survey proprietor data - sanitizedPostSurveyData.survey_proprietor && - promises.push(insertSurveyProprietor(sanitizedPostSurveyData.survey_proprietor, surveyId, connection)); - - //Handle vantage codes associated to this survey - promises.push( - Promise.all( - sanitizedPostSurveyData.vantage_code_ids.map((vantageCode: number) => - insertVantageCodes(vantageCode, surveyId, connection) - ) - ) - ); - - await Promise.all(promises); - - await connection.commit(); - } catch (error) { - await connection.rollback(); - throw error; - } + await connection.commit(); return res.status(200).json({ id: surveyId }); } catch (error) { defaultLog.error({ label: 'createSurvey', message: 'error', error }); + await connection.rollback(); throw error; } finally { connection.release(); } }; } - -export const insertFocalSpecies = async ( - focal_species_id: number, - survey_id: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.postFocalSpeciesSQL(focal_species_id, survey_id); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL insert statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - const result = (response && response.rows && response.rows[0]) || null; - - if (!result || !result.id) { - throw new HTTP400('Failed to insert focal species data'); - } - - return result.id; -}; - -export const insertAncillarySpecies = async ( - ancillary_species_id: number, - survey_id: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.postAncillarySpeciesSQL(ancillary_species_id, survey_id); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL insert statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - const result = (response && response.rows && response.rows[0]) || null; - - if (!result || !result.id) { - throw new HTTP400('Failed to insert ancillary species data'); - } - - return result.id; -}; - -export const insertVantageCodes = async ( - vantage_code_id: number, - survey_id: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.postVantageCodesSQL(vantage_code_id, survey_id); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL insert statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - const result = (response && response.rows && response.rows[0]) || null; - - if (!result || !result.id) { - throw new HTTP400('Failed to insert ancillary species data'); - } - - return result.id; -}; - -export const insertSurveyProprietor = async ( - survey_proprietor: PostSurveyProprietorData, - survey_id: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.postSurveyProprietorSQL(survey_id, survey_proprietor); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL insert statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - const result = (response && response.rows && response.rows[0]) || null; - - if (!result || !result.id) { - throw new HTTP400('Failed to insert survey proprietor data'); - } - - return result.id; -}; - -export const insertSurveyPermit = async ( - permitNumber: string, - permitType: string | null, - projectId: number, - surveyId: number, - connection: IDBConnection -): Promise => { - let sqlStatement; - - if (!permitType) { - sqlStatement = queries.survey.putNewSurveyPermitNumberSQL(surveyId, permitNumber); - } else { - const systemUserId = connection.systemUserId(); - - sqlStatement = queries.survey.postNewSurveyPermitSQL(systemUserId, projectId, surveyId, permitNumber, permitType); - } - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement for insertSurveyPermit'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response) { - throw new HTTP400('Failed to insert survey permit number data'); - } -}; - -export const insertSurveyFundingSource = async ( - funding_source_id: number, - survey_id: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.insertSurveyFundingSourceSQL(survey_id, funding_source_id); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement for insertSurveyFundingSource'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response) { - throw new HTTP400('Failed to insert survey funding source data'); - } -}; diff --git a/api/src/paths/project/{projectId}/survey/funding-sources/list.test.ts b/api/src/paths/project/{projectId}/survey/funding-sources/list.test.ts index 5caff27bbb..67d5bd4121 100644 --- a/api/src/paths/project/{projectId}/survey/funding-sources/list.test.ts +++ b/api/src/paths/project/{projectId}/survey/funding-sources/list.test.ts @@ -2,12 +2,11 @@ import chai, { expect } from 'chai'; import { describe } from 'mocha'; import sinon from 'sinon'; import sinonChai from 'sinon-chai'; -import SQL from 'sql-template-strings'; import * as db from '../../../../../database/db'; import { HTTPError } from '../../../../../errors/custom-error'; -import project_queries from '../../../../../queries/project'; -import { getMockDBConnection } from '../../../../../__mocks__/db'; -import * as list from './list'; +import { ProjectService } from '../../../../../services/project-service'; +import { getMockDBConnection, getRequestHandlerMocks } from '../../../../../__mocks__/db'; +import { getSurveyFundingSources } from './list'; chai.use(sinonChai); @@ -16,135 +15,49 @@ describe('getSurveyFundingSources', () => { sinon.restore(); }); - const dbConnectionObj = getMockDBConnection(); + it('fetches survey funding sources', async () => { + const dbConnectionObj = getMockDBConnection(); - const sampleReq = { - keycloak_token: {}, - params: { - projectId: 1 - } - } as any; - - let actualResult: any = null; + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - const sampleRes = { - status: () => { - return { - json: (result: any) => { - actualResult = result; - } - }; - } - }; + sinon.stub(ProjectService.prototype, 'getFundingData').resolves({ fundingSources: [] }); - it('should throw a 400 error when no project id path param', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - try { - const result = list.getSurveyFundingSources(); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - await result( - { ...sampleReq, params: { ...sampleReq.params, projectId: null } }, - (null as unknown) as any, - (null as unknown) as any - ); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Missing required path param `projectId`'); - } - }); + mockReq.params = { + projectId: '1' + }; - it('should throw a 400 error when no sql statement returned for survey funding sources', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); + const requestHandler = getSurveyFundingSources(); - sinon.stub(project_queries, 'getFundingSourceByProjectSQL').returns(null); + await requestHandler(mockReq, mockRes, mockNext); - try { - const result = list.getSurveyFundingSources(); - - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL get statement'); - } + expect(mockRes.statusValue).to.equal(200); + expect(mockRes.jsonValue).to.eql([]); }); - it('should return the survey funding sources on success', async () => { - const surveyFundingSources = [ - { - id: 1, - agency_id: 1, - funding_amount: 100, - start_date: '2020/04/04', - end_date: '2020/05/05', - investment_action_category: 1, - investment_action_category_name: 'name iac', - agency_name: 'name agency', - agency_project_id: 10, - revision_count: 1 - } - ]; - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: surveyFundingSources }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(project_queries, 'getFundingSourceByProjectSQL').returns(SQL`some query`); - - const result = list.getSurveyFundingSources(); - - await result(sampleReq, sampleRes as any, (null as unknown) as any); - - expect(actualResult).to.eql([ - { - pfsId: 1, - agencyName: 'name agency', - startDate: '2020/04/04', - endDate: '2020/05/05', - amount: 100 - } - ]); - }); + it('catches and re-throws error', async () => { + const dbConnectionObj = getMockDBConnection({ release: sinon.stub() }); - it('should return null when survey funding sources response has no rows', async () => { - const mockQuery = sinon.stub(); + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - mockQuery.resolves({ rows: null }); + sinon.stub(ProjectService.prototype, 'getFundingData').rejects(new Error('a test error')); - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - sinon.stub(project_queries, 'getFundingSourceByProjectSQL').returns(SQL`some query`); + mockReq.params = { + projectId: '1' + }; - const result = list.getSurveyFundingSources(); + try { + const requestHandler = getSurveyFundingSources(); - await result(sampleReq, sampleRes as any, (null as unknown) as any); + await requestHandler(mockReq, mockRes, mockNext); + expect.fail(); + } catch (actualError) { + expect(dbConnectionObj.release).to.have.been.called; - expect(actualResult).to.be.null; + expect((actualError as HTTPError).message).to.equal('a test error'); + } }); }); diff --git a/api/src/paths/project/{projectId}/survey/funding-sources/list.ts b/api/src/paths/project/{projectId}/survey/funding-sources/list.ts index 1198798281..25573fc1c4 100644 --- a/api/src/paths/project/{projectId}/survey/funding-sources/list.ts +++ b/api/src/paths/project/{projectId}/survey/funding-sources/list.ts @@ -3,9 +3,8 @@ import { Operation } from 'express-openapi'; import { PROJECT_ROLE } from '../../../../../constants/roles'; import { getDBConnection } from '../../../../../database/db'; import { HTTP400 } from '../../../../../errors/custom-error'; -import { GetSurveyFundingSources } from '../../../../../models/survey-view'; -import { queries } from '../../../../../queries/queries'; import { authorizeRequestHandler } from '../../../../../request-handlers/security/authorization'; +import { ProjectService } from '../../../../../services/project-service'; import { getLogger } from '../../../../../utils/logger'; const defaultLog = getLogger('/api/project/{projectId}/survey/funding-sources/list'); @@ -26,7 +25,7 @@ export const GET: Operation = [ ]; GET.apiDoc = { - description: 'Fetches a list of funding sources for a survey based on a project.', + description: 'Fetches a list of project funding sources available for use by a survey.', tags: ['funding_sources'], security: [ { @@ -50,28 +49,47 @@ GET.apiDoc = { 'application/json': { schema: { type: 'array', + description: 'Funding sources applicable for the survey', items: { - title: 'Funding Sources Get Response Object', type: 'object', properties: { - pfsId: { + id: { type: 'number' }, - amount: { + agency_id: { type: 'number' }, - startDate: { - type: 'string' + investment_action_category: { + type: 'number' }, - endDate: { + investment_action_category_name: { type: 'string' }, - agencyName: { + agency_name: { type: 'string' + }, + funding_amount: { + type: 'number' + }, + start_date: { + type: 'string', + format: 'date', + description: 'ISO 8601 date string for the funding start date' + }, + end_date: { + type: 'string', + format: 'date', + description: 'ISO 8601 date string for the funding end_date' + }, + agency_project_id: { + type: 'string', + nullable: true + }, + revision_count: { + type: 'number' } } - }, - description: 'Funding sources applicable for the survey' + } } } } @@ -96,34 +114,13 @@ export function getSurveyFundingSources(): RequestHandler { const connection = getDBConnection(req['keycloak_token']); try { - const getSurveyFundingSourcesSQLStatement = queries.project.getFundingSourceByProjectSQL( - Number(req.params.projectId) - ); - - if (!getSurveyFundingSourcesSQLStatement) { - throw new HTTP400('Failed to build SQL get statement'); - } - await connection.open(); - const surveyFundingSourcesData = await connection.query( - getSurveyFundingSourcesSQLStatement.text, - getSurveyFundingSourcesSQLStatement.values - ); + const projectService = new ProjectService(connection); - await connection.commit(); - - const getSurveyFundingSourcesData = - (surveyFundingSourcesData && - surveyFundingSourcesData.rows && - new GetSurveyFundingSources(surveyFundingSourcesData.rows)) || - null; - - if (!getSurveyFundingSourcesData) { - return res.status(200).json(null); - } + const response = await projectService.getFundingData(Number(req.params.projectId)); - return res.status(200).json(getSurveyFundingSourcesData.fundingSources); + return res.status(200).json(response.fundingSources); } catch (error) { defaultLog.error({ label: 'getSurveyFundingSources', message: 'error', error }); await connection.rollback(); diff --git a/api/src/paths/project/{projectId}/survey/permits/list.test.ts b/api/src/paths/project/{projectId}/survey/permits/list.test.ts index 184617e320..702552b27a 100644 --- a/api/src/paths/project/{projectId}/survey/permits/list.test.ts +++ b/api/src/paths/project/{projectId}/survey/permits/list.test.ts @@ -111,10 +111,19 @@ describe('getSurveyPermits', () => { await result(sampleReq, sampleRes as any, (null as unknown) as any); - expect(actualResult).to.eql(surveyPermits); + expect(actualResult).to.eql([ + { + permit_number: '123', + permit_type: 'scientific' + }, + { + permit_number: '12345', + permit_type: 'wildlife' + } + ]); }); - it('should return null when survey permits response has no rows', async () => { + it('should return an empty array when survey permits response has no rows', async () => { const mockQuery = sinon.stub(); mockQuery.resolves({ rows: null }); @@ -133,6 +142,6 @@ describe('getSurveyPermits', () => { await result(sampleReq, sampleRes as any, (null as unknown) as any); - expect(actualResult).to.be.null; + expect(actualResult).to.be.eql([]); }); }); diff --git a/api/src/paths/project/{projectId}/survey/permits/list.ts b/api/src/paths/project/{projectId}/survey/permits/list.ts index 7a4bd5b317..7ba5ebd9c8 100644 --- a/api/src/paths/project/{projectId}/survey/permits/list.ts +++ b/api/src/paths/project/{projectId}/survey/permits/list.ts @@ -3,6 +3,7 @@ import { Operation } from 'express-openapi'; import { PROJECT_ROLE } from '../../../../../constants/roles'; import { getDBConnection } from '../../../../../database/db'; import { HTTP400 } from '../../../../../errors/custom-error'; +import { GetPermitData } from '../../../../../models/project-view'; import { queries } from '../../../../../queries/queries'; import { authorizeRequestHandler } from '../../../../../request-handlers/security/authorization'; import { getLogger } from '../../../../../utils/logger'; @@ -53,10 +54,10 @@ GET.apiDoc = { title: 'Survey permit Get Response Object', type: 'object', properties: { - number: { + permit_number: { type: 'string' }, - type: { + permit_type: { type: 'string' } } @@ -96,16 +97,19 @@ export function getSurveyPermits(): RequestHandler { await connection.open(); - const surveyPermitsData = await connection.query( - getSurveyPermitsSQLStatement.text, - getSurveyPermitsSQLStatement.values - ); + const response = await connection.query(getSurveyPermitsSQLStatement.text, getSurveyPermitsSQLStatement.values); await connection.commit(); - const getSurveyPermitsData = (surveyPermitsData && surveyPermitsData.rows) || null; + const result = (response && response.rows) || null; + + const getSurveyPermitsData = new GetPermitData(result); + + if (!getSurveyPermitsData) { + return res.status(200).json(null); + } - return res.status(200).json(getSurveyPermitsData); + return res.status(200).json(getSurveyPermitsData.permits); } catch (error) { defaultLog.error({ label: 'getSurveyPermits', message: 'error', error }); await connection.rollback(); diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/attachments/list.test.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/attachments/list.test.ts index 184bde4958..705e32883c 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/attachments/list.test.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/attachments/list.test.ts @@ -124,26 +124,25 @@ describe('lists the survey attachments', () => { await result(sampleReq, sampleRes as any, (null as unknown) as any); - expect(actualResult).to.be.eql({ - attachmentsList: [ - { - fileName: 'name1', - fileType: 'type', - securityToken: 'sometoken', - id: 13, - lastModified: '2020-01-01', - size: 50 - }, - { - fileName: 'name2', - fileType: 'type', - securityToken: 'sometoken', - id: 14, - lastModified: '2020-01-01', - size: 50 - } - ] - }); + expect(actualResult).to.be.an('object'); + expect(actualResult).to.have.property('attachmentsList'); + + expect(actualResult.attachmentsList).to.be.an('array'); + expect(actualResult.attachmentsList).to.have.length(2); + + expect(actualResult.attachmentsList[0].fileName).to.equal('name1'); + expect(actualResult.attachmentsList[0].fileType).to.equal('type'); + expect(actualResult.attachmentsList[0].id).to.equal(13); + expect(actualResult.attachmentsList[0].lastModified).to.match(new RegExp('2020-01-01T.*')); + expect(actualResult.attachmentsList[0].size).to.equal(50); + expect(actualResult.attachmentsList[0].securityToken).to.equal('sometoken'); + + expect(actualResult.attachmentsList[1].fileName).to.equal('name2'); + expect(actualResult.attachmentsList[1].fileType).to.equal('type'); + expect(actualResult.attachmentsList[1].id).to.equal(14); + expect(actualResult.attachmentsList[1].lastModified).to.match(new RegExp('2020-01-01T.*')); + expect(actualResult.attachmentsList[1].size).to.equal(50); + expect(actualResult.attachmentsList[1].securityToken).to.equal('sometoken'); }); it('should return a list of survey attachments where the lastModified is the update_date', async () => { @@ -193,26 +192,25 @@ describe('lists the survey attachments', () => { await result(sampleReq, sampleRes as any, (null as unknown) as any); - expect(actualResult).to.be.eql({ - attachmentsList: [ - { - fileName: 'name1', - fileType: 'type', - securityToken: 'sometoken', - id: 13, - lastModified: '2020-04-04', - size: 50 - }, - { - fileName: 'name2', - fileType: 'type', - securityToken: 'sometoken', - id: 14, - lastModified: '2020-04-04', - size: 50 - } - ] - }); + expect(actualResult).to.be.an('object'); + expect(actualResult).to.have.property('attachmentsList'); + + expect(actualResult.attachmentsList).to.be.an('array'); + expect(actualResult.attachmentsList).to.have.length(2); + + expect(actualResult.attachmentsList[0].fileName).to.equal('name1'); + expect(actualResult.attachmentsList[0].fileType).to.equal('type'); + expect(actualResult.attachmentsList[0].id).to.equal(13); + expect(actualResult.attachmentsList[0].lastModified).to.match(new RegExp('2020-04-04T.*')); + expect(actualResult.attachmentsList[0].size).to.equal(50); + expect(actualResult.attachmentsList[0].securityToken).to.equal('sometoken'); + + expect(actualResult.attachmentsList[1].fileName).to.equal('name2'); + expect(actualResult.attachmentsList[1].fileType).to.equal('type'); + expect(actualResult.attachmentsList[1].id).to.equal(14); + expect(actualResult.attachmentsList[1].lastModified).to.match(new RegExp('2020-04-04T.*')); + expect(actualResult.attachmentsList[1].size).to.equal(50); + expect(actualResult.attachmentsList[1].securityToken).to.equal('sometoken'); }); it('should return null if the survey has no attachments, on success', async () => { diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/delete.test.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/delete.test.ts index 60e8e87080..ef6b94d9c8 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/delete.test.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/delete.test.ts @@ -105,33 +105,6 @@ describe('deleteSurvey', () => { } }); - it('should throw a 400 error when failed to build delete sql statement', async () => { - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'getSurveyAttachmentsSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteSurveySQL').returns(null); - - try { - const result = delete_survey.deleteSurvey(); - - await result(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL delete statement'); - } - }); - it('should return null when deleting file from S3 fails', async () => { const mockQuery = sinon.stub(); diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/delete.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/delete.ts index e936db458a..634bd34b34 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/delete.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/delete.ts @@ -38,7 +38,8 @@ DELETE.apiDoc = { in: 'path', name: 'projectId', schema: { - type: 'number' + type: 'integer', + minimum: 1 }, required: true }, @@ -46,7 +47,8 @@ DELETE.apiDoc = { in: 'path', name: 'surveyId', schema: { - type: 'number' + type: 'integer', + minimum: 1 }, required: true } @@ -97,10 +99,6 @@ export function deleteSurvey(): RequestHandler { */ const deleteSurveySQLStatement = queries.survey.deleteSurveySQL(Number(req.params.surveyId)); - if (!deleteSurveySQLStatement) { - throw new HTTP400('Failed to build SQL delete statement'); - } - await connection.query(deleteSurveySQLStatement.text, deleteSurveySQLStatement.values); /** diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/publish.test.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/publish.test.ts index 1b8c2102e7..e7b6ade228 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/publish.test.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/publish.test.ts @@ -1,283 +1,67 @@ import chai, { expect } from 'chai'; import { describe } from 'mocha'; -import { QueryResult } from 'pg'; import sinon from 'sinon'; import sinonChai from 'sinon-chai'; -import SQL from 'sql-template-strings'; import * as db from '../../../../../database/db'; import { HTTPError } from '../../../../../errors/custom-error'; -import survey_queries from '../../../../../queries/survey'; -import { getMockDBConnection } from '../../../../../__mocks__/db'; -import * as publish from './publish'; +import { SurveyService } from '../../../../../services/survey-service'; +import { getMockDBConnection, getRequestHandlerMocks } from '../../../../../__mocks__/db'; +import { publishSurvey } from './publish'; chai.use(sinonChai); -const dbConnectionObj = getMockDBConnection(); - -const sampleReq = { - keycloak_token: {}, - params: { - surveyId: 1 - }, - body: { - publish: true - } -} as any; - -let actualStatus = 0; - -const sampleRes = { - status: (status: number) => { - actualStatus = status; - - return { - send: () => { - // do nothing - } - }; - } -} as any; - -const sampleNext = {} as any; - -describe('publishSurveyAndOccurrences', () => { +describe('publishSurvey', () => { afterEach(() => { sinon.restore(); }); - it('should throw a 400 error when missing request param surveyId', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); + it('publishes a survey', async () => { + const dbConnectionObj = getMockDBConnection(); - try { - const result = publish.publishSurveyAndOccurrences(); + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - await result( - { ...sampleReq, body: { ...sampleReq.body }, params: { surveyId: undefined } }, - sampleRes, - sampleNext - ); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Missing required path parameter: surveyId'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); + sinon.stub(SurveyService.prototype, 'publishSurvey').resolves(); - it('should throw a 400 error when missing request body', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - try { - const result = publish.publishSurveyAndOccurrences(); - - await result({ ...sampleReq, body: (null as unknown) as any }, sampleRes, sampleNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Missing request body'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); + mockReq.params = { + projectId: '1', + surveyId: '2' + }; - it('should throw a 400 error when missing publish flag in request body', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); + mockReq.body = { + publish: true + }; try { - const result = publish.publishSurveyAndOccurrences(); + const requestHandler = publishSurvey(); - await result({ ...sampleReq, body: { ...sampleReq.body, publish: undefined } }, sampleRes, sampleNext); - expect.fail(); + await requestHandler(mockReq, mockRes, mockNext); } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Missing publish flag in request body'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); - - it('should throw a 400 error when no occurrence submission sql statement produced', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - sinon.stub(survey_queries, 'getLatestSurveyOccurrenceSubmissionSQL').returns(null); - - try { - const result = publish.publishSurveyAndOccurrences(); - - await result({ ...sampleReq, body: { publish: false } }, sampleRes, sampleNext); expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal( - 'Failed to build get survey occurrence submission SQL statement' - ); - expect((actualError as HTTPError).status).to.equal(400); } - }); - - it('should throw a 500 error when no occurrence submission result', async () => { - const mockQuery = sinon.stub(); - mockQuery.resolves(null); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'getLatestSurveyOccurrenceSubmissionSQL').returns(SQL`some query`); - try { - const result = publish.publishSurveyAndOccurrences(); - - await result({ ...sampleReq, body: { publish: false } }, sampleRes, sampleNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to get survey occurrence submissions'); - expect((actualError as HTTPError).status).to.equal(500); - } - }); - - it('should throw a 400 error when no delete occurrence submission sql statement produced', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - sinon.stub(publish, 'getSurveyOccurrenceSubmission').resolves({ occurrence_submission_id: 1 }); - - sinon.stub(survey_queries, 'deleteSurveyOccurrencesSQL').returns(null); - - try { - const result = publish.publishSurveyAndOccurrences(); - - await result({ ...sampleReq, body: { publish: false } }, sampleRes, sampleNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build delete survey occurrences SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } + expect(mockRes.statusValue).to.equal(200); }); - it('should throw a 500 error when no delete occurrence submission result', async () => { - const mockQuery = sinon.stub(); - mockQuery.onCall(0).resolves(null); // delete survey occurrences result - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(publish, 'getSurveyOccurrenceSubmission').resolves({ occurrence_submission_id: 1 }); - - sinon.stub(survey_queries, 'deleteSurveyOccurrencesSQL').returns(SQL`some query`); + it('catches and re-throws error', async () => { + const dbConnectionObj = getMockDBConnection({ release: sinon.stub() }); - try { - const result = publish.publishSurveyAndOccurrences(); - - await result({ ...sampleReq, body: { publish: false } }, sampleRes, sampleNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to delete survey occurrences'); - expect((actualError as HTTPError).status).to.equal(500); - } - }); + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - it('should throw a 400 error when no publish survey sql statement produced', async () => { - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); + sinon.stub(SurveyService.prototype, 'publishSurvey').rejects(new Error('a test error')); - sinon.stub(survey_queries, 'updateSurveyPublishStatusSQL').returns(null); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); try { - const result = publish.publishSurveyAndOccurrences(); + const requestHandler = publishSurvey(); - await result(sampleReq, sampleRes, sampleNext); + await requestHandler(mockReq, mockRes, mockNext); expect.fail(); } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build survey publish SQL statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); - - it('should throw a 500 error when no publish survey result', async () => { - const mockQuery = sinon.stub(); - mockQuery.onCall(0).resolves(null); // update survey result - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'updateSurveyPublishStatusSQL').returns(SQL`some query`); - - try { - const result = publish.publishSurveyAndOccurrences(); + expect(dbConnectionObj.release).to.have.been.called; - await result(sampleReq, sampleRes, sampleNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to update survey publish status'); - expect((actualError as HTTPError).status).to.equal(500); + expect((actualError as HTTPError).message).to.equal('a test error'); } }); - - it('should return 200 OK on success', async () => { - const mockQuery = sinon.stub(); - mockQuery.onCall(0).resolves({ rowCount: 1 }); // update survey result - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: async () => { - return { - rowCount: 1, - rows: [ - { - id: 1, - create_date: '2020/04/04' - } - ] - } as QueryResult; - } - }); - - sinon.stub(survey_queries, 'updateSurveyPublishStatusSQL').returns(SQL`some query`); - - const result = publish.publishSurveyAndOccurrences(); - - await result(sampleReq, sampleRes, sampleNext); - - expect(actualStatus).to.equal(200); - }); }); diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/publish.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/publish.ts index 46c860c35c..db3f964610 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/publish.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/publish.ts @@ -1,10 +1,9 @@ import { RequestHandler } from 'express'; import { Operation } from 'express-openapi'; import { PROJECT_ROLE } from '../../../../../constants/roles'; -import { getDBConnection, IDBConnection } from '../../../../../database/db'; -import { HTTP400, HTTP500 } from '../../../../../errors/custom-error'; -import { queries } from '../../../../../queries/queries'; +import { getDBConnection } from '../../../../../database/db'; import { authorizeRequestHandler } from '../../../../../request-handlers/security/authorization'; +import { SurveyService } from '../../../../../services/survey-service'; import { getLogger } from '../../../../../utils/logger'; const defaultLog = getLogger('paths/project/{projectId}/survey/{surveyId}/publish'); @@ -21,8 +20,7 @@ export const PUT: Operation = [ ] }; }), - - publishSurveyAndOccurrences() + publishSurvey() ]; PUT.apiDoc = { @@ -34,11 +32,21 @@ PUT.apiDoc = { } ], parameters: [ + { + in: 'path', + name: 'projectId', + schema: { + type: 'integer', + minimum: 1 + }, + required: true + }, { in: 'path', name: 'surveyId', schema: { - type: 'number' + type: 'integer', + minimum: 1 }, required: true } @@ -53,7 +61,7 @@ PUT.apiDoc = { required: ['publish'], properties: { publish: { - title: 'publish?', + description: 'Set to `true` to publish the survey, `false` to unpublish the survey', type: 'boolean' } } @@ -99,44 +107,28 @@ PUT.apiDoc = { }; /** - * Publish survey and occurrences. + * Publish survey. * * @returns {RequestHandler} */ -export function publishSurveyAndOccurrences(): RequestHandler { +export function publishSurvey(): RequestHandler { return async (req, res) => { - const connection = getDBConnection(req['keycloak_token']); + const surveyId = Number(req.params.surveyId); + const publish: boolean = req.body.publish; + const connection = getDBConnection(req['keycloak_token']); try { - const surveyId = Number(req.params.surveyId); - - if (!surveyId) { - throw new HTTP400('Missing required path parameter: surveyId'); - } - - if (!req.body) { - throw new HTTP400('Missing request body'); - } - - const publish: boolean = req.body.publish; - - if (publish === undefined) { - throw new HTTP400('Missing publish flag in request body'); - } - await connection.open(); - if (!publish) { - await deleteOccurrences(surveyId, connection); - } + const surveyService = new SurveyService(connection); - await publishSurvey(surveyId, publish, connection); + await surveyService.publishSurvey(surveyId, publish); await connection.commit(); return res.status(200).send(); } catch (error) { - defaultLog.error({ label: 'publishSurveyAndOccurrences', message: 'error', error }); + defaultLog.error({ label: 'publishSurvey', message: 'error', error }); await connection.rollback(); throw error; } finally { @@ -144,69 +136,3 @@ export function publishSurveyAndOccurrences(): RequestHandler { } }; } - -/** - * Delete all occurrences for a survey. - * - * @param {number} surveyId - * @param {IDBConnection} connection - */ -export const deleteOccurrences = async (surveyId: number, connection: IDBConnection) => { - const occurrenceSubmission = await getSurveyOccurrenceSubmission(surveyId, connection); - - const sqlStatement = queries.survey.deleteSurveyOccurrencesSQL(occurrenceSubmission.id); - - if (!sqlStatement) { - throw new HTTP400('Failed to build delete survey occurrences SQL statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response) { - throw new HTTP500('Failed to delete survey occurrences'); - } -}; - -/** - * Update a survey, marking it as published/unpublished. - * - * @returns {RequestHandler} - */ -export const publishSurvey = async (surveyId: number, publish: boolean, connection: IDBConnection) => { - const sqlStatement = queries.survey.updateSurveyPublishStatusSQL(surveyId, publish); - - if (!sqlStatement) { - throw new HTTP400('Failed to build survey publish SQL statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - const result = (response && response.rows && response.rows[0]) || null; - - if (!result) { - throw new HTTP500('Failed to update survey publish status'); - } -}; - -/** - * Get the latest survey occurrence submission. - * - * @param {number} surveyId - * @param {IDBConnection} connection - * @return {*} - */ -export const getSurveyOccurrenceSubmission = async (surveyId: number, connection: IDBConnection) => { - const sqlStatement = queries.survey.getLatestSurveyOccurrenceSubmissionSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build get survey occurrence submission SQL statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response || !response.rows.length) { - throw new HTTP500('Failed to get survey occurrence submissions'); - } - - return response.rows[0]; -}; diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/update.test.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/update.test.ts index 7602f48867..9fa1b40409 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/update.test.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/update.test.ts @@ -2,467 +2,25 @@ import chai, { expect } from 'chai'; import { describe } from 'mocha'; import sinon from 'sinon'; import sinonChai from 'sinon-chai'; -import SQL from 'sql-template-strings'; -import { COMPLETION_STATUS } from '../../../../../constants/status'; import * as db from '../../../../../database/db'; import { HTTPError } from '../../../../../errors/custom-error'; -import survey_queries from '../../../../../queries/survey'; +import { SurveyService } from '../../../../../services/survey-service'; import { getMockDBConnection, getRequestHandlerMocks } from '../../../../../__mocks__/db'; -import * as create from '../create'; -import * as update from './update'; +import { updateSurvey } from './update'; chai.use(sinonChai); -describe('getSurveyForUpdate', () => { - afterEach(() => { - sinon.restore(); - }); - - it('should throw a 400 error when no survey id path param', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '' - }; - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - try { - const requestHandler = update.getSurveyForUpdate(); - - await requestHandler(mockReq, mockRes, mockNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Missing required path parameter: surveyId'); - } - }); - - it('should throw a 400 error when no get survey sql statement produced', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - sinon.stub(survey_queries, 'getSurveyDetailsForUpdateSQL').returns(null); - - try { - const requestHandler = update.getSurveyForUpdate(); - - await requestHandler(mockReq, mockRes, mockNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build survey details SQL get statement'); - } - }); - - it('should return only survey details when entity specified with survey_details, on success', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.query = { - entity: ['survey_details'] - }; - - const survey_details = { - id: 1, - name: 'name', - focal_species: [1], - ancillary_species: [3], - additional_details: 'details', - start_date: '2020-04-04', - end_date: '2020-05-05', - lead_first_name: 'first', - lead_last_name: 'last', - location_name: 'location', - revision_count: 1, - geometry: [], - publish_timestamp: null, - number: '123', - type: 'scientific', - pfs_id: [1] - }; - - const mockQuery = sinon.stub(); - - mockQuery.onFirstCall().resolves({ - rows: [survey_details] - }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'getSurveyDetailsForUpdateSQL').returns(SQL`some query`); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`some query`); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`some query`); - - const requestHandler = update.getSurveyForUpdate(); - - await requestHandler(mockReq, mockRes, mockNext); - - expect(mockRes.sendValue).to.eql({ - survey_details: { - id: 1, - survey_name: survey_details.name, - focal_species: survey_details.focal_species, - ancillary_species: survey_details.ancillary_species, - start_date: survey_details.start_date, - end_date: survey_details.end_date, - biologist_first_name: survey_details.lead_first_name, - biologist_last_name: survey_details.lead_last_name, - survey_area_name: survey_details.location_name, - revision_count: survey_details.revision_count, - geometry: survey_details.geometry, - permit_number: survey_details.number, - permit_type: survey_details.type, - completion_status: COMPLETION_STATUS.COMPLETED, - publish_date: '', - funding_sources: survey_details.pfs_id - }, - survey_purpose_and_methodology: null, - survey_proprietor: null - }); - }); - - it('should return survey proprietor info when only survey proprietor entity is specified, on success', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.query = { - entity: ['survey_proprietor'] - }; - - const survey_proprietor = { - category_rationale: '', - data_sharing_agreement_required: 'false', - first_nations_id: null, - first_nations_name: '', - id: 1, - proprietary_data_category: null, - proprietary_data_category_name: '', - proprietor_name: '', - survey_data_proprietary: 'true', - revision_count: 1 - }; - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ - rows: [survey_proprietor] - }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`some query`); - - const requestHandler = update.getSurveyForUpdate(); - - await requestHandler(mockReq, mockRes, mockNext); - - expect(mockRes.sendValue).to.eql({ - survey_details: null, - survey_purpose_and_methodology: null, - survey_proprietor: { - category_rationale: survey_proprietor.category_rationale, - data_sharing_agreement_required: survey_proprietor.data_sharing_agreement_required, - first_nations_id: survey_proprietor.first_nations_id, - first_nations_name: survey_proprietor.first_nations_name, - id: survey_proprietor.id, - proprietary_data_category: survey_proprietor.proprietary_data_category, - proprietary_data_category_name: survey_proprietor.proprietary_data_category_name, - proprietor_name: survey_proprietor.proprietor_name, - survey_data_proprietary: survey_proprietor.survey_data_proprietary, - revision_count: survey_proprietor.revision_count - } - }); - }); - - it('should return survey details, survey purpose and methodology, as well as proprietor info when no entity is specified, on success', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - - const survey_details = { - id: 1, - name: 'name', - focal_species: [1], - ancillary_species: [3], - start_date: '2020-04-04', - end_date: '2020-05-05', - lead_first_name: 'first', - lead_last_name: 'last', - location_name: 'location', - revision_count: 1, - geometry: [], - publish_timestamp: null, - pfs_id: [10] - }; - - const survey_purpose_and_methodology = { - id: 1, - field_method_id: 1, - additional_details: 'details', - ecological_season_id: 1, - intended_outcome_id: 8, - surveyed_all_areas: true, - vantage_id: 2, - revision_count: 0 - }; - - const survey_proprietor = { - category_rationale: '', - data_sharing_agreement_required: 'false', - first_nations_id: null, - first_nations_name: '', - id: 1, - proprietary_data_category: null, - proprietary_data_category_name: '', - proprietor_name: '', - survey_data_proprietary: 'true', - revision_count: 1 - }; - - const mockQuery = sinon.stub(); - - mockQuery - .onFirstCall() - .resolves({ - rows: [survey_details] - }) - .onSecondCall() - .resolves({ - rows: [survey_purpose_and_methodology] - }) - .onThirdCall() - .resolves({ - rows: [survey_proprietor] - }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'getSurveyDetailsForUpdateSQL').returns(SQL`some query`); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`some query`); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`some query`); - - const requestHandler = update.getSurveyForUpdate(); - - await requestHandler(mockReq, mockRes, mockNext); - - expect(mockRes.sendValue).to.eql({ - survey_details: { - id: 1, - survey_name: survey_details.name, - focal_species: survey_details.focal_species, - ancillary_species: survey_details.ancillary_species, - start_date: survey_details.start_date, - end_date: survey_details.end_date, - biologist_first_name: survey_details.lead_first_name, - biologist_last_name: survey_details.lead_last_name, - survey_area_name: survey_details.location_name, - revision_count: survey_details.revision_count, - geometry: survey_details.geometry, - permit_number: '', - permit_type: '', - completion_status: COMPLETION_STATUS.COMPLETED, - publish_date: '', - funding_sources: survey_details.pfs_id - }, - survey_purpose_and_methodology: { - id: 1, - intended_outcome_id: 8, - field_method_id: 1, - additional_details: 'details', - ecological_season_id: 1, - vantage_code_ids: [2], - surveyed_all_areas: 'true', - revision_count: 0 - }, - survey_proprietor: { - category_rationale: survey_proprietor.category_rationale, - data_sharing_agreement_required: survey_proprietor.data_sharing_agreement_required, - first_nations_id: survey_proprietor.first_nations_id, - first_nations_name: survey_proprietor.first_nations_name, - id: survey_proprietor.id, - proprietary_data_category: survey_proprietor.proprietary_data_category, - proprietary_data_category_name: survey_proprietor.proprietary_data_category_name, - proprietor_name: survey_proprietor.proprietor_name, - survey_data_proprietary: survey_proprietor.survey_data_proprietary, - revision_count: survey_proprietor.revision_count - } - }); - }); -}); - describe('updateSurvey', () => { afterEach(() => { sinon.restore(); }); - it('should throw a 400 error when no project id path param', async () => { + it('updates a survey', async () => { const dbConnectionObj = getMockDBConnection(); - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '', - surveyId: '2' - }; - mockReq.body = { - survey_details: { - survey_name: 'name', - species: 'species', - start_date: '2020-03-03', - end_date: '2020-04-04', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'area name', - revision_count: 1, - geometry: [] - } - }; + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - try { - const requestHandler = update.updateSurvey(); - - await requestHandler(mockReq, mockRes, mockNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Missing required path parameter: projectId'); - } - }); - - it('should throw a 400 error when no survey id path param', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '' - }; - mockReq.body = { - survey_details: { - survey_name: 'name', - species: 'species', - start_date: '2020-03-03', - end_date: '2020-04-04', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'area name', - revision_count: 1, - geometry: [] - } - }; - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - try { - const requestHandler = update.updateSurvey(); - - await requestHandler(mockReq, mockRes, mockNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Missing required path parameter: surveyId'); - } - }); - - it('should throw a 400 error when no request body present', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.body = null; - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - try { - const requestHandler = update.updateSurvey(); - - await requestHandler(mockReq, mockRes, mockNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Missing required request body'); - } - }); - - it('should throw a 400 error when no revision count', async () => { - const dbConnectionObj = getMockDBConnection(); + sinon.stub(SurveyService.prototype, 'updateSurvey').resolves(); const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); @@ -470,757 +28,39 @@ describe('updateSurvey', () => { projectId: '1', surveyId: '2' }; - mockReq.body = { - survey_details: { - survey_name: 'name', - species: 'species', - start_date: '2020-03-03', - end_date: '2020-04-04', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'area name', - revision_count: null, - geometry: [] - } - }; - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); + mockReq.body = {}; try { - const requestHandler = update.updateSurvey(); + const requestHandler = updateSurvey(); await requestHandler(mockReq, mockRes, mockNext); - expect.fail(); } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to parse request body'); - } - }); - - it('should throw a 400 error when no sql statement returned (surveyDetails)', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.body = { - survey_details: { - survey_name: 'name', - species: 'species', - start_date: '2020-03-03', - end_date: '2020-04-04', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'area name', - revision_count: 1, - geometry: [] - } - }; - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - } - }); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(null); - - try { - const requestHandler = update.updateSurvey(); - - await requestHandler(mockReq, mockRes, mockNext); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL update statement'); - } - }); - - it('should throw a 409 error when no result or rowCount (surveyDetails)', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.body = { - survey_details: { - survey_name: 'name', - - species: 'species', - start_date: '2020-03-03', - end_date: '2020-04-04', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'area name', - revision_count: 1, - geometry: [] - } - }; - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: null, rowCount: 0 }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`some query`); - - try { - const requestHandler = update.updateSurvey(); - - await requestHandler(mockReq, mockRes, mockNext); expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(409); - expect((actualError as HTTPError).message).to.equal('Failed to update stale survey data'); } - }); - - it('should send a valid HTTP response on success (with only survey_details)', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.body = { - survey_details: { - survey_name: 'name', - species: 'species', - start_date: '2020-03-03', - end_date: '2020-04-04', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'area name', - revision_count: 1, - geometry: [] - } - }; - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: 1 }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`some query`); - - const requestHandler = update.updateSurvey(); - - await requestHandler(mockReq, mockRes, mockNext); expect(mockRes.statusValue).to.equal(200); + expect(mockRes.jsonValue).to.eql({ id: 2 }); }); - it('should send a valid HTTP response on success (with only survey proprietor data)', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.body = { - survey_proprietor: { - survey_data_proprietary: 'false', - id: 0 - } - }; - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: 1 }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`some query`); + it('catches and re-throws error', async () => { + const dbConnectionObj = getMockDBConnection({ release: sinon.stub() }); - const requestHandler = update.updateSurvey(); + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - await requestHandler(mockReq, mockRes, mockNext); - - expect(mockRes.statusValue).to.equal(200); - }); - - it('should send a valid HTTP response on success (did have proprietor data and no longer requires proprietor data)', async () => { - const dbConnectionObj = getMockDBConnection(); + sinon.stub(SurveyService.prototype, 'updateSurvey').rejects(new Error('a test error')); const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.body = { - survey_details: { - survey_name: 'name', - species: 'species', - start_date: '2020-03-03', - end_date: '2020-04-04', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'area name', - revision_count: 1, - geometry: [] - }, - survey_proprietor: { - survey_data_proprietary: 'false', - id: 0 - } - }; - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: 1 }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'deleteSurveyProprietorSQL').returns(SQL`some query`); - - const requestHandler = update.updateSurvey(); - - await requestHandler(mockReq, mockRes, mockNext); - - expect(mockRes.statusValue).to.equal(200); - }); - - it('should throw HTTP 400 error when no sql statement (did have proprietor data and no longer requires proprietor data)', async () => { - const dbConnectionObj = getMockDBConnection(); - - const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - - mockReq.params = { - projectId: '1', - surveyId: '2' - }; - mockReq.body = { - survey_details: { - survey_name: 'name', - species: 'species', - start_date: '2020-03-03', - end_date: '2020-04-04', - biologist_first_name: 'first', - biologist_last_name: 'last', - survey_area_name: 'area name', - revision_count: 1, - geometry: [] - }, - survey_proprietor: { - survey_data_proprietary: 'false', - id: 1 - } - }; - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: 1 }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'deleteSurveyProprietorSQL').returns(null); - try { - const requestHandler = update.updateSurvey(); + const requestHandler = updateSurvey(); await requestHandler(mockReq, mockRes, mockNext); expect.fail(); } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - } - }); -}); - -describe('updateSurveyProprietorData', () => { - afterEach(() => { - sinon.restore(); - }); - - const surveyId = 2; - const entities: update.IUpdateSurvey = { - survey_details: { - id: 1, - survey_name: 'survey name', - revision_count: 0, - focal_species: [1], - ancillary_species: [2] - }, - survey_purpose_and_methodology: {}, - survey_proprietor: { - id: 0, - survey_data_proprietary: 'true' - } - }; - - it('should throw a 400 error when fails to build sql statement in case 3', async () => { - const dbConnectionObj = getMockDBConnection(); - - sinon.stub(survey_queries, 'postSurveyProprietorSQL').returns(null); - - try { - await update.updateSurveyProprietorData(surveyId, entities, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - } - }); - - it('should throw a 400 error when no rowCount in result in case 3', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: null }); - - sinon.stub(survey_queries, 'postSurveyProprietorSQL').returns(SQL`some`); - - try { - await update.updateSurveyProprietorData(surveyId, entities, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(409); - expect((actualError as HTTPError).message).to.equal('Failed to update survey proprietor data'); - } - }); - - it('should throw a 400 error when fails to build sql statement in case 4', async () => { - const dbConnectionObj = getMockDBConnection(); - - sinon.stub(survey_queries, 'putSurveyProprietorSQL').returns(null); - - try { - await update.updateSurveyProprietorData( - surveyId, - { ...entities, survey_proprietor: { ...entities.survey_proprietor, id: 1 } }, - dbConnectionObj - ); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL statement'); - } - }); - - it('should throw a 400 error when no rowCount in result in case 4', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: null }); - - sinon.stub(survey_queries, 'putSurveyProprietorSQL').returns(SQL`some`); - - try { - await update.updateSurveyProprietorData( - surveyId, - { ...entities, survey_proprietor: { ...entities.survey_proprietor, id: 1 } }, - dbConnectionObj - ); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(409); - expect((actualError as HTTPError).message).to.equal('Failed to update survey proprietor data'); - } - }); -}); - -describe('updateSurveyDetailsData', () => { - afterEach(() => { - sinon.restore(); - }); - - const projectId = 1; - const surveyId = 2; - const data: update.IUpdateSurvey = { - survey_details: { - id: 1, - survey_name: 'survey name', - revision_count: 0, - focal_species: [1], - ancillary_species: [2] - }, - survey_purpose_and_methodology: null, - survey_proprietor: null - }; - - it('should throw a 400 error when no revision count in data', async () => { - const dbConnectionObj = getMockDBConnection(); - - try { - await update.updateSurveyDetailsData( - projectId, - surveyId, - (null as unknown) as update.IUpdateSurvey, - dbConnectionObj - ); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to parse request body'); - } - }); - - it('should throw a 400 error when no sql statement produced for putSurveyDetailsSQL', async () => { - const dbConnectionObj = getMockDBConnection(); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(null); - - try { - await update.updateSurveyDetailsData(projectId, surveyId, data, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL update statement'); - } - }); - - it('should throw a 409 error when no rowCount produced for putSurveyDetailsSQL', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: null }); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`something`); - - try { - await update.updateSurveyDetailsData(projectId, surveyId, data, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(409); - expect((actualError as HTTPError).message).to.equal('Failed to update stale survey data'); - } - }); - - it('should throw a 400 error when no sql produced for deleteFocalSpeciesSQL', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: 1 }); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteFocalSpeciesSQL').returns(null); - sinon.stub(survey_queries, 'deleteAncillarySpeciesSQL').returns(SQL`something`); - - try { - await update.updateSurveyDetailsData(projectId, surveyId, data, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL delete statement'); - } - }); - - it('should throw a 400 error when no sql produced for deleteAncillarySpeciesSQL', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rowCount: 1 }); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteFocalSpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteAncillarySpeciesSQL').returns(null); - - try { - await update.updateSurveyDetailsData(projectId, surveyId, data, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL delete statement'); - } - }); - - it('should throw a 400 error when fails to delete focal species data', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.onFirstCall().resolves({ rowCount: 1 }).onSecondCall().resolves(null).onThirdCall().resolves(true); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteFocalSpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteAncillarySpeciesSQL').returns(SQL`something`); - - try { - await update.updateSurveyDetailsData(projectId, surveyId, data, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(409); - expect((actualError as HTTPError).message).to.equal('Failed to delete survey focal species data'); - } - }); - - it('should throw a 400 error when fails to delete ancillary species data', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.onFirstCall().resolves({ rowCount: 1 }).onSecondCall().resolves(true).onThirdCall().resolves(null); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteFocalSpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteAncillarySpeciesSQL').returns(SQL`something`); - - try { - await update.updateSurveyDetailsData(projectId, surveyId, data, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(409); - expect((actualError as HTTPError).message).to.equal('Failed to delete survey ancillary species data'); - } - }); - - it('should throw a 400 error when fails to delete survey funding sources data', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.onCall(0).resolves({ rowCount: 1 }); - mockQuery.onCall(1).resolves(true); - mockQuery.onCall(2).resolves(true); - mockQuery.onCall(3).resolves(null); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteFocalSpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteAncillarySpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteSurveyFundingSourcesBySurveyIdSQL').returns(SQL`something`); - - try { - await update.updateSurveyDetailsData(projectId, surveyId, data, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(409); - expect((actualError as HTTPError).message).to.equal('Failed to delete survey funding sources data'); - } - }); - - it('should return resolved promises on success with focal and ancillary species and funding sources but no permit number', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.onCall(0).resolves({ rowCount: 1 }); - mockQuery.onCall(1).resolves(true); - mockQuery.onCall(2).resolves(true); - mockQuery.onCall(3).resolves(true); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteFocalSpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteAncillarySpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteSurveyFundingSourcesBySurveyIdSQL').returns(SQL`something`); - - sinon.stub(create, 'insertFocalSpecies').resolves(1); - sinon.stub(create, 'insertAncillarySpecies').resolves(2); - sinon.stub(create, 'insertSurveyFundingSource').resolves(); - sinon.stub(update, 'unassociatePermitFromSurvey').resolves(); - - const result = await update.updateSurveyDetailsData( - projectId, - surveyId, - { ...data, survey_details: { ...data.survey_details, funding_sources: [12] } }, - { - ...dbConnectionObj, - query: mockQuery - } - ); - - expect(result).to.eql([1, 2, undefined, undefined]); - }); - - it('should return resolved promises on success with focal and ancillary species and funding sources and permit number', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.onCall(0).resolves({ rowCount: 1 }); - mockQuery.onCall(1).resolves(true); - mockQuery.onCall(2).resolves(true); - mockQuery.onCall(3).resolves(true); - mockQuery.onCall(4).resolves(true); - - sinon.stub(survey_queries, 'putSurveyDetailsSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteFocalSpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteAncillarySpeciesSQL').returns(SQL`something`); - sinon.stub(survey_queries, 'deleteSurveyFundingSourcesBySurveyIdSQL').returns(SQL`something`); - - sinon.stub(create, 'insertFocalSpecies').resolves(1); - sinon.stub(create, 'insertAncillarySpecies').resolves(2); - sinon.stub(create, 'insertSurveyFundingSource').resolves(); - sinon.stub(update, 'unassociatePermitFromSurvey').resolves(); - sinon.stub(create, 'insertSurveyPermit').resolves(); - - const result = await update.updateSurveyDetailsData( - projectId, - surveyId, - { ...data, survey_details: { ...data.survey_details, permit_number: '123', funding_sources: [12] } }, - { - ...dbConnectionObj, - query: mockQuery - } - ); - - expect(result).to.eql([1, 2, undefined, undefined, undefined]); - }); -}); - -describe('unassociatePermitFromSurvey', () => { - afterEach(() => { - sinon.restore(); - }); - - const surveyId = 1; - - it('should throw a 400 error when no sql statement returned', async () => { - const dbConnectionObj = getMockDBConnection(); - - sinon.stub(survey_queries, 'unassociatePermitFromSurveySQL').returns(null); - - try { - await update.unassociatePermitFromSurvey(surveyId, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build SQL update statement'); - } - }); - - it('should throw a 400 error when no result returned', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.resolves(null); - - sinon.stub(survey_queries, 'unassociatePermitFromSurveySQL').returns(SQL`something`); - - try { - await update.unassociatePermitFromSurvey(surveyId, { ...dbConnectionObj, query: mockQuery }); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to update survey permit number data'); - } - }); -}); - -describe('getSurveyDetailsData', () => { - afterEach(() => { - sinon.restore(); - }); - - const surveyId = 1; - - it('should throw a 400 error when no sql statement returned', async () => { - const dbConnectionObj = getMockDBConnection(); - - sinon.stub(survey_queries, 'getSurveyDetailsForUpdateSQL').returns(null); - - try { - await update.getSurveyDetailsData(surveyId, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build survey details SQL get statement'); - } - }); -}); - -describe('getSurveyProprietorData', () => { - afterEach(() => { - sinon.restore(); - }); - - const surveyId = 1; + expect(dbConnectionObj.release).to.have.been.called; - it('should throw a 400 error when no sql statement returned', async () => { - const dbConnectionObj = getMockDBConnection(); - - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(null); - - try { - await update.getSurveyProprietorData(surveyId, dbConnectionObj); - - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).status).to.equal(400); - expect((actualError as HTTPError).message).to.equal('Failed to build survey proprietor SQL get statement'); + expect((actualError as HTTPError).message).to.equal('a test error'); } }); - - it('should return null when no result returned', async () => { - const dbConnectionObj = getMockDBConnection(); - - const mockQuery = sinon.stub(); - - mockQuery.resolves({ rows: [] }); - - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`something`); - - const result = await update.getSurveyProprietorData(surveyId, { ...dbConnectionObj, query: mockQuery }); - - expect(result).to.be.null; - }); }); diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/update.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/update.ts index 2631834aff..f65cae4e8c 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/update.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/update.ts @@ -1,50 +1,15 @@ import { RequestHandler } from 'express'; import { Operation } from 'express-openapi'; import { PROJECT_ROLE } from '../../../../../constants/roles'; -import { getDBConnection, IDBConnection } from '../../../../../database/db'; -import { HTTP400, HTTP409, HTTP500 } from '../../../../../errors/custom-error'; -import { PostSurveyProprietorData } from '../../../../../models/survey-create'; -import { - GetUpdateSurveyDetailsData, - PutSurveyDetailsData, - PutSurveyProprietorData, - PutSurveyPurposeAndMethodologyData -} from '../../../../../models/survey-update'; -import { GetSurveyProprietorData, GetSurveyPurposeAndMethodologyData } from '../../../../../models/survey-view-update'; +import { getDBConnection } from '../../../../../database/db'; +import { PutSurveyObject } from '../../../../../models/survey-update'; import { geoJsonFeature } from '../../../../../openapi/schemas/geoJson'; -import { queries } from '../../../../../queries/queries'; import { authorizeRequestHandler } from '../../../../../request-handlers/security/authorization'; +import { SurveyService } from '../../../../../services/survey-service'; import { getLogger } from '../../../../../utils/logger'; -import { - insertAncillarySpecies, - insertFocalSpecies, - insertSurveyFundingSource, - insertSurveyPermit, - insertVantageCodes -} from '../create'; -export interface IUpdateSurvey { - survey_details: object | null; - survey_purpose_and_methodology: object | null; - survey_proprietor: object | null; -} const defaultLog = getLogger('paths/project/{projectId}/survey/{surveyId}/update'); -export const GET: Operation = [ - authorizeRequestHandler((req) => { - return { - and: [ - { - validProjectRoles: [PROJECT_ROLE.PROJECT_LEAD, PROJECT_ROLE.PROJECT_EDITOR], - projectId: Number(req.params.projectId), - discriminator: 'ProjectRole' - } - ] - }; - }), - getSurveyForUpdate() -]; - export const PUT: Operation = [ authorizeRequestHandler((req) => { return { @@ -60,252 +25,6 @@ export const PUT: Operation = [ updateSurvey() ]; -export enum GET_SURVEY_ENTITIES { - survey_details = 'survey_details', - survey_purpose_and_methodology = 'survey_purpose_and_methodology', - survey_proprietor = 'survey_proprietor' -} - -export const getAllSurveyEntities = (): string[] => Object.values(GET_SURVEY_ENTITIES); - -GET.apiDoc = { - description: 'Get a project survey, for update purposes.', - tags: ['survey'], - security: [ - { - Bearer: [] - } - ], - parameters: [ - { - in: 'path', - name: 'projectId', - schema: { - type: 'number' - }, - required: true - }, - { - in: 'path', - name: 'surveyId', - schema: { - type: 'number' - }, - required: true - }, - { - in: 'query', - name: 'entity', - schema: { - type: 'array', - items: { - type: 'string', - enum: getAllSurveyEntities() - } - } - } - ], - responses: { - 200: { - description: 'Survey with matching surveyId.', - content: { - 'application/json': { - schema: { - title: 'Survey get response object, for update purposes', - type: 'object', - required: ['survey_details', 'survey_purpose_and_methodology', 'survey_proprietor'], - properties: { - survey_details: { - description: 'Survey Details', - type: 'object', - nullable: true, - required: [ - 'id', - 'focal_species', - 'ancillary_species', - 'biologist_first_name', - 'biologist_last_name', - 'completion_status', - 'start_date', - 'end_date', - 'funding_sources', - 'geometry', - 'permit_number', - 'permit_type', - 'publish_date', - 'revision_count', - 'survey_area_name', - 'survey_name' - ], - properties: { - id: { - description: 'Survey id', - type: 'number' - }, - ancillary_species: { - type: 'array', - items: { - type: 'number' - } - }, - focal_species: { - type: 'array', - items: { - type: 'number' - } - }, - biologist_first_name: { - type: 'string' - }, - biologist_last_name: { - type: 'string' - }, - completion_status: { - type: 'string' - }, - start_date: { - oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], - description: 'ISO 8601 date string for the survey start date' - }, - end_date: { - oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], - description: 'ISO 8601 date string for the survey end date', - nullable: true - }, - funding_sources: { - type: 'array', - items: { - title: 'survey funding agency', - type: 'number' - } - }, - geometry: { - type: 'array', - items: { - ...(geoJsonFeature as object) - } - }, - permit_number: { - type: 'string' - }, - permit_type: { - type: 'string' - }, - publish_date: { - type: 'string' - }, - revision_count: { - type: 'number' - }, - survey_area_name: { - type: 'string' - }, - survey_name: { - type: 'string' - } - } - }, - survey_purpose_and_methodology: { - description: 'Survey Details', - type: 'object', - nullable: true, - required: [ - 'field_method_id', - 'intended_outcome_id', - 'ecological_season_id', - 'vantage_code_ids', - 'surveyed_all_areas' - ], - properties: { - id: { - type: 'number' - }, - field_method_id: { - type: 'number' - }, - additional_details: { - type: 'string', - nullable: true - }, - intended_outcome_id: { - type: 'number' - }, - ecological_season_id: { - type: 'number' - }, - vantage_code_ids: { - type: 'array', - items: { - type: 'number' - } - }, - surveyed_all_areas: { - type: 'string', - enum: ['true', 'false'] - }, - revision_count: { - type: 'number' - } - } - }, - survey_proprietor: { - description: 'Survey Details', - type: 'object', - nullable: true, - properties: { - survey_data_proprietary: { - type: 'string' - }, - id: { - type: 'number' - }, - category_rationale: { - type: 'string' - }, - data_sharing_agreement_required: { - type: 'string' - }, - first_nations_id: { - type: 'number', - nullable: true - }, - first_nations_name: { - type: 'string' - }, - proprietary_data_category: { - type: 'number' - }, - proprietary_data_category_name: { - type: 'string' - }, - revision_count: { - type: 'number' - } - } - } - } - } - } - } - }, - 400: { - $ref: '#/components/responses/400' - }, - 401: { - $ref: '#/components/responses/401' - }, - 403: { - $ref: '#/components/responses/401' - }, - 500: { - $ref: '#/components/responses/500' - }, - default: { - $ref: '#/components/responses/default' - } - } -}; - PUT.apiDoc = { description: 'Update a survey.', tags: ['survey'], @@ -319,7 +38,8 @@ PUT.apiDoc = { in: 'path', name: 'projectId', schema: { - type: 'number' + type: 'number', + minimum: 1 }, required: true }, @@ -327,7 +47,8 @@ PUT.apiDoc = { in: 'path', name: 'surveyId', schema: { - type: 'number' + type: 'number', + minimum: 1 }, required: true } @@ -337,46 +58,30 @@ PUT.apiDoc = { content: { 'application/json': { schema: { - title: 'Survey Put Object', + title: 'SurveyProject put request object', type: 'object', properties: { survey_details: { - description: 'Survey Details', type: 'object', required: [ - 'id', - 'focal_species', - 'ancillary_species', - 'biologist_first_name', - 'biologist_last_name', - 'completion_status', + 'survey_name', 'start_date', 'end_date', - 'funding_sources', - 'geometry', - 'permit_number', - 'permit_type', - 'publish_date', - 'revision_count', - 'survey_area_name', - 'survey_name' + 'biologist_first_name', + 'biologist_last_name', + 'revision_count' ], properties: { - id: { - description: 'Survey id', - type: 'number' + survey_name: { + type: 'string' }, - ancillary_species: { - type: 'array', - items: { - type: 'number' - } + start_date: { + type: 'string', + description: 'ISO 8601 date string' }, - focal_species: { - type: 'array', - items: { - type: 'number' - } + end_date: { + type: 'string', + description: 'ISO 8601 date string' }, biologist_first_name: { type: 'string' @@ -384,77 +89,106 @@ PUT.apiDoc = { biologist_last_name: { type: 'string' }, - completion_status: { - type: 'string' - }, - start_date: { - type: 'string', - format: 'date', - description: 'ISO 8601 date string for the survey start date' - }, - end_date: { - type: 'string', - oneOf: [{ maxLength: 0 }, { format: 'date' }], - nullable: true, - description: 'ISO 8601 date string for the survey end date' - }, - funding_sources: { + revision_count: { + type: 'number' + } + } + }, + species: { + type: 'object', + required: ['focal_species', 'ancillary_species'], + properties: { + focal_species: { type: 'array', items: { - title: 'survey funding agency', type: 'number' - } + }, + description: 'Selected focal species ids' }, - geometry: { + ancillary_species: { type: 'array', items: { - ...(geoJsonFeature as object) - } - }, + type: 'number' + }, + description: 'Selected ancillary species ids' + } + } + }, + permit: { + type: 'object', + required: ['permit_number', 'permit_type'], + properties: { permit_number: { type: 'string' }, permit_type: { type: 'string' - }, - publish_date: { + } + } + }, + funding: { + description: 'Survey Funding Sources', + type: 'object', + required: ['funding_sources'], + properties: { + funding_sources: { + type: 'array', + items: { + type: 'integer' + } + } + } + }, + proprietor: { + type: 'object', + required: [ + 'survey_data_proprietary', + 'proprietary_data_category', + 'proprietor_name', + 'category_rationale', + 'first_nations_id', + 'disa_required' + ], + properties: { + survey_data_proprietary: { type: 'string' }, - revision_count: { + proprietary_data_category: { type: 'number' }, - survey_area_name: { + proprietor_name: { type: 'string' }, - survey_name: { + category_rationale: { + type: 'string' + }, + first_nations_id: { + type: 'number' + }, + disa_required: { type: 'string' } } }, - survey_purpose_and_methodology: { - description: 'Survey Details', + purpose_and_methodology: { type: 'object', required: [ - 'field_method_id', 'intended_outcome_id', - 'ecological_season_id', + 'additional_details', + 'field_method_id', 'vantage_code_ids', - 'surveyed_all_areas' + 'ecological_season_id', + 'surveyed_all_areas', + 'revision_count' ], properties: { - id: { - type: 'number' - }, - field_method_id: { + intended_outcome_id: { type: 'number' }, additional_details: { type: 'string' }, - intended_outcome_id: { - type: 'number' - }, - ecological_season_id: { + field_method_id: { type: 'number' }, vantage_code_ids: { @@ -463,6 +197,9 @@ PUT.apiDoc = { type: 'number' } }, + ecological_season_id: { + type: 'number' + }, surveyed_all_areas: { type: 'string', enum: ['true', 'false'] @@ -472,34 +209,18 @@ PUT.apiDoc = { } } }, - survey_proprietor: { - description: 'Survey Details', + location: { type: 'object', - //Note: do not make any of these fields required as the object can be null + required: ['survey_area_name', 'geometry', 'revision_count'], properties: { - survey_data_proprietary: { - type: 'string' - }, - id: { - type: 'number' - }, - category_rationale: { - type: 'string' - }, - data_sharing_agreement_required: { - type: 'string' - }, - first_nations_id: { - type: 'number' - }, - first_nations_name: { + survey_area_name: { type: 'string' }, - proprietary_data_category: { - type: 'number' - }, - proprietary_data_category_name: { - type: 'string' + geometry: { + type: 'array', + items: { + ...(geoJsonFeature as object) + } }, revision_count: { type: 'number' @@ -547,179 +268,27 @@ PUT.apiDoc = { } }; -export interface IGetSurveyForUpdate { - survey_details: GetUpdateSurveyDetailsData | null; - survey_purpose_and_methodology: GetSurveyPurposeAndMethodologyData | null; - survey_proprietor: GetSurveyProprietorData | null; -} - -/** - * Get a survey by projectId and surveyId. - * - * @returns {RequestHandler} - */ -export function getSurveyForUpdate(): RequestHandler { +export function updateSurvey(): RequestHandler { return async (req, res) => { - const connection = getDBConnection(req['keycloak_token']); - - try { - const surveyId = Number(req.params.surveyId); - - const entities: string[] = (req.query?.entity as string[]) || getAllSurveyEntities(); - - if (!surveyId) { - throw new HTTP400('Missing required path parameter: surveyId'); - } - - await connection.open(); - - const results: IGetSurveyForUpdate = { - survey_details: null, - survey_purpose_and_methodology: null, - survey_proprietor: null - }; - - const promises: Promise[] = []; - - if (entities.includes(GET_SURVEY_ENTITIES.survey_details)) { - promises.push( - getSurveyDetailsData(surveyId, connection).then((value) => { - results.survey_details = value; - }) - ); - } - - if (entities.includes(GET_SURVEY_ENTITIES.survey_purpose_and_methodology)) { - promises.push( - getSurveyPurposeAndMethodologyData(surveyId, connection).then((value) => { - results.survey_purpose_and_methodology = value; - }) - ); - } - - if (entities.includes(GET_SURVEY_ENTITIES.survey_proprietor)) { - promises.push( - getSurveyProprietorData(surveyId, connection).then((value) => { - results.survey_proprietor = value; - }) - ); - } - - await Promise.all(promises); - - await connection.commit(); - - return res.status(200).send(results); - } catch (error) { - defaultLog.error({ label: 'getSurveyForUpdate', message: 'error', error }); - throw error; - } finally { - connection.release(); - } - }; -} - -export const getSurveyDetailsData = async ( - surveyId: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.getSurveyDetailsForUpdateSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build survey details SQL get statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - const result = (response && response?.rows.length && new GetUpdateSurveyDetailsData(response.rows[0])) || null; + const projectId = Number(req.params.projectId); + const surveyId = Number(req.params.surveyId); - if (!result) { - throw new HTTP400('Failed to get project survey details data'); - } - - return result; -}; - -export const getSurveyPurposeAndMethodologyData = async ( - surveyId: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.getSurveyPurposeAndMethodologyForUpdateSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build survey proprietor SQL get statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - return (response && response.rows && new GetSurveyPurposeAndMethodologyData(response.rows)[0]) || null; -}; - -export const getSurveyProprietorData = async ( - surveyId: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.getSurveyProprietorForUpdateSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build survey proprietor SQL get statement'); - } + const sanitizedPutSurveyData = new PutSurveyObject(req.body); - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - return (response && response.rows && response.rows[0] && new GetSurveyProprietorData(response.rows[0])) || null; -}; - -/** - * Update a survey. - * - * @returns {RequestHandler} - */ -export function updateSurvey(): RequestHandler { - return async (req, res) => { const connection = getDBConnection(req['keycloak_token']); try { - const projectId = Number(req.params.projectId); - const surveyId = Number(req.params.surveyId); - - const entities: IUpdateSurvey = req.body; - - if (!projectId) { - throw new HTTP400('Missing required path parameter: projectId'); - } - - if (!surveyId) { - throw new HTTP400('Missing required path parameter: surveyId'); - } - - if (!entities) { - throw new HTTP400('Missing required request body'); - } - await connection.open(); - const promises: Promise[] = []; - - if (entities.survey_details) { - promises.push(updateSurveyDetailsData(projectId, surveyId, entities, connection)); - } - - if (entities.survey_purpose_and_methodology) { - promises.push(updateSurveyPurposeAndMethodologyData(surveyId, entities, connection)); - } - - if (entities.survey_proprietor) { - promises.push(updateSurveyProprietorData(surveyId, entities, connection)); - } + const surveyService = new SurveyService(connection); - await Promise.all(promises); + await surveyService.updateSurvey(projectId, surveyId, sanitizedPutSurveyData); await connection.commit(); - return res.status(200).send(); + return res.status(200).json({ id: surveyId }); } catch (error) { - defaultLog.error({ label: 'updateSurvey', message: 'error', error }); + defaultLog.error({ label: 'updateProject', message: 'error', error }); await connection.rollback(); throw error; } finally { @@ -727,237 +296,3 @@ export function updateSurvey(): RequestHandler { } }; } - -export const updateSurveyDetailsData = async ( - projectId: number, - surveyId: number, - data: IUpdateSurvey, - connection: IDBConnection -): Promise => { - const putDetailsData = new PutSurveyDetailsData(data); - - const revision_count = putDetailsData.revision_count ?? null; - - if (!revision_count && revision_count !== 0) { - throw new HTTP400('Failed to parse request body'); - } - - const updateSurveySQLStatement = queries.survey.putSurveyDetailsSQL( - projectId, - surveyId, - putDetailsData, - revision_count - ); - - if (!updateSurveySQLStatement) { - throw new HTTP400('Failed to build SQL update statement'); - } - - const result = await connection.query(updateSurveySQLStatement.text, updateSurveySQLStatement.values); - - if (!result || !result.rowCount) { - throw new HTTP409('Failed to update stale survey data'); - } - - const sqlDeleteFocalSpeciesStatement = queries.survey.deleteFocalSpeciesSQL(surveyId); - const sqlDeleteAncillarySpeciesStatement = queries.survey.deleteAncillarySpeciesSQL(surveyId); - const sqlDeleteSurveyFundingSourcesStatement = queries.survey.deleteSurveyFundingSourcesBySurveyIdSQL(surveyId); - - if ( - !sqlDeleteFocalSpeciesStatement || - !sqlDeleteAncillarySpeciesStatement || - !sqlDeleteSurveyFundingSourcesStatement - ) { - throw new HTTP400('Failed to build SQL delete statement'); - } - - const deleteFocalSpeciesPromises = connection.query( - sqlDeleteFocalSpeciesStatement.text, - sqlDeleteFocalSpeciesStatement.values - ); - - const deleteAncillarySpeciesPromises = connection.query( - sqlDeleteAncillarySpeciesStatement.text, - sqlDeleteAncillarySpeciesStatement.values - ); - - const deleteSurveyFundingSourcesPromises = connection.query( - sqlDeleteSurveyFundingSourcesStatement.text, - sqlDeleteSurveyFundingSourcesStatement.values - ); - - const [deleteFocalSpeciesResult, deleteAncillarySpeciesResult, deleteSurveyFundingSourcesResult] = await Promise.all([ - deleteFocalSpeciesPromises, - deleteAncillarySpeciesPromises, - deleteSurveyFundingSourcesPromises - ]); - - if (!deleteFocalSpeciesResult) { - throw new HTTP409('Failed to delete survey focal species data'); - } - - if (!deleteAncillarySpeciesResult) { - throw new HTTP409('Failed to delete survey ancillary species data'); - } - - if (!deleteSurveyFundingSourcesResult) { - throw new HTTP409('Failed to delete survey funding sources data'); - } - - const promises: Promise[] = []; - - putDetailsData.focal_species.forEach((focalSpeciesId: number) => - promises.push(insertFocalSpecies(focalSpeciesId, surveyId, connection)) - ); - - putDetailsData.ancillary_species.forEach((ancillarySpeciesId: number) => - promises.push(insertAncillarySpecies(ancillarySpeciesId, surveyId, connection)) - ); - - putDetailsData.funding_sources.forEach((fsId: number) => - promises.push(insertSurveyFundingSource(fsId, surveyId, connection)) - ); - - /* - To update a survey permit, we need to unassociate the old permit of the survey and then - insert the new survey - permit association - - Note: this is done by either inserting a brand new record into the permit table with a survey id OR - updating an existing record of the permit table and setting the survey id column value - */ - promises.push(unassociatePermitFromSurvey(surveyId, connection)); - // TODO 20211108: currently permit insert vs update is dictated by permit_type (needs fixing/updating) - if (putDetailsData.permit_number) { - promises.push( - insertSurveyPermit(putDetailsData.permit_number, putDetailsData.permit_type, projectId, surveyId, connection) - ); - } - - return Promise.all(promises); -}; - -export const updateSurveyProprietorData = async ( - surveyId: number, - entities: IUpdateSurvey, - connection: IDBConnection -): Promise => { - const putProprietorData = new PutSurveyProprietorData(entities.survey_proprietor); - const isProprietary = putProprietorData.survey_data_proprietary; - const wasProprietary = putProprietorData.id > 0 || false; - - let sqlStatement = null; - - if (!wasProprietary && !isProprietary) { - // 1. did not have proprietor data; still not requiring proprietor data - // do nothing - - return; - } else if (wasProprietary && !isProprietary) { - // 2. did have proprietor data; no longer requires proprietor data - // delete old record - - sqlStatement = queries.survey.deleteSurveyProprietorSQL(surveyId, putProprietorData.id); - } else if (!wasProprietary && isProprietary) { - // 3. did not have proprietor data; now requires proprietor data - // insert new record - - sqlStatement = queries.survey.postSurveyProprietorSQL( - surveyId, - new PostSurveyProprietorData(entities.survey_proprietor) - ); - } else { - // 4. did have proprietor data; updating proprietor data - // update existing record - - sqlStatement = queries.survey.putSurveyProprietorSQL(surveyId, putProprietorData); - } - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL statement'); - } - - const result = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!result || !result.rowCount) { - throw new HTTP409('Failed to update survey proprietor data'); - } -}; - -export const unassociatePermitFromSurvey = async (survey_id: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.survey.unassociatePermitFromSurveySQL(survey_id); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL update statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response) { - throw new HTTP400('Failed to update survey permit number data'); - } -}; - -export const updateSurveyPurposeAndMethodologyData = async ( - surveyId: number, - entities: IUpdateSurvey, - connection: IDBConnection -): Promise => { - const putPurposeAndMethodologyData = - (entities?.survey_purpose_and_methodology && - new PutSurveyPurposeAndMethodologyData(entities.survey_purpose_and_methodology)) || - null; - - const revision_count = putPurposeAndMethodologyData?.revision_count ?? null; - - if (!revision_count && revision_count !== 0) { - throw new HTTP400('Failed to parse request body'); - } - - const updateSurveySQLStatement = queries.survey.putSurveyPurposeAndMethodologySQL( - surveyId, - putPurposeAndMethodologyData, - revision_count - ); - - if (!updateSurveySQLStatement) { - throw new HTTP400('Failed to build SQL update statement'); - } - - const result = await connection.query(updateSurveySQLStatement.text, updateSurveySQLStatement.values); - if (!result || !result.rowCount) { - throw new HTTP409('Failed to update stale survey data'); - } - - const promises: Promise[] = []; - - promises.push(deleteSurveyVantageCodes(surveyId, connection)); - //Handle vantage codes associated to this survey - - if (putPurposeAndMethodologyData?.vantage_code_ids) { - promises.push( - Promise.all( - putPurposeAndMethodologyData.vantage_code_ids.map((vantageCode: number) => - insertVantageCodes(vantageCode, surveyId, connection) - ) - ) - ); - } - - await Promise.all(promises); - - await connection.commit(); -}; - -export const deleteSurveyVantageCodes = async (survey_id: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.survey.deleteSurveyVantageCodesSQL(survey_id); - - if (!sqlStatement) { - throw new HTTP400('Failed to build delete survey vantage codes SQL statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response) { - throw new HTTP500('Failed to delete survey vantage codes'); - } -}; diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/view.test.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/view.test.ts index 12ba608bc2..d678d3bd8f 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/view.test.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/view.test.ts @@ -1,419 +1,213 @@ import chai, { expect } from 'chai'; import { describe } from 'mocha'; +import OpenAPIResponseValidator, { OpenAPIResponseValidatorArgs } from 'openapi-response-validator'; import sinon from 'sinon'; import sinonChai from 'sinon-chai'; -import SQL from 'sql-template-strings'; -import { COMPLETION_STATUS } from '../../../../../constants/status'; import * as db from '../../../../../database/db'; import { HTTPError } from '../../../../../errors/custom-error'; -import survey_queries from '../../../../../queries/survey'; -import { getMockDBConnection } from '../../../../../__mocks__/db'; -import * as view from './view'; +import { SurveyObject } from '../../../../../models/survey-view'; +import { SurveyService } from '../../../../../services/survey-service'; +import { getMockDBConnection, getRequestHandlerMocks } from '../../../../../__mocks__/db'; +import { GET, getSurvey } from './view'; chai.use(sinonChai); -describe('getSurveyForView', () => { - afterEach(() => { - sinon.restore(); - }); - - const dbConnectionObj = getMockDBConnection(); - - const sampleReq = { - keycloak_token: {}, - params: { - projectId: 1, - surveyId: 2 - } - } as any; - - let actualResult = { - survey_details: { - id: null - }, - survey_purpose_and_methodology: { - id: null - }, - survey_proprietor: { - id: null - } - }; - - const sampleRes = { - status: () => { - return { - json: (result: any) => { - actualResult = result; - } - }; - } - }; - - it('should throw a 400 error when no get survey basic data sql statement produced', async () => { - const mockQuery = sinon.fake.resolves({ rowCount: 1, rows: [] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'getSurveyBasicDataForViewSQL').returns(null); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFundingSourcesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFocalSpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyAncillarySpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`valid sql`); - - try { - const requestHandler = view.getSurveyForView(); - await requestHandler(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL get statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); - - it('should throw a 400 error when no survey basic data returned', async () => { - const mockQuery = sinon.stub(); - - mockQuery - .onCall(0) - .resolves({ - rows: [] // empty response - }) - .onCall(1) - .resolves({ - rows: [{}] - }) - .onCall(2) - .resolves({ - rows: [{}] - }) - .onCall(3) - .resolves({ - rows: [{}] - }) - .onCall(4) - .resolves({ - rows: [{}] +describe('survey/{surveyId}/view', () => { + describe('response validation', () => { + const responseValidator = new OpenAPIResponseValidator((GET.apiDoc as unknown) as OpenAPIResponseValidatorArgs); + + describe('should succeed when', () => { + it('has valid values', async () => { + const apiResponse = { + surveyData: { + survey_details: { + survey_name: 'name', + start_date: '2020-04-04', + end_date: '2020-05-05', + biologist_first_name: 'first', + biologist_last_name: 'last', + publish_date: '', + revision_count: 1 + }, + species: { + focal_species: [1], + focal_species_names: ['1'], + ancillary_species: [3], + ancillary_species_names: ['3'] + }, + permit: { + permit_number: '123', + permit_type: 'type' + }, + funding: { + funding_sources: [ + { + pfs_id: 1, + agency_name: 'name', + funding_amount: 100, + funding_start_date: '2020-04-04', + funding_end_date: '2020-05-05' + } + ] + }, + purpose_and_methodology: { + field_method_id: 1, + additional_details: 'details', + intended_outcome_id: 8, + ecological_season_id: 1, + vantage_code_ids: [1, 2], + surveyed_all_areas: 'true', + revision_count: 0 + }, + proprietor: { + category_rationale: 'rationale', + disa_required: true, + first_nations_id: 1, + first_nations_name: 'name', + proprietor_name: 'name', + proprietor_type_id: 2, + proprietor_type_name: 'name' + }, + location: { + survey_area_name: 'location', + geometry: [] + } + }, + surveySupplementaryData: { + occurrence_submission: { + id: 1 + }, + summary_result: { + id: 2 + } + } + }; + + const response = responseValidator.validateResponse(200, apiResponse); + + expect(response).to.equal(undefined); }); - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'getSurveyBasicDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFundingSourcesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFocalSpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyAncillarySpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`valid sql`); - - try { - const requestHandler = view.getSurveyForView(); - await requestHandler(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to get survey basic data'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); - - it('should throw a 400 error when no get survey funding sql statement produced', async () => { - const mockQuery = sinon.fake.resolves({ rowCount: 1, rows: [] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery + it('contains nullable values where applicable', async () => { + const apiResponse = { + surveyData: { + survey_details: { + survey_name: 'name', + start_date: '2020-04-04', + end_date: '2020-05-05', + biologist_first_name: 'first', + biologist_last_name: 'last', + publish_date: null, + revision_count: 1 + }, + species: { + focal_species: [1], + focal_species_names: ['1'], + ancillary_species: null, + ancillary_species_names: null + }, + permit: { + permit_number: null, + permit_type: null + }, + funding: { + funding_sources: [ + { + pfs_id: null, + agency_name: null, + funding_amount: null, + funding_start_date: null, + funding_end_date: null + } + ] + }, + purpose_and_methodology: { + field_method_id: 1, + additional_details: null, + intended_outcome_id: null, + ecological_season_id: null, + vantage_code_ids: [], + surveyed_all_areas: 'false', + revision_count: 0 + }, + proprietor: null, + location: { + survey_area_name: 'location', + geometry: [] + } + }, + surveySupplementaryData: { + occurrence_submission: null, + summary_result: null + } + }; + + const response = responseValidator.validateResponse(200, apiResponse); + + expect(response).to.equal(undefined); + }); }); - - sinon.stub(survey_queries, 'getSurveyBasicDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFundingSourcesDataForViewSQL').returns(null); - sinon.stub(survey_queries, 'getSurveyFocalSpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyAncillarySpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`valid sql`); - - try { - const requestHandler = view.getSurveyForView(); - await requestHandler(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL get statement'); - expect((actualError as HTTPError).status).to.equal(400); - } }); - it('should throw a 400 error when no get survey species sql statement produced', async () => { - const mockQuery = sinon.fake.resolves({ rowCount: 1, rows: [] }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery + describe('getSurvey', () => { + afterEach(() => { + sinon.restore(); }); - sinon.stub(survey_queries, 'getSurveyBasicDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFundingSourcesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFocalSpeciesDataForViewSQL').returns(null); - sinon.stub(survey_queries, 'getSurveyAncillarySpeciesDataForViewSQL').returns(null); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`valid sql`); + it('fetches a survey', async () => { + const dbConnectionObj = getMockDBConnection(); - try { - const requestHandler = view.getSurveyForView(); - await requestHandler(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL get statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - it('should throw a 400 error when no survey species data returned', async () => { - const mockQuery = sinon.stub(); + sinon.stub(SurveyService.prototype, 'getSurveyById').resolves(({ id: 2 } as unknown) as SurveyObject); + sinon + .stub(SurveyService.prototype, 'getSurveySupplementaryDataById') + .resolves({ occurrence_submission: 1, summary_result: 2 }); - mockQuery - .onCall(0) - .resolves({ - rows: [{}] - }) - .onCall(1) - .resolves({ - rows: [{}] - }) - .onCall(2) - .resolves({ - rows: [{}] - }) - .onCall(3) - .resolves({ - rows: [] // empty response - }); + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); + mockReq.params = { + projectId: '1', + surveyId: '2' + }; - sinon.stub(survey_queries, 'getSurveyBasicDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFundingSourcesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFocalSpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyAncillarySpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`valid sql`); + mockReq.body = {}; - try { - const requestHandler = view.getSurveyForView(); - await requestHandler(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to get species data'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); + try { + const requestHandler = getSurvey(); - it('should throw a 400 error when no get survey proprietor sql statement produced', async () => { - const mockQuery = sinon.fake.resolves({ rowCount: 1, rows: [] }); + await requestHandler(mockReq, mockRes, mockNext); + } catch (actualError) { + expect.fail(); + } - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery + expect(mockRes.statusValue).to.equal(200); + expect(mockRes.jsonValue).to.eql({ + surveyData: { id: 2 }, + surveySupplementaryData: { occurrence_submission: 1, summary_result: 2 } + }); }); - sinon.stub(survey_queries, 'getSurveyBasicDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFundingSourcesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFocalSpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyAncillarySpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(null); - - try { - const requestHandler = view.getSurveyForView(); - await requestHandler(sampleReq, (null as unknown) as any, (null as unknown) as any); - expect.fail(); - } catch (actualError) { - expect((actualError as HTTPError).message).to.equal('Failed to build SQL get statement'); - expect((actualError as HTTPError).status).to.equal(400); - } - }); + it('catches and re-throws error', async () => { + const dbConnectionObj = getMockDBConnection({ release: sinon.stub() }); - it('should return the survey and survey proprietor row on success', async () => { - const survey_basic_data = { - id: 2, - name: 'name', - start_date: '2020/04/04', - end_date: '2020/05/05', - lead_first_name: 'first', - lead_last_name: 'last', - location_name: 'location', - geometry: [], - survey_basic_data: [], - revision_count: 1, - publish_timestamp: null, - number: '123', - type: 'scientific', - occurrence_submission_id: 3 - }; - const survey_purpose_and_methodology = { - id: 17, - field_method_id: 1, - additional_details: 'details', - ecological_season_id: 1, - intended_outcome_id: 8, - vantage_id: 2, - surveyed_all_areas: false, - revision_count: 0 - }; + sinon.stub(db, 'getDBConnection').returns(dbConnectionObj); - const survey_funding_source_data = { - pfs_id: 1, - funding_amount: 100, - funding_start_date: '2020/04/04', - funding_end_date: '2020/05/05', - agency_name: 'agency' - }; + sinon.stub(SurveyService.prototype, 'getSurveyById').rejects(new Error('a test error')); + sinon.stub(SurveyService.prototype, 'getSurveySupplementaryDataById').resolves(); - const survey_focal_species_data = { - focal_species: [], - focal_species_names: [] - }; - const survey_ancillary_species_data = { - ancillary_species: [], - ancillary_species_names: [] - }; + const { mockReq, mockRes, mockNext } = getRequestHandlerMocks(); - const survey_proprietor_data = { - id: 20, - proprietor_type_id: 12, - proprietor_type_name: 'type', - first_nations_name: 'fn name', - first_nations_id: 1, - category_rationale: 'rationale', - proprietor_name: 'name', - disa_required: true, - survey_data_proprietary: 'true', - revision_count: 3 - }; + try { + const requestHandler = getSurvey(); - const mockQuery = sinon.stub(); - - mockQuery - .onCall(0) - .resolves({ - rows: [survey_basic_data] - }) - .onCall(1) - .resolves({ - rows: [survey_purpose_and_methodology] - }) - .onCall(2) - .resolves({ - rows: [survey_funding_source_data] - }) - .onCall(3) - .resolves({ - rows: [survey_focal_species_data] - }) - .onCall(4) - .resolves({ - rows: [survey_ancillary_species_data] - }) - .onCall(5) - .resolves({ - rows: [survey_proprietor_data] - }); - - sinon.stub(db, 'getDBConnection').returns({ - ...dbConnectionObj, - systemUserId: () => { - return 20; - }, - query: mockQuery - }); - - sinon.stub(survey_queries, 'getSurveyBasicDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFundingSourcesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyFocalSpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyAncillarySpeciesDataForViewSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyPurposeAndMethodologyForUpdateSQL').returns(SQL`valid sql`); - sinon.stub(survey_queries, 'getSurveyProprietorForUpdateSQL').returns(SQL`valid sql`); - - const result = view.getSurveyForView(); - - await result(sampleReq, sampleRes as any, (null as unknown) as any); - - expect(actualResult.survey_details.id).to.equal(2); - expect(actualResult.survey_details).to.eql({ - id: survey_basic_data.id, - occurrence_submission_id: survey_basic_data.occurrence_submission_id, - survey_name: survey_basic_data.name, - focal_species: survey_focal_species_data.focal_species, - focal_species_names: survey_focal_species_data.focal_species_names, - ancillary_species: survey_ancillary_species_data.ancillary_species, - ancillary_species_names: survey_ancillary_species_data.ancillary_species_names, - start_date: survey_basic_data.start_date, - end_date: survey_basic_data.end_date, - biologist_first_name: survey_basic_data.lead_first_name, - biologist_last_name: survey_basic_data.lead_last_name, - survey_area_name: survey_basic_data.location_name, - revision_count: survey_basic_data.revision_count, - geometry: survey_basic_data.geometry, - permit_number: survey_basic_data.number, - permit_type: survey_basic_data.type, - completion_status: COMPLETION_STATUS.COMPLETED, - publish_date: '', - funding_sources: [ - { - pfs_id: survey_funding_source_data.pfs_id, - agency_name: survey_funding_source_data.agency_name, - funding_start_date: survey_funding_source_data.funding_start_date, - funding_end_date: survey_funding_source_data.funding_end_date, - funding_amount: survey_funding_source_data.funding_amount - } - ] - }); - expect(actualResult.survey_proprietor).to.eql({ - id: survey_proprietor_data.id, - proprietary_data_category: survey_proprietor_data.proprietor_type_id, - proprietary_data_category_name: survey_proprietor_data.proprietor_type_name, - first_nations_name: survey_proprietor_data.first_nations_name, - first_nations_id: survey_proprietor_data.first_nations_id, - category_rationale: survey_proprietor_data.category_rationale, - proprietor_name: survey_proprietor_data.proprietor_name, - survey_data_proprietary: survey_proprietor_data.survey_data_proprietary, - data_sharing_agreement_required: 'true', - revision_count: survey_proprietor_data.revision_count - }); + await requestHandler(mockReq, mockRes, mockNext); + expect.fail(); + } catch (actualError) { + expect(dbConnectionObj.release).to.have.been.called; - expect(actualResult.survey_purpose_and_methodology).to.eql({ - id: survey_purpose_and_methodology.id, - additional_details: survey_purpose_and_methodology.additional_details, - ecological_season_id: survey_purpose_and_methodology.ecological_season_id, - field_method_id: survey_purpose_and_methodology.field_method_id, - intended_outcome_id: survey_purpose_and_methodology.intended_outcome_id, - vantage_code_ids: [survey_purpose_and_methodology.vantage_id], - surveyed_all_areas: 'false', - revision_count: survey_purpose_and_methodology.revision_count + expect((actualError as HTTPError).message).to.equal('a test error'); + } }); }); }); diff --git a/api/src/paths/project/{projectId}/survey/{surveyId}/view.ts b/api/src/paths/project/{projectId}/survey/{surveyId}/view.ts index a3ddc832a9..e2002768eb 100644 --- a/api/src/paths/project/{projectId}/survey/{surveyId}/view.ts +++ b/api/src/paths/project/{projectId}/survey/{surveyId}/view.ts @@ -1,18 +1,10 @@ import { RequestHandler } from 'express'; import { Operation } from 'express-openapi'; import { PROJECT_ROLE } from '../../../../../constants/roles'; -import { getDBConnection, IDBConnection } from '../../../../../database/db'; -import { HTTP400 } from '../../../../../errors/custom-error'; -import { - GetAncillarySpeciesData, - GetFocalSpeciesData, - GetViewSurveyDetailsData -} from '../../../../../models/survey-view'; -import { GetSurveyProprietorData, GetSurveyPurposeAndMethodologyData } from '../../../../../models/survey-view-update'; +import { getDBConnection } from '../../../../../database/db'; import { geoJsonFeature } from '../../../../../openapi/schemas/geoJson'; -import { queries } from '../../../../../queries/queries'; import { authorizeRequestHandler } from '../../../../../request-handlers/security/authorization'; -import { TaxonomyService } from '../../../../../services/taxonomy-service'; +import { SurveyService } from '../../../../../services/survey-service'; import { getLogger } from '../../../../../utils/logger'; const defaultLog = getLogger('paths/project/{projectId}/survey/{surveyId}/view'); @@ -29,7 +21,7 @@ export const GET: Operation = [ ] }; }), - getSurveyForView() + getSurvey() ]; GET.apiDoc = { @@ -45,7 +37,8 @@ GET.apiDoc = { in: 'path', name: 'projectId', schema: { - type: 'number' + type: 'integer', + minimum: 1 }, required: true }, @@ -53,7 +46,8 @@ GET.apiDoc = { in: 'path', name: 'surveyId', schema: { - type: 'number' + type: 'integer', + minimum: 1 }, required: true } @@ -66,226 +60,279 @@ GET.apiDoc = { schema: { title: 'Survey get response object, for view purposes', type: 'object', - required: ['survey_details', 'survey_purpose_and_methodology', 'survey_proprietor'], + required: ['surveyData', 'surveySupplementaryData'], properties: { - survey_details: { - description: 'Survey Details', + surveyData: { type: 'object', required: [ - 'id', - 'occurrence_submission_id', - 'focal_species', - 'focal_species_names', - 'ancillary_species', - 'ancillary_species_names', - 'biologist_first_name', - 'biologist_last_name', - 'completion_status', - 'start_date', - 'end_date', - 'funding_sources', - 'geometry', - 'permit_number', - 'permit_type', - 'publish_date', - 'revision_count', - 'survey_area_name', - 'survey_name' + 'survey_details', + 'species', + 'permit', + 'funding', + 'proprietor', + 'purpose_and_methodology', + 'location' ], properties: { - id: { - description: 'Survey id', - type: 'number' - }, - ancillary_species: { - type: 'array', - items: { - type: 'number' - } - }, - ancillary_species_names: { - type: 'array', - items: { - type: 'string' + survey_details: { + description: 'Survey Details', + type: 'object', + required: [ + 'survey_name', + 'start_date', + 'biologist_first_name', + 'biologist_last_name', + 'publish_date', + 'revision_count' + ], + properties: { + survey_name: { + type: 'string' + }, + start_date: { + oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], + description: 'ISO 8601 date string for the funding end_date' + }, + end_date: { + oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], + nullable: true, + description: 'ISO 8601 date string for the funding end_date' + }, + biologist_first_name: { + type: 'string' + }, + biologist_last_name: { + type: 'string' + }, + publish_date: { + oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], + nullable: true, + description: 'Determines if the record has been published' + }, + revision_count: { + type: 'number' + } } }, - focal_species: { - type: 'array', - items: { - type: 'number' + species: { + description: 'Survey Species', + type: 'object', + required: ['focal_species', 'focal_species_names', 'ancillary_species', 'ancillary_species_names'], + properties: { + ancillary_species: { + nullable: true, + type: 'array', + items: { + type: 'number' + } + }, + ancillary_species_names: { + nullable: true, + type: 'array', + items: { + type: 'string' + } + }, + focal_species: { + type: 'array', + items: { + type: 'number' + } + }, + focal_species_names: { + type: 'array', + items: { + type: 'string' + } + } } }, - focal_species_names: { - type: 'array', - items: { - type: 'string' + permit: { + description: 'Survey Permit', + type: 'object', + required: ['permit_number', 'permit_type'], + properties: { + permit_number: { + type: 'string', + nullable: true + }, + permit_type: { + type: 'string', + nullable: true + } } }, - biologist_first_name: { - type: 'string' - }, - biologist_last_name: { - type: 'string' - }, - completion_status: { - type: 'string' - }, - start_date: { - type: 'string', - format: 'date', - description: 'ISO 8601 date string for the funding end_date' - }, - end_date: { - type: 'string', - format: 'date', - description: 'ISO 8601 date string for the funding end_date' - }, - funding_sources: { - type: 'array', - items: { - title: 'survey funding agency', - type: 'object', - required: ['agency_name', 'funding_amount', 'funding_start_date', 'funding_end_date'], - properties: { - pfs_id: { - type: 'number', - nullable: true - }, - agency_name: { - type: 'string', - nullable: true - }, - funding_amount: { - type: 'number', - nullable: true - }, - funding_start_date: { - type: 'string', - nullable: true, - description: 'ISO 8601 date string' - }, - funding_end_date: { - type: 'string', - nullable: true, - description: 'ISO 8601 date string' + funding: { + description: 'Survey Funding Sources', + type: 'object', + properties: { + funding_sources: { + type: 'array', + items: { + type: 'object', + required: [ + 'pfs_id', + 'agency_name', + 'funding_amount', + 'funding_start_date', + 'funding_end_date' + ], + properties: { + pfs_id: { + type: 'number', + nullable: true + }, + agency_name: { + type: 'string', + nullable: true + }, + funding_amount: { + type: 'number', + nullable: true + }, + funding_start_date: { + type: 'string', + nullable: true, + description: 'ISO 8601 date string' + }, + funding_end_date: { + type: 'string', + nullable: true, + description: 'ISO 8601 date string' + } + } } } } }, - geometry: { - type: 'array', - items: { - ...(geoJsonFeature as object) + purpose_and_methodology: { + description: 'Survey Details', + type: 'object', + required: [ + 'field_method_id', + 'additional_details', + 'intended_outcome_id', + 'ecological_season_id', + 'vantage_code_ids', + 'surveyed_all_areas', + 'revision_count' + ], + properties: { + field_method_id: { + type: 'number' + }, + additional_details: { + type: 'string', + nullable: true + }, + intended_outcome_id: { + type: 'number', + nullable: true + }, + ecological_season_id: { + type: 'number', + nullable: true + }, + vantage_code_ids: { + type: 'array', + items: { + type: 'number' + } + }, + surveyed_all_areas: { + type: 'string', + enum: ['true', 'false'] + } } }, - occurrence_submission_id: { - description: 'A survey occurrence submission ID', - type: 'number', + proprietor: { + description: 'Survey Proprietor Details', + type: 'object', nullable: true, - example: 1 - }, - permit_number: { - type: 'string' - }, - permit_type: { - type: 'string' - }, - publish_date: { - oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], - nullable: true, - description: 'Determines if the record has been published' - }, - revision_count: { - type: 'number' - }, - survey_area_name: { - type: 'string' - }, - survey_name: { - type: 'string' - } - } - }, - survey_purpose_and_methodology: { - description: 'Survey Details', - type: 'object', - required: [ - 'id', - 'field_method_id', - 'additional_details', - 'intended_outcome_id', - 'ecological_season_id', - 'vantage_code_ids', - 'surveyed_all_areas', - 'revision_count' - ], - properties: { - id: { - type: 'number' - }, - field_method_id: { - type: 'number' - }, - additional_details: { - type: 'string', - nullable: true - }, - intended_outcome_id: { - type: 'number', - nullable: true - }, - ecological_season_id: { - type: 'number', - nullable: true - }, - vantage_code_ids: { - type: 'array', - items: { - type: 'number' + required: [ + 'category_rationale', + 'disa_required', + 'first_nations_id', + 'first_nations_name', + 'proprietor_name', + 'proprietor_type_id', + 'proprietor_type_name' + ], + properties: { + category_rationale: { + type: 'string' + }, + disa_required: { + type: 'boolean' + }, + first_nations_id: { + type: 'number', + nullable: true + }, + first_nations_name: { + type: 'string', + nullable: true + }, + proprietor_name: { + type: 'string' + }, + proprietor_type_id: { + type: 'number' + }, + proprietor_type_name: { + type: 'string' + } } }, - surveyed_all_areas: { - type: 'string', - enum: ['true', 'false'] - }, - revision_count: { - type: 'number' + location: { + description: 'Survey location Details', + type: 'object', + required: ['survey_area_name', 'geometry'], + properties: { + survey_area_name: { + type: 'string' + }, + geometry: { + type: 'array', + items: { + ...(geoJsonFeature as object) + } + } + } } } }, - survey_proprietor: { - description: 'Survey Details', + surveySupplementaryData: { type: 'object', - nullable: true, + required: ['occurrence_submission', 'summary_result'], properties: { - survey_data_proprietary: { - type: 'string' - }, - id: { - type: 'number' - }, - category_rationale: { - type: 'string' - }, - data_sharing_agreement_required: { - type: 'string' - }, - first_nations_id: { - type: 'number', - nullable: true - }, - first_nations_name: { - type: 'string', - nullable: true - }, - proprietary_data_category: { - type: 'number' - }, - proprietary_data_category_name: { - type: 'string' + occurrence_submission: { + description: 'Occurrence Submission', + type: 'object', + nullable: true, + required: ['id'], + properties: { + id: { + description: 'A survey occurrence submission ID', + type: 'number', + nullable: true, + example: 1 + } + } }, - revision_count: { - type: 'number' + summary_result: { + description: 'Summary Result', + type: 'object', + nullable: true, + required: ['id'], + properties: { + id: { + description: 'A survey summary result ID', + type: 'number', + nullable: true, + example: 1 + } + } } } } @@ -312,62 +359,24 @@ GET.apiDoc = { } }; -/** - * Get a survey by projectId and surveyId. - * - * @returns {RequestHandler} - */ -export function getSurveyForView(): RequestHandler { +export function getSurvey(): RequestHandler { return async (req, res) => { - const connection = getDBConnection(req['keycloak_token']); - - if (!req.params.surveyId) { - throw new HTTP400('Missing required path param `surveyId`'); - } - const surveyId = Number(req.params.surveyId); + const connection = getDBConnection(req['keycloak_token']); + try { await connection.open(); - const [ - surveyBasicData, - surveyPurposeAndMethodology, - surveyFundingSourcesData, - SurveyFocalSpeciesData, - SurveyAncillarySpeciesData, - surveyProprietorData - ] = await Promise.all([ - getSurveyBasicDataForView(surveyId, connection), - getSurveyPurposeAndMethodologyDataForView(surveyId, connection), - getSurveyFundingSourcesDataForView(surveyId, connection), - getSurveyFocalSpeciesDataForView(surveyId, connection), - getSurveyAncillarySpeciesDataForView(surveyId, connection), - getSurveyProprietorDataForView(surveyId, connection) - ]); - - await connection.commit(); - - const getSurveyData = new GetViewSurveyDetailsData({ - ...surveyBasicData, - funding_sources: surveyFundingSourcesData, - ...SurveyFocalSpeciesData, - ...SurveyAncillarySpeciesData - }); + const surveyService = new SurveyService(connection); - const getSurveyPurposeAndMethodology = - (surveyPurposeAndMethodology && new GetSurveyPurposeAndMethodologyData(surveyPurposeAndMethodology))[0] || null; + const surveyData = await surveyService.getSurveyById(surveyId); - const getSurveyProprietorData = - (surveyProprietorData && new GetSurveyProprietorData(surveyProprietorData)) || null; + const surveySupplementaryData = await surveyService.getSurveySupplementaryDataById(Number(req.params.surveyId)); - const result = { - survey_details: getSurveyData, - survey_purpose_and_methodology: getSurveyPurposeAndMethodology, - survey_proprietor: getSurveyProprietorData - }; + await connection.commit(); - return res.status(200).json(result); + return res.status(200).json({ surveyData: surveyData, surveySupplementaryData: surveySupplementaryData }); } catch (error) { defaultLog.error({ label: 'getSurveyForView', message: 'error', error }); throw error; @@ -376,117 +385,3 @@ export function getSurveyForView(): RequestHandler { } }; } - -export const getSurveyBasicDataForView = async (surveyId: number, connection: IDBConnection): Promise => { - const sqlStatement = queries.survey.getSurveyBasicDataForViewSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL get statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response || !response?.rows?.[0]) { - throw new HTTP400('Failed to get survey basic data'); - } - - return (response && response.rows?.[0]) || null; -}; - -export const getSurveyPurposeAndMethodologyDataForView = async ( - surveyId: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.getSurveyPurposeAndMethodologyForUpdateSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL get statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response || !response?.rows?.[0]) { - throw new HTTP400('Failed to get survey purpose and methodology data'); - } - - return (response && response.rows) || []; -}; - -export const getSurveyFundingSourcesDataForView = async ( - surveyId: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.getSurveyFundingSourcesDataForViewSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL get statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - if (!response) { - throw new HTTP400('Failed to get survey funding sources data'); - } - - return (response && response.rows) || []; -}; - -export const getSurveyFocalSpeciesDataForView = async ( - surveyId: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.getSurveyFocalSpeciesDataForViewSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL get statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - const result = (response && response.rows) || null; - - if (!result) { - throw new HTTP400('Failed to get species data'); - } - - const taxonomyService = new TaxonomyService(); - - const species = await taxonomyService.getSpeciesFromIds(result); - - return new GetFocalSpeciesData(species); -}; - -export const getSurveyAncillarySpeciesDataForView = async ( - surveyId: number, - connection: IDBConnection -): Promise => { - const sqlStatement = queries.survey.getSurveyAncillarySpeciesDataForViewSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL get statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - const result = (response && response.rows) || null; - - if (!result) { - throw new HTTP400('Failed to get species data'); - } - - const taxonomyService = new TaxonomyService(); - - const species = await taxonomyService.getSpeciesFromIds(result); - - return new GetAncillarySpeciesData(species); -}; - -export const getSurveyProprietorDataForView = async (surveyId: number, connection: IDBConnection) => { - const sqlStatement = queries.survey.getSurveyProprietorForUpdateSQL(surveyId); - - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL get statement'); - } - - const response = await connection.query(sqlStatement.text, sqlStatement.values); - - return (response && response.rows?.[0]) || null; -}; diff --git a/api/src/paths/project/{projectId}/surveys.ts b/api/src/paths/project/{projectId}/surveys.ts index d8a926db82..45ac18b757 100644 --- a/api/src/paths/project/{projectId}/surveys.ts +++ b/api/src/paths/project/{projectId}/surveys.ts @@ -3,6 +3,7 @@ import { Operation } from 'express-openapi'; import { PROJECT_ROLE } from '../../../constants/roles'; import { getDBConnection } from '../../../database/db'; import { HTTP400 } from '../../../errors/custom-error'; +import { geoJsonFeature } from '../../../openapi/schemas/geoJson'; import { authorizeRequestHandler } from '../../../request-handlers/security/authorization'; import { SurveyService } from '../../../services/survey-service'; import { getLogger } from '../../../utils/logger'; @@ -44,43 +45,234 @@ GET.apiDoc = { ], responses: { 200: { - description: 'Survey response object.', + description: 'Survey list response object.', content: { 'application/json': { schema: { type: 'array', items: { - title: 'Survey Response Object', + title: 'Survey get response object, for view purposes', type: 'object', + required: ['survey_details', 'species', 'permit', 'funding', 'purpose_and_methodology', 'proprietor'], properties: { - survey: { + survey_details: { + description: 'Survey Details', type: 'object', + required: [ + 'id', + 'biologist_first_name', + 'biologist_last_name', + 'start_date', + 'geometry', + 'publish_date', + 'survey_area_name', + 'survey_name', + 'revision_count' + ], properties: { id: { + description: 'Survey id', type: 'number' }, - name: { + biologist_first_name: { type: 'string' }, - publish_status: { + biologist_last_name: { type: 'string' }, - completion_status: { + start_date: { + oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], + description: 'ISO 8601 date string for the funding end_date' + }, + end_date: { + oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], + nullable: true, + description: 'ISO 8601 date string for the funding end_date' + }, + geometry: { + type: 'array', + items: { + ...(geoJsonFeature as object) + } + }, + publish_date: { + oneOf: [{ type: 'object' }, { type: 'string', format: 'date' }], + nullable: true, + description: 'Determines if the record has been published' + }, + survey_area_name: { type: 'string' }, - start_date: { + survey_name: { + type: 'string' + }, + revision_count: { + type: 'number' + } + } + }, + species: { + description: 'Survey Species', + type: 'object', + required: ['focal_species', 'focal_species_names', 'ancillary_species', 'ancillary_species_names'], + properties: { + ancillary_species: { + nullable: true, + type: 'array', + items: { + type: 'number' + } + }, + ancillary_species_names: { + nullable: true, + type: 'array', + items: { + type: 'string' + } + }, + focal_species: { + type: 'array', + items: { + type: 'number' + } + }, + focal_species_names: { + type: 'array', + items: { + type: 'string' + } + } + } + }, + permit: { + description: 'Survey Permit', + type: 'object', + required: ['permit_number', 'permit_type'], + properties: { + permit_number: { type: 'string', - description: 'ISO 8601 date string' + nullable: true }, - end_date: { + permit_type: { type: 'string', - description: 'ISO 8601 date string', nullable: true } } }, - species: { - type: 'object' + funding: { + description: 'Survey Funding Sources', + type: 'object', + properties: { + funding_sources: { + type: 'array', + items: { + type: 'object', + required: ['pfs_id', 'agency_name', 'funding_amount', 'funding_start_date', 'funding_end_date'], + properties: { + pfs_id: { + type: 'number', + nullable: true + }, + agency_name: { + type: 'string', + nullable: true + }, + funding_amount: { + type: 'number', + nullable: true + }, + funding_start_date: { + type: 'string', + nullable: true, + description: 'ISO 8601 date string' + }, + funding_end_date: { + type: 'string', + nullable: true, + description: 'ISO 8601 date string' + } + } + } + } + } + }, + purpose_and_methodology: { + description: 'Survey Details', + type: 'object', + required: [ + 'field_method_id', + 'additional_details', + 'intended_outcome_id', + 'ecological_season_id', + 'vantage_code_ids', + 'surveyed_all_areas' + ], + properties: { + field_method_id: { + type: 'number' + }, + additional_details: { + type: 'string', + nullable: true + }, + intended_outcome_id: { + type: 'number', + nullable: true + }, + ecological_season_id: { + type: 'number', + nullable: true + }, + vantage_code_ids: { + type: 'array', + items: { + type: 'number' + } + }, + surveyed_all_areas: { + type: 'string', + enum: ['true', 'false'] + } + } + }, + proprietor: { + description: 'Survey Proprietor Details', + type: 'object', + nullable: true, + required: [ + 'category_rationale', + 'disa_required', + 'first_nations_id', + 'first_nations_name', + 'proprietor_name', + 'proprietor_type_id', + 'proprietor_type_name' + ], + properties: { + category_rationale: { + type: 'string' + }, + disa_required: { + type: 'boolean' + }, + first_nations_id: { + type: 'number', + nullable: true + }, + first_nations_name: { + type: 'string', + nullable: true + }, + proprietor_name: { + type: 'string' + }, + proprietor_type_id: { + type: 'number' + }, + proprietor_type_name: { + type: 'string' + } + } } } } diff --git a/api/src/paths/project/{projectId}/update.test.ts b/api/src/paths/project/{projectId}/update.test.ts index d25017f84a..98767455ca 100644 --- a/api/src/paths/project/{projectId}/update.test.ts +++ b/api/src/paths/project/{projectId}/update.test.ts @@ -46,14 +46,14 @@ describe('update', () => { const sampleResponse = { id: 1, - coordinator: null, + coordinator: undefined, permit: new GetPermitData(), - project: null, - objectives: null, - location: null, - iucn: null, - funding: null, - partnerships: null + project: undefined, + objectives: undefined, + location: undefined, + iucn: undefined, + funding: undefined, + partnerships: undefined }; mockReq.params = { diff --git a/api/src/paths/project/{projectId}/update.ts b/api/src/paths/project/{projectId}/update.ts index 73283eb9b4..fc6ae3ba0d 100644 --- a/api/src/paths/project/{projectId}/update.ts +++ b/api/src/paths/project/{projectId}/update.ts @@ -76,7 +76,6 @@ GET.apiDoc = { schema: { title: 'Project get response object, for update purposes', type: 'object', - required: ['project', 'permit', 'coordinator', 'objectives', 'location', 'iucn', 'funding', 'partnerships'], properties: { project: { description: 'Basic project metadata', diff --git a/api/src/paths/public/project/{projectId}/attachments/list.test.ts b/api/src/paths/public/project/{projectId}/attachments/list.test.ts index c16d347fab..b6b9e455e3 100644 --- a/api/src/paths/public/project/{projectId}/attachments/list.test.ts +++ b/api/src/paths/public/project/{projectId}/attachments/list.test.ts @@ -123,12 +123,25 @@ describe('getPublicProjectAttachments', () => { await result(sampleReq, sampleRes as any, (null as unknown) as any); - expect(actualResult).to.be.eql({ - attachmentsList: [ - { fileName: 'name1', fileType: 'Image', id: 13, lastModified: '2020-01-01', size: 50, securityToken: 'false' }, - { fileName: 'name2', fileType: 'Report', id: 14, lastModified: '2020-01-01', size: 50, securityToken: 'false' } - ] - }); + expect(actualResult).to.be.an('object'); + expect(actualResult).to.have.property('attachmentsList'); + + expect(actualResult.attachmentsList).to.be.an('array'); + expect(actualResult.attachmentsList).to.have.length(2); + + expect(actualResult.attachmentsList[0].fileName).to.equal('name1'); + expect(actualResult.attachmentsList[0].fileType).to.equal('Image'); + expect(actualResult.attachmentsList[0].id).to.equal(13); + expect(actualResult.attachmentsList[0].lastModified).to.match(new RegExp('2020-01-01T.*')); + expect(actualResult.attachmentsList[0].size).to.equal(50); + expect(actualResult.attachmentsList[0].securityToken).to.equal('false'); + + expect(actualResult.attachmentsList[1].fileName).to.equal('name2'); + expect(actualResult.attachmentsList[1].fileType).to.equal('Report'); + expect(actualResult.attachmentsList[1].id).to.equal(14); + expect(actualResult.attachmentsList[1].lastModified).to.match(new RegExp('2020-01-01T.*')); + expect(actualResult.attachmentsList[1].size).to.equal(50); + expect(actualResult.attachmentsList[1].securityToken).to.equal('false'); }); it('should return a list of project attachments where the lastModified is the update_date', async () => { @@ -178,12 +191,25 @@ describe('getPublicProjectAttachments', () => { await result(sampleReq, sampleRes as any, (null as unknown) as any); - expect(actualResult).to.be.eql({ - attachmentsList: [ - { fileName: 'name1', fileType: 'Image', id: 13, lastModified: '2020-04-04', size: 50, securityToken: 'false' }, - { fileName: 'name2', fileType: 'Report', id: 14, lastModified: '2020-04-04', size: 50, securityToken: 'false' } - ] - }); + expect(actualResult).to.be.an('object'); + expect(actualResult).to.have.property('attachmentsList'); + + expect(actualResult.attachmentsList).to.be.an('array'); + expect(actualResult.attachmentsList).to.have.length(2); + + expect(actualResult.attachmentsList[0].fileName).to.equal('name1'); + expect(actualResult.attachmentsList[0].fileType).to.equal('Image'); + expect(actualResult.attachmentsList[0].id).to.equal(13); + expect(actualResult.attachmentsList[0].lastModified).to.match(new RegExp('2020-04-04T.*')); + expect(actualResult.attachmentsList[0].size).to.equal(50); + expect(actualResult.attachmentsList[0].securityToken).to.equal('false'); + + expect(actualResult.attachmentsList[1].fileName).to.equal('name2'); + expect(actualResult.attachmentsList[1].fileType).to.equal('Report'); + expect(actualResult.attachmentsList[1].id).to.equal(14); + expect(actualResult.attachmentsList[1].lastModified).to.match(new RegExp('2020-04-04T.*')); + expect(actualResult.attachmentsList[1].size).to.equal(50); + expect(actualResult.attachmentsList[1].securityToken).to.equal('false'); }); it('should return null if the project has no attachments, on success', async () => { diff --git a/api/src/paths/xlsx/process.ts b/api/src/paths/xlsx/process.ts new file mode 100644 index 0000000000..bffef30aa2 --- /dev/null +++ b/api/src/paths/xlsx/process.ts @@ -0,0 +1,139 @@ +import { RequestHandler } from 'express'; +import { Operation } from 'express-openapi'; +import { PROJECT_ROLE } from '../../constants/roles'; +import { authorizeRequestHandler } from '../../request-handlers/security/authorization'; +import { getLogger } from '../../utils/logger'; +import { getSubmissionOutputS3Key, scrapeAndUploadOccurrences } from '../dwc/scrape-occurrences'; +import { + getOccurrenceSubmission, + getOccurrenceSubmissionInputS3Key, + getS3File, + getValidationRules, + persistParseErrors, + persistValidationResults, + prepDWCArchive +} from '../dwc/validate'; +import { + getTransformationRules, + getTransformationSchema, + persistTransformationResults, + transformXLSX +} from './transform'; +import { getValidationSchema, prepXLSX, validateXLSX } from './validate'; + +const defaultLog = getLogger('paths/xlsx/process'); + +export const POST: Operation = [ + authorizeRequestHandler((req) => { + return { + and: [ + { + validProjectRoles: [PROJECT_ROLE.PROJECT_LEAD, PROJECT_ROLE.PROJECT_EDITOR], + projectId: Number(req.body.project_id), + discriminator: 'ProjectRole' + } + ] + }; + }), + //general set up + getOccurrenceSubmission(), + getOccurrenceSubmissionInputS3Key(), + getS3File(), + prepXLSX(), + persistParseErrors(), + sendResponse(), + + //xlsx validate + getValidationSchema(), + getValidationRules(), + validateXLSX(), + persistValidationResults({ initialSubmissionStatusType: 'Template Validated' }), + + //xlsx transform functions + getTransformationSchema(), + getTransformationRules(), + transformXLSX(), + persistTransformationResults(), + + //scrape functions + getOccurrenceSubmission(), + getSubmissionOutputS3Key(), + getS3File(), + prepDWCArchive(), + scrapeAndUploadOccurrences() +]; + +POST.apiDoc = { + description: + 'Validates, transforms and scrapes an XLSX survey observation submission file into a Darwin Core Archive file, and scrapes the occurences from the DwC archive', + tags: ['survey', 'observation', 'xlsx'], + security: [ + { + Bearer: [] + } + ], + requestBody: { + description: 'Request body', + content: { + 'application/json': { + schema: { + type: 'object', + required: ['project_id', 'occurrence_submission_id'], + properties: { + project_id: { + type: 'number' + }, + occurrence_submission_id: { + description: 'A survey occurrence submission ID', + type: 'number', + example: 1 + } + } + } + } + } + }, + responses: { + 200: { + description: 'Transform XLSX survey observation submission OK', + content: { + 'application/json': { + schema: { + type: 'object', + properties: { + status: { + type: 'string' + }, + reason: { + type: 'string' + } + } + } + } + } + }, + 400: { + $ref: '#/components/responses/400' + }, + 401: { + $ref: '#/components/responses/401' + }, + 403: { + $ref: '#/components/responses/401' + }, + 500: { + $ref: '#/components/responses/500' + }, + default: { + $ref: '#/components/responses/default' + } + } +}; + +export function sendResponse(): RequestHandler { + return async (_req, res, next) => { + res.status(200).json({ status: 'success' }); + defaultLog.info({ label: 'xlsx process', message: `success sent` }); + next(); + }; +} diff --git a/api/src/paths/xlsx/transform.ts b/api/src/paths/xlsx/transform.ts index b69628c8ca..aa0fc2c0ad 100644 --- a/api/src/paths/xlsx/transform.ts +++ b/api/src/paths/xlsx/transform.ts @@ -192,7 +192,7 @@ export function getTransformationRules(): RequestHandler { }; } -function transformXLSX(): RequestHandler { +export function transformXLSX(): RequestHandler { return async (req, res, next) => { defaultLog.debug({ label: 'transformXLSX', message: 'xlsx transform' }); @@ -203,7 +203,7 @@ function transformXLSX(): RequestHandler { const xlsxTransformation = new XLSXTransformation(transformationSchemaParser, xlsxCsv); - const transformedData = xlsxTransformation.transform(); + const transformedData = await xlsxTransformation.transform(); const worksheets = xlsxTransformation.dataToSheet(transformedData); @@ -228,7 +228,6 @@ export function persistTransformationResults(): RequestHandler { return async (req, res, next) => { try { defaultLog.debug({ label: 'persistTransformationResults', message: 'xlsx transform' }); - const fileBuffers: { name: string; buffer: Buffer }[] = req['fileBuffers']; // Build the archive zip file diff --git a/api/src/queries/project/draft/draft-queries.ts b/api/src/queries/project/draft/draft-queries.ts index 158f35c82c..da2b9b45f7 100644 --- a/api/src/queries/project/draft/draft-queries.ts +++ b/api/src/queries/project/draft/draft-queries.ts @@ -25,6 +25,7 @@ export const postDraftSQL = (systemUserId: number, name: string, data: unknown): ) RETURNING webform_draft_id as id, + name, create_date::timestamptz, update_date::timestamptz; `; @@ -55,6 +56,7 @@ export const putDraftSQL = (id: number, name: string, data: unknown): SQLStateme webform_draft_id = ${id} RETURNING webform_draft_id as id, + name, create_date::timestamptz, update_date::timestamptz; `; @@ -76,7 +78,9 @@ export const getDraftsSQL = (systemUserId: number): SQLStatement | null => { const sqlStatement: SQLStatement = SQL` SELECT webform_draft_id as id, - name + name, + create_date::timestamptz, + update_date::timestamptz FROM webform_draft WHERE diff --git a/api/src/queries/project/project-view-queries.ts b/api/src/queries/project/project-view-queries.ts index 292e4c7eeb..616bb26eef 100644 --- a/api/src/queries/project/project-view-queries.ts +++ b/api/src/queries/project/project-view-queries.ts @@ -14,6 +14,7 @@ export const getProjectSQL = (projectId: number): SQLStatement | null => { return SQL` SELECT project.project_id as id, + project.uuid, project.project_type_id as pt_id, project_type.name as type, project.name, diff --git a/api/src/queries/survey/survey-create-queries.test.ts b/api/src/queries/survey/survey-create-queries.test.ts index 84fcb0385c..d9290f9200 100644 --- a/api/src/queries/survey/survey-create-queries.test.ts +++ b/api/src/queries/survey/survey-create-queries.test.ts @@ -1,6 +1,6 @@ import { expect } from 'chai'; import { describe } from 'mocha'; -import { PostSurveyObject, PostSurveyProprietorData } from '../../models/survey-create'; +import { PostProprietorData, PostSurveyObject } from '../../models/survey-create'; import { insertSurveyFundingSourceSQL, postAncillarySpeciesSQL, @@ -11,64 +11,86 @@ import { } from './survey-create-queries'; describe('postSurveySQL', () => { - it('returns null when null project param provided', () => { + it('returns null when null projectId param provided', () => { const survey = new PostSurveyObject(); const response = postSurveySQL((null as unknown) as number, survey); expect(response).to.be.null; }); - it('returns a survey id when valid project param provided without proprietary data and geometry', () => { + it('returns null when null survey data param provided', () => { + const response = postSurveySQL(1, (null as unknown) as PostSurveyObject); + + expect(response).to.be.null; + }); + + it('returns a sql statement when geometry array is empty', () => { const surveyData = { - survey_name: 'survey_name', - start_date: '2020/04/03', - end_date: '2020/05/05', - species: 'some species', - survey_purpose: 'purpose', - biologist_first_name: 'John', - biologist_last_name: 'Smith', - survey_area_name: 'some place', - survey_data_proprietary: false + survey_details: { + survey_name: 'survey_name', + start_date: '2020/04/03', + end_date: '2020/05/05', + biologist_first_name: 'John', + biologist_last_name: 'Smith' + }, + purpose_and_methodology: { + field_method_id: 1, + additional_details: 'details', + ecological_season_id: 2, + intended_outcome_id: 3, + surveyed_all_areas: true + }, + location: { + survey_area_name: 'some place', + geometry: [] + } }; - const postSurveyObject = new PostSurveyObject(surveyData); const response = postSurveySQL(1, postSurveyObject); expect(response).to.not.be.null; }); - it('returns a survey id when valid project param provided without proprietary data but with geometry', () => { + it('returns a sql statement when all values provided', () => { const surveyData = { - survey_name: 'survey_name', - start_date: '2020/04/03', - end_date: '2020/05/05', - species: 'some species', - survey_purpose: 'purpose', - biologist_first_name: 'John', - biologist_last_name: 'Smith', - survey_area_name: 'some place', - survey_data_proprietary: false, - geometry: [ - { - type: 'Feature', - id: 'myGeo', - geometry: { - type: 'Polygon', - coordinates: [ - [ - [-128, 55], - [-128, 55.5], - [-128, 56], - [-126, 58], - [-128, 55] + survey_details: { + survey_name: 'survey_name', + start_date: '2020/04/03', + end_date: '2020/05/05', + biologist_first_name: 'John', + biologist_last_name: 'Smith' + }, + purpose_and_methodology: { + field_method_id: 1, + additional_details: 'details', + ecological_season_id: 2, + intended_outcome_id: 3, + surveyed_all_areas: true + }, + location: { + survey_area_name: 'some place', + geometry: [ + { + type: 'Feature', + id: 'myGeo', + geometry: { + type: 'Polygon', + coordinates: [ + [ + [-128, 55], + [-128, 55.5], + [-128, 56], + [-126, 58], + [-128, 55] + ] ] - ] - }, - properties: { - name: 'Biohub Islands' + }, + properties: { + name: 'Biohub Islands' + } } - } - ] + ] + } }; const postSurveyObject = new PostSurveyObject(surveyData); @@ -81,24 +103,9 @@ describe('postSurveySQL', () => { }); }); -describe('postSurveyProprietarySQL', () => { - it('returns null when null surveyId provided', () => { - const survey_proprietor = new PostSurveyProprietorData(); - const response = postSurveyProprietorSQL((null as unknown) as number, survey_proprietor); - - expect(response).to.be.null; - }); - - it('returns a survey_proprietor id when valid survey param provided with proprietary data', () => { - const surveyProprietorData = { - proprietary_data_category: 2, - first_nations_id: 8, - category_rationale: 'rationale', - proprietor_name: 'a name', - data_sharing_agreement_required: false - }; - - const postSurveyProprietorData = new PostSurveyProprietorData(surveyProprietorData); +describe('postSurveyProprietorSQL', () => { + it('returns a sql statement', () => { + const postSurveyProprietorData = new PostProprietorData(null); const response = postSurveyProprietorSQL(1, postSurveyProprietorData); expect(response).to.not.be.null; diff --git a/api/src/queries/survey/survey-create-queries.ts b/api/src/queries/survey/survey-create-queries.ts index c805dbfea7..833bed1103 100644 --- a/api/src/queries/survey/survey-create-queries.ts +++ b/api/src/queries/survey/survey-create-queries.ts @@ -1,5 +1,5 @@ import { SQL, SQLStatement } from 'sql-template-strings'; -import { PostSurveyObject, PostSurveyProprietorData } from '../../models/survey-create'; +import { PostProprietorData, PostSurveyObject } from '../../models/survey-create'; import { queries } from '../queries'; /** @@ -18,36 +18,36 @@ export const postSurveySQL = (projectId: number, survey: PostSurveyObject): SQLS INSERT INTO survey ( project_id, name, - additional_details, - ecological_season_id, - intended_outcome_id, start_date, end_date, lead_first_name, lead_last_name, - location_name, - geojson, field_method_id, + additional_details, + ecological_season_id, + intended_outcome_id, surveyed_all_areas, + location_name, + geojson, geography ) VALUES ( ${projectId}, - ${survey.survey_name}, - ${survey.additional_details}, - ${survey.ecological_season_id}, - ${survey.intended_outcome_id}, - ${survey.start_date}, - ${survey.end_date}, - ${survey.biologist_first_name}, - ${survey.biologist_last_name}, - ${survey.survey_area_name}, - ${JSON.stringify(survey.geometry)}, - ${survey.field_method_id}, - ${survey.surveyed_all_areas} + ${survey.survey_details.survey_name}, + ${survey.survey_details.start_date}, + ${survey.survey_details.end_date}, + ${survey.survey_details.biologist_first_name}, + ${survey.survey_details.biologist_last_name}, + ${survey.purpose_and_methodology.field_method_id}, + ${survey.purpose_and_methodology.additional_details}, + ${survey.purpose_and_methodology.ecological_season_id}, + ${survey.purpose_and_methodology.intended_outcome_id}, + ${survey.purpose_and_methodology.surveyed_all_areas}, + ${survey.location.survey_area_name}, + ${JSON.stringify(survey.location.geometry)} `; - if (survey.geometry && survey.geometry.length) { - const geometryCollectionSQL = queries.spatial.generateGeometryCollectionSQL(survey.geometry); + if (survey.location.geometry && survey.location.geometry.length) { + const geometryCollectionSQL = queries.spatial.generateGeometryCollectionSQL(survey.location.geometry); sqlStatement.append(SQL` ,public.geography( @@ -79,38 +79,29 @@ export const postSurveySQL = (projectId: number, survey: PostSurveyObject): SQLS * SQL query to insert a survey_proprietor row. * * @param {number} surveyId - * @param {PostSurveyProprietorData} surveyProprietor + * @param {PostProprietorData} surveyProprietor * @returns {SQLStatement} sql query object */ -export const postSurveyProprietorSQL = ( - surveyId: number, - survey_proprietor: PostSurveyProprietorData -): SQLStatement | null => { - if (!surveyId || !survey_proprietor) { - return null; - } - - const sqlStatement: SQLStatement = SQL` - INSERT INTO survey_proprietor ( - survey_id, - proprietor_type_id, - first_nations_id, - rationale, - proprietor_name, - disa_required - ) VALUES ( - ${surveyId}, - ${survey_proprietor.prt_id}, - ${survey_proprietor.fn_id}, - ${survey_proprietor.rationale}, - ${survey_proprietor.proprietor_name}, - ${survey_proprietor.disa_required} - ) - RETURNING - survey_proprietor_id as id; -`; - - return sqlStatement; +export const postSurveyProprietorSQL = (surveyId: number, survey_proprietor: PostProprietorData): SQLStatement => { + return SQL` + INSERT INTO survey_proprietor ( + survey_id, + proprietor_type_id, + first_nations_id, + rationale, + proprietor_name, + disa_required + ) VALUES ( + ${surveyId}, + ${survey_proprietor.prt_id}, + ${survey_proprietor.fn_id}, + ${survey_proprietor.rationale}, + ${survey_proprietor.proprietor_name}, + ${survey_proprietor.disa_required} + ) + RETURNING + survey_proprietor_id as id; + `; }; /** diff --git a/api/src/queries/survey/survey-delete-queries.test.ts b/api/src/queries/survey/survey-delete-queries.test.ts index d2c162e28d..883415adcd 100644 --- a/api/src/queries/survey/survey-delete-queries.test.ts +++ b/api/src/queries/survey/survey-delete-queries.test.ts @@ -1,70 +1,32 @@ import { expect } from 'chai'; import { describe } from 'mocha'; import { - deleteAncillarySpeciesSQL, - deleteFocalSpeciesSQL, + deleteAllSurveySpeciesSQL, deleteSurveyFundingSourceByProjectFundingSourceIdSQL, deleteSurveyFundingSourcesBySurveyIdSQL, deleteSurveyProprietorSQL, - deleteSurveySQL + deleteSurveySQL, + deleteSurveyVantageCodesSQL } from './survey-delete-queries'; -describe('deleteFocalSpeciesSQL', () => { - it('returns null when null survey id param provided', () => { - const response = deleteFocalSpeciesSQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { - const response = deleteFocalSpeciesSQL(1); - - expect(response).to.not.be.null; - }); -}); - -describe('deleteAncillarySpeciesSQL', () => { - it('returns null when null survey id param provided', () => { - const response = deleteAncillarySpeciesSQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { - const response = deleteAncillarySpeciesSQL(1); +describe('deleteAllSurveySpeciesSQL', () => { + it('returns a sql statement', () => { + const response = deleteAllSurveySpeciesSQL(1); expect(response).to.not.be.null; }); }); describe('deleteSurveyProprietorSQL', () => { - it('returns null when surveyId is falsey value not equal to 0', () => { - const response = deleteSurveyProprietorSQL((null as unknown) as number, 1); - - expect(response).to.be.null; - }); - - it('returns null when survey proprietor id is falsey value not equal to 0', () => { - const response = deleteSurveyProprietorSQL(1, (null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { - const response = deleteSurveyProprietorSQL(1, 1); + it('returns a sql statement', () => { + const response = deleteSurveyProprietorSQL(1); expect(response).to.not.be.null; }); }); describe('deleteSurveySQL', () => { - it('returns null when surveyId is null', () => { - const response = deleteSurveySQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { + it('returns a sql statement', () => { const response = deleteSurveySQL(1); expect(response).to.not.be.null; @@ -72,14 +34,16 @@ describe('deleteSurveySQL', () => { }); describe('deleteSurveyFundingSourcesBySurveyIdSQL', () => { - it('returns null when surveyId is null', () => { - const response = deleteSurveyFundingSourcesBySurveyIdSQL((null as unknown) as number); + it('returns a sql statement', () => { + const response = deleteSurveyFundingSourcesBySurveyIdSQL(1); - expect(response).to.be.null; + expect(response).to.not.be.null; }); +}); - it('returns a non null response when valid params passed in', () => { - const response = deleteSurveyFundingSourcesBySurveyIdSQL(1); +describe('deleteSurveyVantageCodesSQL', () => { + it('returns a sql statement', () => { + const response = deleteSurveyVantageCodesSQL(1); expect(response).to.not.be.null; }); diff --git a/api/src/queries/survey/survey-delete-queries.ts b/api/src/queries/survey/survey-delete-queries.ts index 03734159b5..e7389b6c03 100644 --- a/api/src/queries/survey/survey-delete-queries.ts +++ b/api/src/queries/survey/survey-delete-queries.ts @@ -3,22 +3,16 @@ import { SQL, SQLStatement } from 'sql-template-strings'; /** * SQL query to delete survey funding sources rows based on survey id. * - * @param {number} surveyId + * @param {number} surveyIdF * @returns {SQLStatement} sql query object */ -export const deleteSurveyFundingSourcesBySurveyIdSQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - - const sqlStatement: SQLStatement = SQL` +export const deleteSurveyFundingSourcesBySurveyIdSQL = (surveyId: number): SQLStatement => { + return SQL` DELETE from survey_funding_source WHERE survey_id = ${surveyId}; `; - - return sqlStatement; }; /** @@ -45,73 +39,33 @@ export const deleteSurveyFundingSourceByProjectFundingSourceIdSQL = ( }; /** - * SQL query to delete survey focal species rows. + * SQL query to delete all survey species rows. * * @param {number} surveyId * @returns {SQLStatement} sql query object */ -export const deleteFocalSpeciesSQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - - const sqlStatement: SQLStatement = SQL` +export const deleteAllSurveySpeciesSQL = (surveyId: number): SQLStatement => { + return SQL` DELETE from study_species WHERE - survey_id = ${surveyId} - AND - is_focal; - `; - - return sqlStatement; -}; - -/** - * SQL query to delete survey ancillary species rows. - * - * @param {number} surveyId - * @returns {SQLStatement} sql query object - */ -export const deleteAncillarySpeciesSQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - - const sqlStatement: SQLStatement = SQL` - DELETE - from study_species - WHERE - survey_id = ${surveyId} - AND - is_focal is FALSE; + survey_id = ${surveyId}; `; - - return sqlStatement; }; /** * SQL query to delete survey proprietor rows. * * @param {number} surveyId - * @param {number} surveyProprietorId * @returns {SQLStatement} sql query object */ -export const deleteSurveyProprietorSQL = (surveyId: number, surveyProprietorId: number): SQLStatement | null => { - if ((!surveyId && surveyId !== 0) || (!surveyProprietorId && surveyProprietorId !== 0)) { - return null; - } - - const sqlStatement: SQLStatement = SQL` +export const deleteSurveyProprietorSQL = (surveyId: number): SQLStatement => { + return SQL` DELETE from survey_proprietor WHERE - survey_proprietor_id = ${surveyProprietorId} - AND - survey_id = ${surveyId} + survey_id = ${surveyId}; `; - - return sqlStatement; }; /** @@ -120,14 +74,8 @@ export const deleteSurveyProprietorSQL = (surveyId: number, surveyProprietorId: * @param {number} surveyId * @returns {SQLStatement} sql query object */ -export const deleteSurveySQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - - const sqlStatement: SQLStatement = SQL`call api_delete_survey(${surveyId})`; - - return sqlStatement; +export const deleteSurveySQL = (surveyId: number): SQLStatement => { + return SQL`call api_delete_survey(${surveyId})`; }; /** @@ -137,17 +85,11 @@ export const deleteSurveySQL = (surveyId: number): SQLStatement | null => { * @param {number} surveyProprietorId * @returns {SQLStatement} sql query object */ -export const deleteSurveyVantageCodesSQL = (surveyId: number): SQLStatement | null => { - if (!surveyId && surveyId !== 0) { - return null; - } - - const sqlStatement: SQLStatement = SQL` +export const deleteSurveyVantageCodesSQL = (surveyId: number): SQLStatement => { + return SQL` DELETE from survey_vantage WHERE - survey_id = ${surveyId} + survey_id = ${surveyId}; `; - - return sqlStatement; }; diff --git a/api/src/queries/survey/survey-update-queries.test.ts b/api/src/queries/survey/survey-update-queries.test.ts index d21c6b13ce..db770d9913 100644 --- a/api/src/queries/survey/survey-update-queries.test.ts +++ b/api/src/queries/survey/survey-update-queries.test.ts @@ -1,132 +1,87 @@ import { expect } from 'chai'; import { describe } from 'mocha'; -import { PutSurveyDetailsData, PutSurveyProprietorData } from '../../models/survey-update'; import { - putNewSurveyPermitNumberSQL, + PutSurveyDetailsData, + PutSurveyFundingData, + PutSurveyLocationData, + PutSurveyObject, + PutSurveyPermitData, + PutSurveyProprietorData, + PutSurveyPurposeAndMethodologyData, + PutSurveySpeciesData +} from '../../models/survey-update'; +import { + associateSurveyToPermitSQL, + insertSurveyPermitSQL, putSurveyDetailsSQL, - putSurveyProprietorSQL, unassociatePermitFromSurveySQL, updateSurveyPublishStatusSQL } from './survey-update-queries'; describe('putSurveyDetailsSQL', () => { - const surveyData: PutSurveyDetailsData = { - name: 'test', - focal_species: [1, 2], - ancillary_species: [3, 4], - start_date: '2020/04/04', - end_date: '2020/05/05', - lead_first_name: 'first', - lead_last_name: 'last', - revision_count: 1, - location_name: 'location', - permit_number: '12', - permit_type: 'scientific', - funding_sources: [1, 2], - geometry: [ - { - type: 'Feature', - geometry: { - type: 'Polygon', - coordinates: [ - [ - [-128, 55], - [-128, 55.5], - [-128, 56], - [-126, 58], - [-128, 55] - ] - ] - }, - properties: { - name: 'Biohub Islands' - } - } - ] - }; - - it('returns null when null project id param provided', () => { - const response = putSurveyDetailsSQL((null as unknown) as number, 1, surveyData, 1); - - expect(response).to.be.null; - }); - - it('returns null when null survey id param provided', () => { - const response = putSurveyDetailsSQL(1, (null as unknown) as number, surveyData, 1); - - expect(response).to.be.null; - }); - - it('returns null when null survey data param provided', () => { - const response = putSurveyDetailsSQL((null as unknown) as number, (null as unknown) as number, null, 1); - - expect(response).to.be.null; - }); - it('returns non null response when valid params provided with geometry', () => { - const response = putSurveyDetailsSQL(1, 2, surveyData, 1); + const response = putSurveyDetailsSQL(2, ({ + survey_details: new PutSurveyDetailsData(null), + species: new PutSurveySpeciesData(null), + permit: new PutSurveyPermitData(null), + funding: new PutSurveyFundingData(null), + proprietor: new PutSurveyProprietorData(null), + purpose_and_methodology: new PutSurveyPurposeAndMethodologyData(null), + location: new PutSurveyLocationData(null) + } as unknown) as PutSurveyObject); expect(response).to.not.be.null; }); it('returns non null response when valid params provided without geometry', () => { - const response = putSurveyDetailsSQL(1, 2, { ...surveyData, geometry: null as any }, 1); + const response = putSurveyDetailsSQL(2, ({ + survey_details: new PutSurveyDetailsData(null), + species: new PutSurveySpeciesData(null), + permit: new PutSurveyPermitData(null), + funding: new PutSurveyFundingData(null), + proprietor: new PutSurveyProprietorData(null), + purpose_and_methodology: new PutSurveyPurposeAndMethodologyData(null), + location: new PutSurveyLocationData({ + survey_area_name: 'name', + geometry: [ + { + type: 'Feature', + geometry: { + type: 'Polygon', + coordinates: [] + }, + properties: {} + } + ], + revision_count: 0 + }) + } as unknown) as PutSurveyObject); expect(response).to.not.be.null; }); }); describe('unassociatePermitFromSurveySQL', () => { - it('returns null when no surveyId provided', () => { - const response = unassociatePermitFromSurveySQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns sql statement when valid params provided', () => { + it('returns a sql statement', () => { const response = unassociatePermitFromSurveySQL(1); expect(response).to.not.be.null; }); }); -describe('putNewSurveyPermitNumberSQL', () => { - it('returns null when no surveyId provided', () => { - const response = putNewSurveyPermitNumberSQL((null as unknown) as number, '123'); - - expect(response).to.be.null; - }); - - it('returns null when no permit number provided', () => { - const response = putNewSurveyPermitNumberSQL(1, (null as unknown) as string); +describe('insertSurveyPermitSQL', () => { + it('returns a sql statement', () => { + const response = insertSurveyPermitSQL(1, 2, 3, '4', 'type'); - expect(response).to.be.null; - }); - - it('returns sql statement when valid params provided', () => { - const response = putNewSurveyPermitNumberSQL(1, '123'); - - expect(response).to.not.be.null; + expect(response).not.to.be.null; }); }); -describe('putSurveyProprietorSQL', () => { - it('returns null when surveyId is falsey value not equal to 0', () => { - const response = putSurveyProprietorSQL((null as unknown) as number, { prt_id: 1 } as PutSurveyProprietorData); +describe('associateSurveyToPermitSQL', () => { + it('returns a sql statement', () => { + const response = associateSurveyToPermitSQL(1, 2, '4'); - expect(response).to.be.null; - }); - - it('returns null when survey proprietor id is falsey value not equal to 0', () => { - const response = putSurveyProprietorSQL(1, (null as unknown) as PutSurveyProprietorData); - - expect(response).to.be.null; - }); - - it('returns a non null when valid params passed in', () => { - const response = putSurveyProprietorSQL(1, { prt_id: 1 } as PutSurveyProprietorData); - - expect(response).to.not.be.null; + expect(response).not.to.be.null; }); }); diff --git a/api/src/queries/survey/survey-update-queries.ts b/api/src/queries/survey/survey-update-queries.ts index a26309be9a..2447200939 100644 --- a/api/src/queries/survey/survey-update-queries.ts +++ b/api/src/queries/survey/survey-update-queries.ts @@ -1,9 +1,7 @@ +import { Knex } from 'knex'; import { SQL, SQLStatement } from 'sql-template-strings'; -import { - PutSurveyDetailsData, - PutSurveyProprietorData, - PutSurveyPurposeAndMethodologyData -} from '../../models/survey-update'; +import { getKnex } from '../../database/db'; +import { PutSurveyObject } from '../../models/survey-update'; import { queries } from '../queries'; /** @@ -13,13 +11,10 @@ import { queries } from '../queries'; * @param {number} surveyId * @returns {SQLStatement} sql query object */ -export const unassociatePermitFromSurveySQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - +export const unassociatePermitFromSurveySQL = (surveyId: number): SQLStatement => { return SQL` - UPDATE permit + UPDATE + permit SET survey_id = ${null} WHERE @@ -28,123 +23,138 @@ export const unassociatePermitFromSurveySQL = (surveyId: number): SQLStatement | }; /** - * SQL query to update a permit row based on a new survey association. + * Attempt to insert a new permit and associate the project and survey to it. + * + * On conflict (if the permit already exists and belongs to the project), update the permit and associate the survey + * to it. * + * @param {number} systemUserId + * @param {number} projectId * @param {number} surveyId * @param {string} permitNumber - * @returns {SQLStatement} sql query object + * @param {string} permitType + * @return {*} {SQLStatement} */ -export const putNewSurveyPermitNumberSQL = (surveyId: number, permitNumber: string): SQLStatement | null => { - if (!surveyId || !permitNumber) { - return null; - } - +export const insertSurveyPermitSQL = ( + systemUserId: number, + projectId: number, + surveyId: number, + permitNumber: string, + permitType: string +): SQLStatement => { return SQL` - UPDATE permit - SET + INSERT INTO permit ( + system_user_id, + project_id, + survey_id, + number, + type + ) VALUES ( + ${systemUserId}, + ${projectId}, + ${surveyId}, + ${permitNumber}, + ${permitType} + ) + ON CONFLICT (number) DO + UPDATE SET survey_id = ${surveyId} WHERE - number = ${permitNumber} + permit.project_id = ${projectId} AND - survey_id IS NULL; + permit.survey_id is NULL; `; }; /** - * SQL query to update a survey row. + * Update an existing permit by associatingF the survey to it. * * @param {number} projectId * @param {number} surveyId - * @param {PutSurveyDetailsData} data - * @returns {SQLStatement} sql query object + * @param {string} permitNumber + * @return {*} {(SQLStatement} */ -export const putSurveyDetailsSQL = ( - projectId: number, - surveyId: number, - data: PutSurveyDetailsData | null, - revision_count: number -): SQLStatement | null => { - if (!projectId || !surveyId || !data) { - return null; - } - - const geometrySqlStatement = SQL``; - - if (data.geometry && data.geometry.length) { - const geometryCollectionSQL = queries.spatial.generateGeometryCollectionSQL(data.geometry); - - geometrySqlStatement.append(SQL` - public.geography( - public.ST_Force2D( - public.ST_SetSRID( - `); - - geometrySqlStatement.append(geometryCollectionSQL); - - geometrySqlStatement.append(SQL` - , 4326))) - `); - } else { - geometrySqlStatement.append(SQL` - null - `); - } - - const sqlStatement = SQL` - UPDATE survey +export const associateSurveyToPermitSQL = (projectId: number, surveyId: number, permitNumber: string): SQLStatement => { + return SQL` + UPDATE + permit SET - name = ${data.name}, - start_date = ${data.start_date}, - end_date = ${data.end_date}, - lead_first_name = ${data.lead_first_name}, - lead_last_name = ${data.lead_last_name}, - location_name = ${data.location_name}, - geojson = ${JSON.stringify(data.geometry)}, - geography = - `; - - sqlStatement.append(geometrySqlStatement); - - sqlStatement.append(SQL` + survey_id = ${surveyId} WHERE project_id = ${projectId} AND - survey_id = ${surveyId} - AND - revision_count = ${revision_count}; - `); - - return sqlStatement; + number = ${permitNumber}; + `; }; /** - * SQL query to update a survey row. + * Knex query builder to update a survey row. * * @param {number} surveyId - * @param {number} surveyProprietorId - * @param {PutSurveyProprietorData} data - * @returns {SQLStatement} sql query object + * @param {PutSurveyObject} data + * @returns {Knex.QueryBuilder} knex query builder */ -export const putSurveyProprietorSQL = (surveyId: number, data: PutSurveyProprietorData | null): SQLStatement | null => { - if (!surveyId || !data) { - return null; +export const putSurveyDetailsSQL = (surveyId: number, data: PutSurveyObject): Knex.QueryBuilder => { + const knex = getKnex(); + + let fieldsToUpdate = {}; + + if (data.survey_details) { + fieldsToUpdate = { + ...fieldsToUpdate, + name: data.survey_details.name, + start_date: data.survey_details.start_date, + end_date: data.survey_details.end_date, + lead_first_name: data.survey_details.lead_first_name, + lead_last_name: data.survey_details.lead_last_name, + revision_count: data.survey_details.revision_count + }; } - return SQL` - UPDATE - survey_proprietor - SET - proprietor_type_id = ${data.prt_id}, - first_nations_id = ${data.fn_id}, - rationale = ${data.rationale}, - proprietor_name = ${data.proprietor_name}, - disa_required = ${data.disa_required}, - revision_count = ${data.revision_count} - WHERE - survey_proprietor_id = ${data.id} - AND - survey_id = ${surveyId} - `; + if (data.purpose_and_methodology) { + fieldsToUpdate = { + ...fieldsToUpdate, + field_method_id: data.purpose_and_methodology.field_method_id, + additional_details: data.purpose_and_methodology.additional_details, + ecological_season_id: data.purpose_and_methodology.ecological_season_id, + intended_outcome_id: data.purpose_and_methodology.intended_outcome_id, + surveyed_all_areas: data.purpose_and_methodology.surveyed_all_areas, + revision_count: data.purpose_and_methodology.revision_count + }; + } + + if (data.location) { + const geometrySqlStatement = SQL``; + + if (data.location.geometry && data.location.geometry.length) { + geometrySqlStatement.append(SQL` + public.geography( + public.ST_Force2D( + public.ST_SetSRID( + `); + + const geometryCollectionSQL = queries.spatial.generateGeometryCollectionSQL(data.location.geometry); + geometrySqlStatement.append(geometryCollectionSQL); + + geometrySqlStatement.append(SQL` + , 4326))) + `); + } else { + geometrySqlStatement.append(SQL` + null + `); + } + + fieldsToUpdate = { + ...fieldsToUpdate, + location_name: data.location.survey_area_name, + geojson: JSON.stringify(data.location.geometry), + geography: knex.raw(geometrySqlStatement.sql, geometrySqlStatement.values), + revision_count: data.location.revision_count + }; + } + + return knex('survey').update(fieldsToUpdate).where('survey_id', surveyId); }; /** @@ -190,36 +200,3 @@ export const updateSurveyPublishStatusSQL = (surveyId: number, publish: boolean) return sqlStatement; }; - -/** - * SQL query to update a survey row. - * - * @param {number} projectId - * @param {number} surveyId - * @param {PutSurveyPurposeAndMethodologyData} data - * @returns {SQLStatement} sql query object - */ -export const putSurveyPurposeAndMethodologySQL = ( - surveyId: number, - data: PutSurveyPurposeAndMethodologyData | null, - revision_count: number -): SQLStatement | null => { - if (!surveyId || !data) { - return null; - } - - return SQL` - UPDATE - survey - SET - field_method_id = ${data.field_method_id}, - additional_details = ${data.additional_details}, - ecological_season_id = ${data.ecological_season_id}, - intended_outcome_id = ${data.intended_outcome_id}, - surveyed_all_areas = ${data.surveyed_all_areas} - WHERE - survey_id = ${surveyId} - AND - revision_count = ${revision_count}; - `; -}; diff --git a/api/src/queries/survey/survey-view-queries.test.ts b/api/src/queries/survey/survey-view-queries.test.ts index ee6a1bfdc4..fdc5954388 100644 --- a/api/src/queries/survey/survey-view-queries.test.ts +++ b/api/src/queries/survey/survey-view-queries.test.ts @@ -1,9 +1,7 @@ import { expect } from 'chai'; import { describe } from 'mocha'; -import { getSurveySQL } from '../../queries/survey/survey-view-queries'; import { getAllAssignablePermitsForASurveySQL, - getSurveyAncillarySpeciesDataForViewSQL, getSurveyBasicDataForViewSQL, getSurveyFocalSpeciesDataForViewSQL, getSurveyFundingSourcesDataForViewSQL, @@ -25,33 +23,13 @@ describe('getAllAssignablePermitsForASurveySQL', () => { }); describe('getSurveyIdsSQL', () => { - it('returns null when null project id param provided', () => { - const response = getSurveyIdsSQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { + it('returns a sql statement', () => { const response = getSurveyIdsSQL(1); expect(response).to.not.be.null; }); }); -describe('getSurveyListSQL', () => { - it('returns a null response when null project id param provided', () => { - const response = getSurveySQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { - const response = getSurveySQL(1); - - expect(response).to.not.be.null; - }); -}); - describe('getSurveyBasicDataForViewSQL', () => { it('returns a null response when null survey id param provided', () => { const response = getSurveyBasicDataForViewSQL((null as unknown) as number); @@ -93,17 +71,3 @@ describe('getSurveyFocalSpeciesDataForViewSQL', () => { expect(response).to.not.be.null; }); }); - -describe('getSurveyAncillarySpeciesDataForViewSQL', () => { - it('returns a null response when null survey id param provided', () => { - const response = getSurveyAncillarySpeciesDataForViewSQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { - const response = getSurveyAncillarySpeciesDataForViewSQL(1); - - expect(response).to.not.be.null; - }); -}); diff --git a/api/src/queries/survey/survey-view-queries.ts b/api/src/queries/survey/survey-view-queries.ts index 41a0b4cf42..edc3d0bef7 100644 --- a/api/src/queries/survey/survey-view-queries.ts +++ b/api/src/queries/survey/survey-view-queries.ts @@ -33,11 +33,7 @@ export const getAllAssignablePermitsForASurveySQL = (projectId: number): SQLStat * @param {number} projectId * @returns {SQLStatement} sql query object */ -export const getSurveyIdsSQL = (projectId: number): SQLStatement | null => { - if (!projectId) { - return null; - } - +export const getSurveyIdsSQL = (projectId: number): SQLStatement => { return SQL` SELECT survey_id as id @@ -48,27 +44,6 @@ export const getSurveyIdsSQL = (projectId: number): SQLStatement | null => { `; }; -/** - * SQL query to get all surveys for list view. - * - * @param {number} projectId - * @returns {SQLStatement} sql query object - */ -export const getSurveySQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - - return SQL` - SELECT - * - FROM - survey - WHERE - survey_id = ${surveyId}; - `; -}; - export const getSurveyBasicDataForViewSQL = (surveyId: number): SQLStatement | null => { if (!surveyId) { return null; @@ -143,26 +118,30 @@ export const getSurveyFundingSourcesDataForViewSQL = (surveyId: number): SQLStat return SQL` SELECT - sfs.project_funding_source_id as pfs_id, + sfs.project_funding_source_id, + fs.funding_source_id, + pfs.funding_source_project_id, pfs.funding_amount::numeric::int, pfs.funding_start_date, pfs.funding_end_date, + iac.investment_action_category_id, + iac.name as investment_action_category_name, fs.name as agency_name FROM survey as s - LEFT OUTER JOIN + RIGHT OUTER JOIN survey_funding_source as sfs ON sfs.survey_id = s.survey_id - LEFT OUTER JOIN + RIGHT OUTER JOIN project_funding_source as pfs ON pfs.project_funding_source_id = sfs.project_funding_source_id - LEFT OUTER JOIN + RIGHT OUTER JOIN investment_action_category as iac ON pfs.investment_action_category_id = iac.investment_action_category_id - LEFT OUTER JOIN + RIGHT OUTER JOIN funding_source as fs ON iac.funding_source_id = fs.funding_source_id @@ -170,11 +149,15 @@ export const getSurveyFundingSourcesDataForViewSQL = (surveyId: number): SQLStat s.survey_id = ${surveyId} GROUP BY sfs.project_funding_source_id, - pfs.funding_amount::numeric::int, + fs.funding_source_id, + pfs.funding_source_project_id, + pfs.funding_amount, pfs.funding_start_date, pfs.funding_end_date, + iac.investment_action_category_id, + iac.name, fs.name - order by + ORDER BY pfs.funding_start_date; `; }; @@ -186,7 +169,7 @@ export const getSurveyFocalSpeciesDataForViewSQL = (surveyId: number): SQLStatem return SQL` SELECT - wldtaxonomic_units_id + wldtaxonomic_units_id, is_focal FROM study_species WHERE @@ -196,19 +179,32 @@ export const getSurveyFocalSpeciesDataForViewSQL = (surveyId: number): SQLStatem `; }; -export const getSurveyAncillarySpeciesDataForViewSQL = (surveyId: number): SQLStatement | null => { +export const getLatestOccurrenceSubmissionIdSQL = (surveyId: number): SQLStatement | null => { if (!surveyId) { return null; } return SQL` SELECT - wldtaxonomic_units_id + max(occurrence_submission_id) as id FROM - study_species + occurrence_submission WHERE - survey_id = ${surveyId} - AND - is_focal = FALSE; + survey_id = ${surveyId}; + `; +}; + +export const getLatestSummaryResultIdSQL = (surveyId: number): SQLStatement | null => { + if (!surveyId) { + return null; + } + + return SQL` + SELECT + max(survey_summary_submission_id) as id + FROM + survey_summary_submission + WHERE + survey_id = ${surveyId}; `; }; diff --git a/api/src/queries/survey/survey-view-update-queries.test.ts b/api/src/queries/survey/survey-view-update-queries.test.ts index afdb76e2e6..c58c9e0fcc 100644 --- a/api/src/queries/survey/survey-view-update-queries.test.ts +++ b/api/src/queries/survey/survey-view-update-queries.test.ts @@ -1,29 +1,20 @@ import { expect } from 'chai'; import { describe } from 'mocha'; -import { getSurveyDetailsForUpdateSQL, getSurveyProprietorForUpdateSQL } from './survey-view-update-queries'; +import { + getSurveyProprietorForUpdateSQL, + getSurveyPurposeAndMethodologyForUpdateSQL +} from './survey-view-update-queries'; -describe('getSurveyDetailsForUpdateSQL', () => { - it('returns null when null survey id param provided', () => { - const response = getSurveyDetailsForUpdateSQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { - const response = getSurveyDetailsForUpdateSQL(1); +describe('getSurveyPurposeAndMethodologyForUpdateSQL', () => { + it('returns a sql statement', () => { + const response = getSurveyPurposeAndMethodologyForUpdateSQL(1); expect(response).to.not.be.null; }); }); -describe('getSurveyProprietorSQL', () => { - it('returns null when null survey id param provided', () => { - const response = getSurveyProprietorForUpdateSQL((null as unknown) as number); - - expect(response).to.be.null; - }); - - it('returns a non null response when valid params passed in', () => { +describe('getSurveyProprietorForUpdateSQL', () => { + it('returns a sql statement', () => { const response = getSurveyProprietorForUpdateSQL(1); expect(response).to.not.be.null; diff --git a/api/src/queries/survey/survey-view-update-queries.ts b/api/src/queries/survey/survey-view-update-queries.ts index f03e6cf714..0b0944e631 100644 --- a/api/src/queries/survey/survey-view-update-queries.ts +++ b/api/src/queries/survey/survey-view-update-queries.ts @@ -1,106 +1,14 @@ import { SQL, SQLStatement } from 'sql-template-strings'; -/** - * SQL query to retrieve a survey row for update purposes. - * - * @param {number} surveyId - * @returns {SQLStatement} sql query object - */ -export const getSurveyDetailsForUpdateSQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - - return SQL` - SELECT - s.survey_id as id, - s.name, - s.additional_details, - s.start_date, - s.end_date, - s.lead_first_name, - s.lead_last_name, - s.location_name, - s.geojson as geometry, - s.revision_count, - s.field_method_id, - s.surveyed_all_areas, - s.publish_timestamp as publish_date, - per.number, - per.type, - array_remove( - array_agg( - distinct sfs.project_funding_source_id - ), - NULL - ) as pfs_id, - array_remove( - array_agg( - DISTINCT CASE - WHEN ss.is_focal = TRUE - THEN ss.wldtaxonomic_units_id - END - ), - NULL - ) as focal_species, - array_remove( - array_agg( - DISTINCT CASE - WHEN ss.is_focal = FALSE - THEN ss.wldtaxonomic_units_id - END - ), - NULL - ) as ancillary_species - FROM - study_species as ss - LEFT OUTER JOIN - survey as s - ON - s.survey_id = ss.survey_id - LEFT OUTER JOIN - permit as per - ON - per.survey_id = s.survey_id - LEFT OUTER JOIN - survey_funding_source as sfs - ON - sfs.survey_id = s.survey_id - WHERE - s.survey_id = ${surveyId} - group by - s.survey_id, - s.name, - s.additional_details, - s.start_date, - s.end_date, - s.lead_first_name, - s.lead_last_name, - s.location_name, - s.geojson, - s.revision_count, - s.field_method_id, - s.surveyed_all_areas, - s.publish_timestamp, - per.number, - per.type; - `; -}; - /** * SQL query to retrieve a survey_proprietor row. * * @param {number} surveyId * @returns {SQLStatement} sql query object */ -export const getSurveyProprietorForUpdateSQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - +export const getSurveyProprietorForUpdateSQL = (surveyId: number): SQLStatement => { return SQL` SELECT - sp.survey_proprietor_id as id, prt.name as proprietor_type_name, prt.proprietor_type_id, fn.name as first_nations_name, @@ -130,49 +38,28 @@ export const getSurveyProprietorForUpdateSQL = (surveyId: number): SQLStatement * @param {number} surveyId * @returns {SQLStatement} sql query object */ -export const getSurveyPurposeAndMethodologyForUpdateSQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - - return SQL` - SELECT - s.survey_id as id, - s.field_method_id, - s.additional_details, - s.ecological_season_id, - s.intended_outcome_id, - s.surveyed_all_areas, - sv.vantage_id, - s.revision_count - FROM - survey s - LEFT OUTER JOIN - survey_vantage sv - ON - sv.survey_id = s.survey_id - WHERE - s.survey_id = ${surveyId}; - `; -}; - -/** - * SQL query to retrieve a survey_proprietor row. - * - * @param {number} surveyId - * @returns {SQLStatement} sql query object - */ -export const getSurveyVantageCodesSQL = (surveyId: number): SQLStatement | null => { - if (!surveyId) { - return null; - } - +export const getSurveyPurposeAndMethodologyForUpdateSQL = (surveyId: number): SQLStatement => { return SQL` SELECT - vantage_id + s.field_method_id, + s.additional_details, + s.ecological_season_id, + s.intended_outcome_id, + s.surveyed_all_areas, + array_agg(sv.vantage_id) as vantage_ids FROM - survey_vantage + survey s + LEFT OUTER JOIN + survey_vantage sv + ON + sv.survey_id = s.survey_id WHERE - survey_id = ${surveyId}; + s.survey_id = ${surveyId} + GROUP BY + s.field_method_id, + s.additional_details, + s.ecological_season_id, + s.intended_outcome_id, + s.surveyed_all_areas; `; }; diff --git a/api/src/services/eml-service.test.ts b/api/src/services/eml-service.test.ts new file mode 100644 index 0000000000..90a76f87dd --- /dev/null +++ b/api/src/services/eml-service.test.ts @@ -0,0 +1,17 @@ +import chai, { expect } from 'chai'; +import { describe } from 'mocha'; +import sinonChai from 'sinon-chai'; +import { getMockDBConnection } from '../__mocks__/db'; +import { EmlService } from './eml-service'; + +chai.use(sinonChai); + +describe('EmlService', () => { + it('constructs', () => { + const dbConnectionObj = getMockDBConnection(); + + const emlService = new EmlService({ projectId: 1 }, dbConnectionObj); + + expect(emlService).to.be.instanceof(EmlService); + }); +}); diff --git a/api/src/services/eml-service.ts b/api/src/services/eml-service.ts new file mode 100644 index 0000000000..23f8ed77ca --- /dev/null +++ b/api/src/services/eml-service.ts @@ -0,0 +1,817 @@ +import bbox from '@turf/bbox'; +import circle from '@turf/circle'; +import { AllGeoJSON, featureCollection } from '@turf/helpers'; +import { coordEach } from '@turf/meta'; +import jsonpatch from 'fast-json-patch'; +import xml2js from 'xml2js'; +import { IDBConnection } from '../database/db'; +import { IGetProject } from '../models/project-view'; +import { SurveyObject } from '../models/survey-view'; +import { getDbCharacterSystemMetaDataConstantSQL } from '../queries/codes/db-constant-queries'; +import { CodeService, IAllCodeSets } from './code-service'; +import { ProjectService } from './project-service'; +import { DBService } from './service'; +import { SurveyService } from './survey-service'; +import { TaxonomyService } from './taxonomy-service'; + +const NOT_SUPPLIED_CONSTANT = 'Not Supplied'; + +const DEFAULT_DB_CONSTANTS = { + EML_VERSION: '1.0.0', + EML_PROVIDER_URL: NOT_SUPPLIED_CONSTANT, + EML_SECURITY_PROVIDER_URL: NOT_SUPPLIED_CONSTANT, + EML_ORGANIZATION_NAME: NOT_SUPPLIED_CONSTANT, + EML_ORGANIZATION_URL: NOT_SUPPLIED_CONSTANT, + EML_TAXONOMIC_PROVIDER_URL: NOT_SUPPLIED_CONSTANT, + EML_INTELLECTUAL_RIGHTS: NOT_SUPPLIED_CONSTANT +}; + +type EMLDBConstants = { + EML_VERSION: string; + EML_PROVIDER_URL: string; + EML_SECURITY_PROVIDER_URL: string; + EML_ORGANIZATION_NAME: string; + EML_ORGANIZATION_URL: string; + EML_TAXONOMIC_PROVIDER_URL: string; + EML_INTELLECTUAL_RIGHTS: string; +}; + +type Cache = { + projectData?: IGetProject; + surveyData?: SurveyObject[]; + codes?: IAllCodeSets; +}; + +type BuildProjectEMLOptions = { + /** + * Whether or not to include typically non-public data in the EML. Defaults to `false`. + * + * @type {boolean} + */ + includeSensitiveData?: boolean; + /** + * Specify which surveys to include in the EML. Defaults to undefined (all surveys). + * + * Usage: + * - If left unset (undefined), all surveys will be included (default). + * - If set to an array, then only those surveys will be included. An empty array indicates no surveys should be + * included. + * + * @type {number[]} + */ + surveyIds?: number[]; +}; + +/** + * Service to produce EML data for a project. + * + * @see https://eml.ecoinformatics.org for EML specification + * @see https://knb.ecoinformatics.org/emlparser/ for an online EML validator. + * @export + * @class EmlService + * @extends {DBService} + */ +export class EmlService extends DBService { + data: Record = {}; + + _packageId: string | undefined; + + projectId: number; + surveyIds: number[] | undefined = undefined; + + projectService: ProjectService; + surveyService: SurveyService; + codeService: CodeService; + + cache: Cache = {}; + + constants: EMLDBConstants = DEFAULT_DB_CONSTANTS; + + xml2jsBuilder: xml2js.Builder; + + includeSensitiveData = false; + + constructor(options: { projectId: number; packageId?: string }, connection: IDBConnection) { + super(connection); + + this._packageId = options.packageId; + + this.projectId = options.projectId; + + this.projectService = new ProjectService(this.connection); + this.surveyService = new SurveyService(this.connection); + this.codeService = new CodeService(this.connection); + + this.xml2jsBuilder = new xml2js.Builder({ renderOpts: { pretty: false } }); + } + + /** + * Compiles and returns the project metadata as an Ecological Metadata Language (EML) compliant XML string. + * + * @param {BuildProjectEMLOptions} options + * @return {*} + * @memberof EmlService + */ + async buildProjectEml(options: BuildProjectEMLOptions) { + this.includeSensitiveData = options.includeSensitiveData || false; + + this.surveyIds = options.surveyIds; + + await this.loadProjectData(); + await this.loadSurveyData(); + await this.loadEMLDBConstants(); + await this.loadCodes(); + + this.buildEMLSection(); + this.buildAccessSection(); + await this.buildDatasetSection(); + await this.buildAdditionalMetadataSection(); + + return this.xml2jsBuilder.buildObject(this.data); + } + + async loadEMLDBConstants() { + const [ + organizationUrl, + organizationName, + providerURL, + securityProviderURL, + organizationURL, + intellectualRights, + taxonomicProviderURL + ] = await Promise.all([ + this.connection.sql<{ constant: string }>(getDbCharacterSystemMetaDataConstantSQL('ORGANIZATION_URL')), + this.connection.sql<{ constant: string }>(getDbCharacterSystemMetaDataConstantSQL('ORGANIZATION_NAME_FULL')), + this.connection.sql<{ constant: string }>(getDbCharacterSystemMetaDataConstantSQL('PROVIDER_URL')), + this.connection.sql<{ constant: string }>(getDbCharacterSystemMetaDataConstantSQL('SECURITY_PROVIDER_URL')), + this.connection.sql<{ constant: string }>(getDbCharacterSystemMetaDataConstantSQL('ORGANIZATION_URL')), + this.connection.sql<{ constant: string }>(getDbCharacterSystemMetaDataConstantSQL('INTELLECTUAL_RIGHTS')), + this.connection.sql<{ constant: string }>(getDbCharacterSystemMetaDataConstantSQL('TAXONOMIC_PROVIDER_URL')) + ]); + + this.constants.EML_ORGANIZATION_URL = organizationUrl.rows[0].constant || NOT_SUPPLIED_CONSTANT; + this.constants.EML_ORGANIZATION_NAME = organizationName.rows[0].constant || NOT_SUPPLIED_CONSTANT; + this.constants.EML_PROVIDER_URL = providerURL.rows[0].constant || NOT_SUPPLIED_CONSTANT; + this.constants.EML_SECURITY_PROVIDER_URL = securityProviderURL.rows[0].constant || NOT_SUPPLIED_CONSTANT; + this.constants.EML_ORGANIZATION_URL = organizationURL.rows[0].constant || NOT_SUPPLIED_CONSTANT; + this.constants.EML_INTELLECTUAL_RIGHTS = intellectualRights.rows[0].constant || NOT_SUPPLIED_CONSTANT; + this.constants.EML_TAXONOMIC_PROVIDER_URL = taxonomicProviderURL.rows[0].constant || NOT_SUPPLIED_CONSTANT; + } + + get packageId(): string { + if (!this._packageId) { + return this.projectData.project.uuid; + } + + return this._packageId; + } + + get codes(): IAllCodeSets { + if (!this.cache.codes) { + throw Error('Codes data was not loaded'); + } + + return this.cache.codes; + } + + async loadCodes() { + const allCodeSets = await this.codeService.getAllCodeSets(); + + this.cache.codes = allCodeSets; + } + + get projectData(): IGetProject { + if (!this.cache.projectData) { + throw Error('Project data was not loaded'); + } + + return this.cache.projectData; + } + + async loadProjectData() { + const projectData = await this.projectService.getProjectById(this.projectId); + + this.cache.projectData = projectData; + } + + get surveyData(): SurveyObject[] { + if (!this.cache.surveyData) { + throw Error('Survey data was not loaded'); + } + + return this.cache.surveyData; + } + + async loadSurveyData() { + const response = await this.surveyService.getSurveyIdsByProjectId(this.projectId); + + const allSurveyIds = response.map((item) => item.id); + + // if `BuildProjectEMLOptions.surveyIds` was provided then filter out any ids not in the list + const includedSurveyIds = allSurveyIds.filter((item) => !this.surveyIds || this.surveyIds?.includes(item)); + + const surveyData = await this.surveyService.getSurveysByIds(includedSurveyIds); + + this.cache.surveyData = surveyData; + } + + buildEMLSection() { + jsonpatch.applyOperation(this.data, { + op: 'add', + path: '/eml:eml', + value: { + $: { + packageId: `urn:uuid:${this.packageId}`, + system: this.constants.EML_PROVIDER_URL, + 'xmlns:eml': 'https://eml.ecoinformatics.org/eml-2.2.0', + 'xmlns:xsi': 'http://www.w3.org/2001/XMLSchema-instance', + 'xmlns:stmml': 'http://www.xml-cml.org/schema/schema24', + 'xsi:schemaLocation': 'https://eml.ecoinformatics.org/eml-2.2.0 xsd/eml.xsd' + } + } + }); + } + + buildAccessSection() { + jsonpatch.applyOperation(this.data, { + op: 'add', + path: '/eml:eml/access', + value: { + $: { authSystem: this.constants.EML_SECURITY_PROVIDER_URL, order: 'allowFirst' }, + allow: { principal: 'public', permission: 'read' } + } + }); + } + + async buildDatasetSection(options?: { datasetTitle?: string }) { + jsonpatch.applyOperation(this.data, { + op: 'add', + path: '/eml:eml/dataset', + value: { + $: { system: this.constants.EML_PROVIDER_URL, id: this.packageId }, + title: options?.datasetTitle || this.projectData.project.project_name, + creator: this.getDatasetCreator(), + ...(this.projectData.project.publish_date && { pubDate: this.projectData.project.publish_date }), + metadataProvider: { + organizationName: this.constants.EML_ORGANIZATION_NAME, + onlineUrl: this.constants.EML_ORGANIZATION_URL + }, + language: 'English', + contact: this.getProjectContact(), + project: { + $: { id: this.projectData.project.uuid, system: this.constants.EML_PROVIDER_URL }, + title: this.projectData.project.project_name, + personnel: this.getProjectPersonnel(), + abstract: { + section: [ + { title: 'Objectives', para: this.projectData.objectives.objectives }, + { title: 'Caveats', para: this.projectData.objectives.caveats || NOT_SUPPLIED_CONSTANT } + ] + }, + ...this.getProjectFundingSources(), + studyAreaDescription: { + coverage: { + ...this.getGeographicCoverageEML(), + temporalCoverage: this.getTemporalCoverageEML() + } + }, + relatedProject: await this.getSurveysEML() + } + } + }); + } + + async buildAdditionalMetadataSection() { + const data: { describes: any; metadata: any }[] = []; + + if (this.projectData.project.project_type) { + data.push({ + describes: this.projectData.project.uuid, + metadata: { + projectTypes: { + projectType: this.codes.project_type.find((code) => this.projectData.project.project_type === code.id)?.name + } + } + }); + } + + if (this.projectData.project.project_activities.length) { + const names = this.codes.activity + .filter((item) => this.projectData.project.project_activities.includes(item.id)) + .map((item) => item.name); + + data.push({ + describes: this.projectData.project.uuid, + metadata: { + projectActivities: { + projectActivity: names.map((item) => { + return { name: item }; + }) + } + } + }); + } + + if (this.projectData.iucn.classificationDetails.length) { + const iucnNames = this.projectData.iucn.classificationDetails.map((iucnItem) => { + return { + level_1_name: this.codes.iucn_conservation_action_level_1_classification.find( + (code) => iucnItem.classification === code.id + )?.name, + level_2_name: this.codes.iucn_conservation_action_level_2_subclassification.find( + (code) => iucnItem.subClassification1 === code.id + )?.name, + level_3_name: this.codes.iucn_conservation_action_level_3_subclassification.find( + (code) => iucnItem.subClassification2 === code.id + )?.name + }; + }); + + data.push({ + describes: this.projectData.project.uuid, + metadata: { + IUCNConservationActions: { + IUCNConservationAction: iucnNames.map((item) => { + return { + IUCNConservationActionLevel1Classification: item.level_1_name, + IUCNConservationActionLevel2SubClassification: item.level_2_name, + IUCNConservationActionLevel3SubClassification: item.level_3_name + }; + }) + } + } + }); + } + + if (this.projectData.partnerships.stakeholder_partnerships?.length) { + data.push({ + describes: this.projectData.project.uuid, + metadata: { + stakeholderPartnerships: { + stakeholderPartnership: this.projectData.partnerships.stakeholder_partnerships.map((item) => { + return { name: item }; + }) + } + } + }); + } + + if (this.projectData.partnerships.indigenous_partnerships.length) { + const names = this.codes.first_nations + .filter((item) => this.projectData.partnerships.indigenous_partnerships.includes(item.id)) + .map((item) => item.name); + + data.push({ + describes: this.projectData.project.uuid, + metadata: { + firstNationPartnerships: { + firstNationPartnership: names.map((item) => { + return { name: item }; + }) + } + } + }); + } + + if (this.includeSensitiveData) { + // only include permits if sensitive data is enabled + if (this.projectData.permit.permits?.length) { + data.push({ + describes: this.projectData.project.uuid, + metadata: { + permits: { + permit: this.projectData.permit.permits.map((item) => { + return { permitType: item.permit_type, permitNumber: item.permit_number }; + }) + } + } + }); + } + } + + if (this.includeSensitiveData) { + // only include permits if sensitive data is enabled + this.surveyData.forEach((item) => { + if (item.permit.permit_number && item.permit.permit_type) { + data.push({ + describes: item.survey_details.uuid, + metadata: { + permits: { + permit: { permitType: item.permit.permit_type, permitNumber: item.permit.permit_number } + } + } + }); + } + }); + } + + this.surveyData.forEach((item) => { + if (item.proprietor) { + data.push({ + describes: item.survey_details.uuid, + metadata: { + proprietaryDataCategory: item.proprietor.proprietor_type_name + } + }); + + data.push({ + describes: item.survey_details.uuid, + metadata: { + proprietorName: item.proprietor.proprietor_name + } + }); + + data.push({ + describes: item.survey_details.uuid, + metadata: { + proprietaryDataCategoryRationale: item.proprietor.category_rationale + } + }); + + data.push({ + describes: item.survey_details.uuid, + metadata: { + dataSharingAgreementRequired: item.proprietor.disa_required + } + }); + } + }); + + this.surveyData.forEach((item) => { + data.push({ + describes: item.survey_details.uuid, + metadata: { + surveyedAllAreas: item.purpose_and_methodology.surveyed_all_areas === 'true' || false + } + }); + }); + + jsonpatch.applyOperation(this.data, { + op: 'add', + path: '/eml:eml/additionalMetadata', + value: data + }); + } + + getDatasetCreator(): Record { + const primaryContact = this.projectData.coordinator; + + if (JSON.parse(primaryContact.share_contact_details) || this.includeSensitiveData) { + // return full details of the primary contact if it is public or sensitive data is enabled. + return { + organizationName: primaryContact.coordinator_agency, + electronicMailAddress: primaryContact.email_address + }; + } + + // return partial details of the primary contact + return { organizationName: primaryContact.coordinator_agency }; + } + + /** + * Get a primary contact for the project. + * + * @ + * @return {*} {Record} + * @memberof EmlService + */ + getProjectContact(): Record { + const primaryContact = this.projectData.coordinator; + + if (JSON.parse(primaryContact.share_contact_details) || this.includeSensitiveData) { + // return full details of the primary contact if it is public or sensitive data is enabled. + return { + individualName: { givenName: primaryContact.first_name, surName: primaryContact.last_name }, + organizationName: primaryContact.coordinator_agency, + electronicMailAddress: primaryContact.email_address + }; + } + + // return partial details of the primary contact + return { organizationName: primaryContact.coordinator_agency }; + } + + /** + * Get all contacts for the project. + * + * @ + * @return {*} {Record[]} + * @memberof EmlService + */ + getProjectPersonnel(): Record[] { + const primaryContact = this.projectData.coordinator; + + if (JSON.parse(primaryContact.share_contact_details) || this.includeSensitiveData) { + // return full details of the primary contact if it is public or sensitive data is enabled. + return [ + { + individualName: { givenName: primaryContact.first_name, surName: primaryContact.last_name }, + organizationName: primaryContact.coordinator_agency, + electronicMailAddress: primaryContact.email_address, + role: 'pointOfContact' + } + ]; + } + + // return partial details of the primary contact + return [{ organizationName: primaryContact.coordinator_agency }]; + } + + /** + * Get all contacts for the survey. + * + * @ + * @param {SurveyObject} surveyData + * @return {*} {Record[]} + * @memberof EmlService + */ + getSurveyPersonnel(surveyData: SurveyObject): Record[] { + return [ + { + individualName: { + givenName: surveyData.survey_details.biologist_first_name, + surName: surveyData.survey_details.biologist_last_name + }, + role: 'pointOfContact' + } + ]; + } + + getProjectFundingSources(): Record { + if (!this.projectData.funding.fundingSources.length) { + return {}; + } + + return { + funding: { + section: this.projectData.funding.fundingSources.map((item) => { + return { + title: 'Agency Name', + para: item.agency_name, + section: [ + { title: 'Funding Agency Project ID', para: item.agency_project_id }, + { title: 'Investment Action/Category', para: item.investment_action_category_name }, + { title: 'Funding Amount', para: item.funding_amount }, + { title: 'Funding Start Date', para: new Date(item.start_date).toISOString().split('T')[0] }, + { title: 'Funding End Date', para: new Date(item.end_date).toISOString().split('T')[0] } + ] + }; + }) + } + }; + } + + getSurveyFundingSources(surveyData: SurveyObject): Record { + if (!surveyData.funding.funding_sources.length) { + return {}; + } + + return { + funding: { + section: surveyData.funding.funding_sources.map((item) => { + return { + title: 'Agency Name', + para: item.agency_name, + section: [ + { title: 'Funding Agency Project ID', para: item.funding_source_project_id }, + { title: 'Investment Action/Category', para: item.investment_action_category_name }, + { title: 'Funding Amount', para: item.funding_amount }, + { title: 'Funding Start Date', para: new Date(item.funding_start_date).toISOString().split('T')[0] }, + { title: 'Funding End Date', para: new Date(item.funding_end_date).toISOString().split('T')[0] } + ] + }; + }) + } + }; + } + + getTemporalCoverageEML(): Record { + if (!this.projectData.project.end_date) { + // no end date + return { + singleDateTime: { + calendarDate: this.projectData.project.start_date + } + }; + } + + return { + rangeOfDates: { + beginDate: { calendarDate: this.projectData.project.start_date }, + endDate: { calendarDate: this.projectData.project.end_date } + } + }; + } + + getSurveyTemporalCoverageEML(surveyData: SurveyObject): Record { + if (!surveyData.survey_details.end_date) { + // no end date + return { + singleDateTime: { + calendarDate: surveyData.survey_details.start_date + } + }; + } + + return { + rangeOfDates: { + beginDate: { calendarDate: surveyData.survey_details.start_date }, + endDate: { calendarDate: surveyData.survey_details.end_date } + } + }; + } + + getGeographicCoverageEML(): Record { + if (!this.projectData.location.geometry) { + return {}; + } + + const polygonFeatures = this.projectData.location.geometry?.map((item) => { + if (item.geometry.type === 'Point' && item.properties?.radius) { + return circle(item.geometry, item.properties.radius, { units: 'meters' }); + } + + return item; + }); + + const projectBoundingBox = bbox(featureCollection(polygonFeatures)); + + const datasetGPolygons: Record[] = []; + + polygonFeatures.forEach((feature) => { + const featureCoords: number[][] = []; + + coordEach(feature as AllGeoJSON, (currentCoord) => { + featureCoords.push(currentCoord); + }); + + datasetGPolygons.push({ + datasetGPolygonOuterGRing: [ + { + gRingPoint: featureCoords.map((coords) => { + return { gRingLatitude: coords[1], gRingLongitude: coords[0] }; + }) + } + ] + }); + }); + + return { + geographicCoverage: { + geographicDescription: this.projectData.location.location_description || NOT_SUPPLIED_CONSTANT, + boundingCoordinates: { + westBoundingCoordinate: projectBoundingBox[0], + eastBoundingCoordinate: projectBoundingBox[2], + northBoundingCoordinate: projectBoundingBox[3], + southBoundingCoordinate: projectBoundingBox[1] + }, + datasetGPolygon: datasetGPolygons + } + }; + } + + getSurveyGeographicCoverageEML(surveyData: SurveyObject): Record { + if (!surveyData.location.geometry?.length) { + return {}; + } + + const polygonFeatures = surveyData.location.geometry?.map((item) => { + if (item.geometry.type === 'Point' && item.properties?.radius) { + return circle(item.geometry, item.properties.radius, { units: 'meters' }); + } + + return item; + }); + + const datasetGPolygons: Record[] = []; + + polygonFeatures.forEach((feature) => { + const featureCoords: number[][] = []; + + coordEach(feature as AllGeoJSON, (currentCoord) => { + featureCoords.push(currentCoord); + }); + + datasetGPolygons.push({ + datasetGPolygonOuterGRing: [ + { + gRingPoint: featureCoords.map((coords) => { + return { gRingLatitude: coords[1], gRingLongitude: coords[0] }; + }) + } + ] + }); + }); + + const projectBoundingBox = bbox(featureCollection(polygonFeatures)); + + return { + geographicCoverage: { + geographicDescription: surveyData.location.survey_area_name, + boundingCoordinates: { + westBoundingCoordinate: projectBoundingBox[0], + eastBoundingCoordinate: projectBoundingBox[2], + northBoundingCoordinate: projectBoundingBox[3], + southBoundingCoordinate: projectBoundingBox[1] + }, + datasetGPolygon: datasetGPolygons + } + }; + } + + async getSurveyFocalTaxonomicCoverage(surveyData: SurveyObject): Promise> { + const taxonomySearchService = new TaxonomyService(); + + // TODO include ancillary_species alongside focal_species? + const response = await taxonomySearchService.getTaxonomyFromIds(surveyData.species.focal_species); + + const taxonomicClassifications: Record[] = []; + + response.forEach((item) => { + const taxonRecord = item as Record; + + taxonomicClassifications.push({ + taxonRankName: taxonRecord.tty_name, + taxonRankValue: `${taxonRecord.unit_name1} ${taxonRecord.unit_name2} ${taxonRecord.unit_name3}`, + commonName: taxonRecord.english_name, + taxonId: { $: { provider: this.constants.EML_TAXONOMIC_PROVIDER_URL }, _: taxonRecord.code } + }); + }); + + return { taxonomicClassification: taxonomicClassifications }; + } + + async getSurveyDesignDescription(surveyData: SurveyObject): Promise> { + return { + description: { + section: [ + { + title: 'Field Method', + para: this.codes.field_methods.find( + (code) => code.id === surveyData.purpose_and_methodology.field_method_id + )?.name + }, + { + title: 'Ecological Season', + para: this.codes.ecological_seasons.find( + (code) => code.id === surveyData.purpose_and_methodology.ecological_season_id + )?.name + }, + { + title: 'Vantage Codes', + para: { + itemizedlist: { + listitem: this.codes.vantage_codes + .filter((code) => surveyData.purpose_and_methodology.vantage_code_ids.includes(code.id)) + .map((item) => { + return { para: item.name }; + }) + } + } + } + ] + } + }; + } + + async getSurveysEML(): Promise[]> { + const promises: Promise>[] = []; + + this.surveyData.forEach((item) => { + promises.push(this.getSurveyEML(item)); + }); + + return Promise.all(promises); + } + + async getSurveyEML(surveyData: SurveyObject): Promise> { + return { + $: { id: surveyData.survey_details.uuid, system: this.constants.EML_PROVIDER_URL }, + title: surveyData.survey_details.survey_name, + personnel: this.getSurveyPersonnel(surveyData), + abstract: { + section: [ + { + title: 'Intended Outcomes', + para: this.codes.intended_outcomes.find( + (code) => code.id === surveyData.purpose_and_methodology.intended_outcome_id + )?.name + }, + { + title: 'Additional Details', + para: surveyData.purpose_and_methodology.additional_details || NOT_SUPPLIED_CONSTANT + } + ] + }, + ...this.getSurveyFundingSources(surveyData), + studyAreaDescription: { + coverage: { + ...this.getSurveyGeographicCoverageEML(surveyData), + temporalCoverage: this.getSurveyTemporalCoverageEML(surveyData), + taxonomicCoverage: await this.getSurveyFocalTaxonomicCoverage(surveyData) + } + }, + designDescription: await this.getSurveyDesignDescription(surveyData) + }; + } +} diff --git a/api/src/services/keycloak-service.ts b/api/src/services/keycloak-service.ts index b0945a82ee..b30ff93e51 100644 --- a/api/src/services/keycloak-service.ts +++ b/api/src/services/keycloak-service.ts @@ -50,6 +50,9 @@ export type KeycloakUser = { /** * Service for calling the keycloak admin API. * + * Keycloak Documentation (select version and see `Administration REST API` section): + * - https://www.keycloak.org/documentation-archive.html + * * @export * @class KeycloakService */ diff --git a/api/src/services/platform-service.test.ts b/api/src/services/platform-service.test.ts new file mode 100644 index 0000000000..a483279598 --- /dev/null +++ b/api/src/services/platform-service.test.ts @@ -0,0 +1,51 @@ +import axios from 'axios'; +import chai, { expect } from 'chai'; +import { describe } from 'mocha'; +import sinon from 'sinon'; +import sinonChai from 'sinon-chai'; +import { KeycloakService } from './keycloak-service'; +import { IDwCADataset, PlatformService } from './platform-service'; + +chai.use(sinonChai); + +describe('PlatformService', () => { + describe('submitNewDataPackage', () => { + afterEach(() => { + sinon.restore(); + }); + + it('makes an axios post to the BioHub Platform Backbone API', async () => { + process.env.BACKBONE_API_HOST = 'backbone.com'; + + const keycloakServiceStub = sinon.stub(KeycloakService.prototype, 'getKeycloakToken').resolves('token'); + + const axiosStub = sinon.stub(axios, 'post').resolves({ data_package_id: '123-456-789' }); + + const dwcaDataset: IDwCADataset = { + archiveFile: { + data: Buffer.from([]), + fileName: 'testFileName', + mimeType: 'zip' + }, + dataPackageId: '123-456-789' + }; + + const platformService = new PlatformService(); + + await platformService.submitNewDataPackage(dwcaDataset); + + expect(keycloakServiceStub).to.have.been.calledOnce; + + expect(axiosStub).to.have.been.calledOnceWith( + 'backbone.com/api/dwc/submission/create', + sinon.match.instanceOf(Buffer), + { + headers: { + authorization: `Bearer token`, + 'content-type': sinon.match(new RegExp(/^multipart\/form-data; boundary=[-]*[0-9]*$/)) + } + } + ); + }); + }); +}); diff --git a/api/src/services/platform-service.ts b/api/src/services/platform-service.ts new file mode 100644 index 0000000000..c28fbeb6f8 --- /dev/null +++ b/api/src/services/platform-service.ts @@ -0,0 +1,58 @@ +import axios from 'axios'; +import FormData from 'form-data'; +import { KeycloakService } from './keycloak-service'; + +export interface IDwCADataset { + archiveFile: { + /** + * A Darwin Core Archive (DwCA) zip file. + */ + data: Buffer; + fileName: string; + mimeType: string; + }; + /** + * A UUID that uniquely identifies this DwCA dataset. + */ + dataPackageId: string; +} + +export class PlatformService { + BACKBONE_API_HOST = process.env.BACKBONE_API_HOST; + BACKBONE_API_INGEST_PATH = '/api/dwc/submission/create'; + + /** + * Submit a new Darwin Core Archive (DwCA) data package to the BioHub Platform Backbone. + * + * @param {IDwCADataset} dwcaDataset + * @return {*} {Promise<{ data_package_id: string }>} + * @memberof PlatformService + */ + async submitNewDataPackage(dwcaDataset: IDwCADataset): Promise<{ data_package_id: string }> { + const keycloakService = new KeycloakService(); + + const token = await keycloakService.getKeycloakToken(); + + const formData = new FormData(); + + formData.append('media', dwcaDataset.archiveFile.data, { + filename: dwcaDataset.archiveFile.fileName, + contentType: dwcaDataset.archiveFile.mimeType + }); + + formData.append('data_package_id', dwcaDataset.dataPackageId); + + const { data } = await axios.post<{ data_package_id: string }>( + `${this.BACKBONE_API_HOST}${this.BACKBONE_API_INGEST_PATH}`, + formData.getBuffer(), + { + headers: { + authorization: `Bearer ${token}`, + ...formData.getHeaders() + } + } + ); + + return data; + } +} diff --git a/api/src/services/project-service.ts b/api/src/services/project-service.ts index 17c59c6a57..0e42c6bf9a 100644 --- a/api/src/services/project-service.ts +++ b/api/src/services/project-service.ts @@ -1,5 +1,4 @@ import moment from 'moment'; -import SQL from 'sql-template-strings'; import { PROJECT_ROLE, SYSTEM_ROLE } from '../constants/roles'; import { COMPLETION_STATUS } from '../constants/status'; import { HTTP400, HTTP409, HTTP500 } from '../errors/custom-error'; @@ -30,7 +29,6 @@ import { GetPartnershipsData, GetPermitData, GetProjectData, - GetSpeciesData, IGetProject } from '../models/project-view'; import { getSurveyAttachmentS3Keys } from '../paths/project/{projectId}/survey/{surveyId}/delete'; @@ -39,7 +37,6 @@ import { queries } from '../queries/queries'; import { userHasValidRole } from '../request-handlers/security/authorization'; import { deleteFileFromS3 } from '../utils/file-utils'; import { DBService } from './service'; -import { TaxonomyService } from './taxonomy-service'; export class ProjectService extends DBService { /** @@ -269,17 +266,20 @@ export class ProjectService extends DBService { }; } - async getProjectEntitiesById(projectId: number, entities: string[]): Promise { - const results: IGetProject = { + async getProjectEntitiesById( + projectId: number, + entities: string[] + ): Promise & Partial>> { + const results: Pick & Partial> = { id: projectId, - coordinator: null, - permit: null, - project: null, - objectives: null, - location: null, - iucn: null, - funding: null, - partnerships: null + coordinator: undefined, + permit: undefined, + project: undefined, + objectives: undefined, + location: undefined, + iucn: undefined, + funding: undefined, + partnerships: undefined }; const promises: Promise[] = []; @@ -1147,29 +1147,4 @@ export class ProjectService extends DBService { return new GetProjectData(projectResult, activityResult); } - - async getSpeciesData(projectId: number): Promise { - const sqlStatement = SQL` - SELECT - wldtaxonomic_units_id - FROM - project_species - WHERE - project_id = ${projectId}; - `; - - const response = await this.connection.query(sqlStatement.text, sqlStatement.values); - - const result = (response && response.rows) || null; - - if (!result) { - throw new HTTP400('Failed to get species data'); - } - - const taxonomyService = new TaxonomyService(); - - const species = await taxonomyService.getSpeciesFromIds(result); - - return new GetSpeciesData(species); - } } diff --git a/api/src/services/survey-service.test.ts b/api/src/services/survey-service.test.ts new file mode 100644 index 0000000000..92fb91e889 --- /dev/null +++ b/api/src/services/survey-service.test.ts @@ -0,0 +1,85 @@ +import chai, { expect } from 'chai'; +import { describe } from 'mocha'; +import sinon from 'sinon'; +import sinonChai from 'sinon-chai'; +import { PutSurveyObject } from '../models/survey-update'; +import { getMockDBConnection } from '../__mocks__/db'; +import { SurveyService } from './survey-service'; + +chai.use(sinonChai); + +describe('SurveyService', () => { + describe('updateSurvey', () => { + afterEach(() => { + sinon.restore(); + }); + + it('updates nothing when no data provided', async () => { + const dbConnectionObj = getMockDBConnection(); + + const updateSurveyDetailsDataStub = sinon.stub(SurveyService.prototype, 'updateSurveyDetailsData').resolves(); + const updateSurveyVantageCodesDataStub = sinon + .stub(SurveyService.prototype, 'updateSurveyVantageCodesData') + .resolves(); + const updateSurveySpeciesDataStub = sinon.stub(SurveyService.prototype, 'updateSurveySpeciesData').resolves(); + const updateSurveyPermitDataStub = sinon.stub(SurveyService.prototype, 'updateSurveyPermitData').resolves(); + const updateSurveyFundingDataStub = sinon.stub(SurveyService.prototype, 'updateSurveyFundingData').resolves(); + const updateSurveyProprietorDataStub = sinon + .stub(SurveyService.prototype, 'updateSurveyProprietorData') + .resolves(); + + const surveyService = new SurveyService(dbConnectionObj); + + const projectId = 1; + const surveyId = 2; + const putSurveyData = new PutSurveyObject(null); + + await surveyService.updateSurvey(projectId, surveyId, putSurveyData); + + expect(updateSurveyDetailsDataStub).not.to.have.been.called; + expect(updateSurveyVantageCodesDataStub).not.to.have.been.called; + expect(updateSurveySpeciesDataStub).not.to.have.been.called; + expect(updateSurveyPermitDataStub).not.to.have.been.called; + expect(updateSurveyFundingDataStub).not.to.have.been.called; + expect(updateSurveyProprietorDataStub).not.to.have.been.called; + }); + + it('updates everything when all data provided', async () => { + const dbConnectionObj = getMockDBConnection(); + + const updateSurveyDetailsDataStub = sinon.stub(SurveyService.prototype, 'updateSurveyDetailsData').resolves(); + const updateSurveyVantageCodesDataStub = sinon + .stub(SurveyService.prototype, 'updateSurveyVantageCodesData') + .resolves(); + const updateSurveySpeciesDataStub = sinon.stub(SurveyService.prototype, 'updateSurveySpeciesData').resolves(); + const updateSurveyPermitDataStub = sinon.stub(SurveyService.prototype, 'updateSurveyPermitData').resolves(); + const updateSurveyFundingDataStub = sinon.stub(SurveyService.prototype, 'updateSurveyFundingData').resolves(); + const updateSurveyProprietorDataStub = sinon + .stub(SurveyService.prototype, 'updateSurveyProprietorData') + .resolves(); + + const surveyService = new SurveyService(dbConnectionObj); + + const projectId = 1; + const surveyId = 2; + const putSurveyData = new PutSurveyObject({ + survey_details: {}, + species: {}, + permit: {}, + funding: {}, + proprietor: {}, + purpose_and_methodology: {}, + location: {} + }); + + await surveyService.updateSurvey(projectId, surveyId, putSurveyData); + + expect(updateSurveyDetailsDataStub).to.have.been.calledOnce; + expect(updateSurveyVantageCodesDataStub).to.have.been.calledOnce; + expect(updateSurveySpeciesDataStub).to.have.been.calledOnce; + expect(updateSurveyPermitDataStub).to.have.been.calledOnce; + expect(updateSurveyFundingDataStub).to.have.been.calledOnce; + expect(updateSurveyProprietorDataStub).to.have.been.calledOnce; + }); + }); +}); diff --git a/api/src/services/survey-service.ts b/api/src/services/survey-service.ts index fd5e6c8e9b..aaf0d930cb 100644 --- a/api/src/services/survey-service.ts +++ b/api/src/services/survey-service.ts @@ -1,101 +1,610 @@ import SQL from 'sql-template-strings'; -import { HTTP400 } from '../errors/custom-error'; -import { GetSpeciesData, GetSurveyData, SurveyObject } from '../models/survey-view'; +import { ApiGeneralError } from '../errors/custom-error'; +import { PostProprietorData, PostSurveyObject } from '../models/survey-create'; +import { PutSurveyObject } from '../models/survey-update'; +import { + GetAncillarySpeciesData, + GetFocalSpeciesData, + GetPermitData, + GetSurveyData, + GetSurveyFundingSources, + GetSurveyLocationData, + GetSurveyProprietorData, + GetSurveyPurposeAndMethodologyData, + SurveyObject, + SurveySupplementaryData +} from '../models/survey-view'; import { queries } from '../queries/queries'; import { DBService } from './service'; import { TaxonomyService } from './taxonomy-service'; export class SurveyService extends DBService { - async getSurveyIdsByProjectId(projectId: number): Promise { + async getSurveyIdsByProjectId(projectId: number): Promise<{ id: number }[]> { const sqlStatement = queries.survey.getSurveyIdsSQL(projectId); - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL select statement'); - } - - const response = await this.connection.query(sqlStatement.text, sqlStatement.values); - - if (!response.rows) { - return []; - } + const response = await this.connection.sql<{ id: number }>(sqlStatement); return response.rows; } async getSurveyById(surveyId: number): Promise { - const [surveyData, speciesData] = await Promise.all([this.getSurveyData(surveyId), this.getSpeciesData(surveyId)]); + const [ + surveyData, + speciesData, + permitData, + fundingData, + purposeAndMethodologyData, + proprietorData, + locationData + ] = await Promise.all([ + this.getSurveyData(surveyId), + this.getSpeciesData(surveyId), + this.getPermitData(surveyId), + this.getSurveyFundingSourcesData(surveyId), + this.getSurveyPurposeAndMethodology(surveyId), + this.getSurveyProprietorDataForView(surveyId), + this.getSurveyLocationData(surveyId) + ]); return { - survey: surveyData, - species: speciesData + survey_details: surveyData, + species: speciesData, + permit: permitData, + purpose_and_methodology: purposeAndMethodologyData, + funding: fundingData, + proprietor: proprietorData, + location: locationData }; } - async getSurveyData(surveyId: number): Promise { - const sqlStatement = queries.survey.getSurveySQL(surveyId); + async getSurveySupplementaryDataById(surveyId: number): Promise { + const [occurrenceSubmissionId, summaryResultId] = await Promise.all([ + this.getOccurrenceSubmissionId(surveyId), + this.getSummaryResultId(surveyId) + ]); - if (!sqlStatement) { - throw new HTTP400('Failed to build SQL get statement'); - } + return { + occurrence_submission: occurrenceSubmissionId, + summary_result: summaryResultId + }; + } - const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + async getSurveyData(surveyId: number): Promise { + const sqlStatement = SQL` + SELECT + * + FROM + survey + WHERE + survey_id = ${surveyId}; + `; - const result = (response && response.rows && response.rows[0]) || null; + const response = await this.connection.sql(sqlStatement); + + const result = response.rows?.[0] || null; if (!result) { - throw new HTTP400('Failed to get project data'); + throw new ApiGeneralError('Failed to get project survey details data'); } return new GetSurveyData(result); } - async getSpeciesData(surveyId: number): Promise { + async getSpeciesData(surveyId: number): Promise { const sqlStatement = SQL` SELECT - wldtaxonomic_units_id + wldtaxonomic_units_id, + is_focal FROM study_species WHERE survey_id = ${surveyId}; + `; + + const response = await this.connection.query<{ wldtaxonomic_units_id: string; is_focal: boolean }>( + sqlStatement.text, + sqlStatement.values + ); + + const result = (response && response.rows) || null; + + if (!result) { + throw new ApiGeneralError('Failed to get survey species data'); + } + + const focalSpeciesIds = response.rows.filter((item) => item.is_focal).map((item) => item.wldtaxonomic_units_id); + const ancillarySpeciesIds = response.rows + .filter((item) => !item.is_focal) + .map((item) => item.wldtaxonomic_units_id); + + const taxonomyService = new TaxonomyService(); + + const focalSpecies = await taxonomyService.getSpeciesFromIds(focalSpeciesIds); + const ancillarySpecies = await taxonomyService.getSpeciesFromIds(ancillarySpeciesIds); + + return { ...new GetFocalSpeciesData(focalSpecies), ...new GetAncillarySpeciesData(ancillarySpecies) }; + } + + async getPermitData(surveyId: number): Promise { + const sqlStatement = SQL` + SELECT + number, + type + FROM + permit + WHERE + survey_id = ${surveyId}; `; + const response = await this.connection.query<{ number: string; type: string }>( + sqlStatement.text, + sqlStatement.values + ); + + const result = response.rows?.[0]; + + return new GetPermitData(result); + } + + async getSurveyPurposeAndMethodology(surveyId: number): Promise { + const sqlStatement = queries.survey.getSurveyPurposeAndMethodologyForUpdateSQL(surveyId); + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + + const result = (response && response.rows[0]) || null; + + if (!result) { + throw new ApiGeneralError('Failed to get survey purpose and methodology data'); + } + + return new GetSurveyPurposeAndMethodologyData(result); + } + + async getSurveyFundingSourcesData(surveyId: number): Promise { + const sqlStatement = queries.survey.getSurveyFundingSourcesDataForViewSQL(surveyId); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build SQL get statement'); + } + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); const result = (response && response.rows) || null; if (!result) { - throw new HTTP400('Failed to get species data'); + throw new ApiGeneralError('Failed to get survey funding sources data'); } - const taxonomyService = new TaxonomyService(); + return new GetSurveyFundingSources(result); + } + + async getSurveyProprietorDataForView(surveyId: number): Promise { + const sqlStatement = queries.survey.getSurveyProprietorForUpdateSQL(surveyId); + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); - const species = await taxonomyService.getSpeciesFromIds(result); + if (!response.rows?.[0]) { + return null; + } - return new GetSpeciesData(species); + return new GetSurveyProprietorData(response.rows?.[0]); + } + + async getSurveyLocationData(surveyId: number): Promise { + const sqlStatement = SQL` + SELECT + * + FROM + survey + WHERE + survey_id = ${surveyId}; + `; + + const response = await this.connection.sql(sqlStatement); + + const result = response.rows?.[0] || null; + + if (!result) { + throw new ApiGeneralError('Failed to get project survey details data'); + } + + return new GetSurveyLocationData(result); + } + + async getOccurrenceSubmissionId(surveyId: number) { + const sqlStatement = queries.survey.getLatestOccurrenceSubmissionIdSQL(surveyId); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build SQL get statement'); + } + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + + return (response && response.rows?.[0]) || null; + } + + async getSummaryResultId(surveyId: number) { + const sqlStatement = queries.survey.getLatestSummaryResultIdSQL(surveyId); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build SQL get statement'); + } + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + + return (response && response.rows?.[0]) || null; } /** * Get surveys by their ids. * * @param {number[]} surveyIds - * @param {boolean} [isPublic=false] Set to `true` if the return value should not include data that is not meant for - * public consumption. - * @return {*} {Promise< - * { - * survey: GetSurveyData; - * species: GetSpeciesData; - * }[] - * >} + * @return {*} {Promise} * @memberof SurveyService */ - async getSurveysByIds( - surveyIds: number[] - ): Promise< - { - survey: GetSurveyData; - species: GetSpeciesData; - }[] - > { + async getSurveysByIds(surveyIds: number[]): Promise { return Promise.all(surveyIds.map(async (surveyId) => this.getSurveyById(surveyId))); } + + async createSurvey(projectId: number, postSurveyData: PostSurveyObject): Promise { + const surveyId = await this.insertSurveyData(projectId, postSurveyData); + + const promises: Promise[] = []; + + // Handle focal species associated to this survey + promises.push( + Promise.all( + postSurveyData.species.focal_species.map((speciesId: number) => this.insertFocalSpecies(speciesId, surveyId)) + ) + ); + + // Handle ancillary species associated to this survey + promises.push( + Promise.all( + postSurveyData.species.ancillary_species.map((speciesId: number) => + this.insertAncillarySpecies(speciesId, surveyId) + ) + ) + ); + + // Handle inserting any permit associated to this survey + if (postSurveyData.permit.permit_number) { + promises.push( + this.insertOrAssociatePermitToSurvey( + this.connection.systemUserId() as number, + projectId, + surveyId, + postSurveyData.permit.permit_number, + postSurveyData.permit.permit_type + ) + ); + } + + // Handle inserting any funding sources associated to this survey + promises.push( + Promise.all( + postSurveyData.funding.funding_sources.map((fsId: number) => this.insertSurveyFundingSource(fsId, surveyId)) + ) + ); + + // Handle survey proprietor data + postSurveyData.proprietor && promises.push(this.insertSurveyProprietor(postSurveyData.proprietor, surveyId)); + + //Handle vantage codes associated to this survey + promises.push( + Promise.all( + postSurveyData.purpose_and_methodology.vantage_code_ids.map((vantageCode: number) => + this.insertVantageCodes(vantageCode, surveyId) + ) + ) + ); + + await Promise.all(promises); + + return surveyId; + } + + async insertSurveyData(projectId: number, surveyData: PostSurveyObject): Promise { + const sqlStatement = queries.survey.postSurveySQL(projectId, surveyData); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build survey SQL insert statement'); + } + + const response = await this.connection.sql(sqlStatement); + + const result = response.rows[0] || null; + + if (!result) { + throw new ApiGeneralError('Failed to insert survey data'); + } + + return result.id; + } + + async insertFocalSpecies(focal_species_id: number, surveyId: number): Promise { + const sqlStatement = queries.survey.postFocalSpeciesSQL(focal_species_id, surveyId); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build SQL insert statement'); + } + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + const result = (response && response.rows && response.rows[0]) || null; + + if (!result || !result.id) { + throw new ApiGeneralError('Failed to insert focal species data'); + } + + return result.id; + } + + async insertAncillarySpecies(ancillary_species_id: number, surveyId: number): Promise { + const sqlStatement = queries.survey.postAncillarySpeciesSQL(ancillary_species_id, surveyId); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build SQL insert statement'); + } + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + const result = (response && response.rows && response.rows[0]) || null; + + if (!result || !result.id) { + throw new ApiGeneralError('Failed to insert ancillary species data'); + } + + return result.id; + } + + async insertVantageCodes(vantage_code_id: number, surveyId: number): Promise { + const sqlStatement = queries.survey.postVantageCodesSQL(vantage_code_id, surveyId); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build SQL insert statement'); + } + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + const result = (response && response.rows && response.rows[0]) || null; + + if (!result || !result.id) { + throw new ApiGeneralError('Failed to insert ancillary species data'); + } + + return result.id; + } + + async insertSurveyProprietor(survey_proprietor: PostProprietorData, surveyId: number): Promise { + if (!survey_proprietor.survey_data_proprietary) { + return; + } + + const sqlStatement = queries.survey.postSurveyProprietorSQL(surveyId, survey_proprietor); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build SQL insert statement'); + } + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + const result = (response && response.rows && response.rows[0]) || null; + + if (!result || !result.id) { + throw new ApiGeneralError('Failed to insert survey proprietor data'); + } + + return result.id; + } + + async insertOrAssociatePermitToSurvey( + systemUserId: number, + projectId: number, + surveyId: number, + permitNumber: string, + permitType: string + ) { + let sqlStatement; + + if (!permitType) { + sqlStatement = queries.survey.associateSurveyToPermitSQL(projectId, surveyId, permitNumber); + } else { + sqlStatement = queries.survey.insertSurveyPermitSQL(systemUserId, projectId, surveyId, permitNumber, permitType); + } + + const response = await this.connection.sql(sqlStatement); + + if (!response.rowCount) { + throw new ApiGeneralError('Failed to upsert survey permit record'); + } + } + + async insertSurveyFundingSource(funding_source_id: number, surveyId: number) { + const sqlStatement = queries.survey.insertSurveyFundingSourceSQL(surveyId, funding_source_id); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build SQL statement for insertSurveyFundingSource'); + } + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + + if (!response) { + throw new ApiGeneralError('Failed to insert survey funding source data'); + } + } + + async updateSurvey(projectId: number, surveyId: number, putSurveyData: PutSurveyObject): Promise { + const promises: Promise[] = []; + + if (putSurveyData?.survey_details || putSurveyData?.purpose_and_methodology || putSurveyData?.location) { + promises.push(this.updateSurveyDetailsData(surveyId, putSurveyData)); + } + + if (putSurveyData?.purpose_and_methodology) { + promises.push(this.updateSurveyVantageCodesData(surveyId, putSurveyData)); + } + + if (putSurveyData?.species) { + promises.push(this.updateSurveySpeciesData(surveyId, putSurveyData)); + } + + if (putSurveyData?.permit) { + promises.push(this.updateSurveyPermitData(projectId, surveyId, putSurveyData)); + } + + if (putSurveyData?.funding) { + promises.push(this.updateSurveyFundingData(surveyId, putSurveyData)); + } + + if (putSurveyData?.proprietor) { + promises.push(this.updateSurveyProprietorData(surveyId, putSurveyData)); + } + + await Promise.all(promises); + } + + async updateSurveyDetailsData(surveyId: number, surveyData: PutSurveyObject) { + const updateSurveyQueryBuilder = queries.survey.putSurveyDetailsSQL(surveyId, surveyData); + + if (!updateSurveyQueryBuilder) { + throw new ApiGeneralError('Failed to build SQL update statement'); + } + + const result = await this.connection.knex(updateSurveyQueryBuilder); + + if (!result || !result.rowCount) { + throw new ApiGeneralError('Failed to update survey data'); + } + } + + async updateSurveySpeciesData(surveyId: number, surveyData: PutSurveyObject) { + this.deleteSurveySpeciesData(surveyId); + + const promises: Promise[] = []; + + surveyData.species.focal_species.forEach((focalSpeciesId: number) => + promises.push(this.insertFocalSpecies(focalSpeciesId, surveyId)) + ); + + surveyData.species.ancillary_species.forEach((ancillarySpeciesId: number) => + promises.push(this.insertAncillarySpecies(ancillarySpeciesId, surveyId)) + ); + + return Promise.all(promises); + } + + async deleteSurveySpeciesData(surveyId: number) { + const sqlStatement = queries.survey.deleteAllSurveySpeciesSQL(surveyId); + + return this.connection.sql(sqlStatement); + } + + /** + * To update a survey permit, we need to unassociate (not delete) the old permit from the survey and then associate + * the new permit to the survey. Associating a new permit to the survey is done by either inserting a brand new + * permit record into the permit table and setting the survey id column OR updating an existing permit record by + * setting the survey id column. + * + * @param {number} projectId + * @param {number} surveyId + * @param {PutSurveyObject} surveyData + * @return {*} + * @memberof SurveyService + */ + async updateSurveyPermitData(projectId: number, surveyId: number, surveyData: PutSurveyObject) { + await this.unassociatePermitFromSurvey(surveyId); + + if (!surveyData.permit.permit_number) { + return; + } + + return this.insertOrAssociatePermitToSurvey( + this.connection.systemUserId() as number, + projectId, + surveyId, + surveyData.permit.permit_number, + surveyData.permit.permit_type + ); + } + + async unassociatePermitFromSurvey(surveyId: number) { + const sqlStatement = queries.survey.unassociatePermitFromSurveySQL(surveyId); + + return this.connection.sql(sqlStatement); + } + + async updateSurveyFundingData(surveyId: number, surveyData: PutSurveyObject) { + await this.deleteSurveyFundingSourcesData(surveyId); + + const promises: Promise[] = []; + + surveyData.funding.funding_sources.forEach((fsId: number) => + promises.push(this.insertSurveyFundingSource(fsId, surveyId)) + ); + + return Promise.all(promises); + } + + async deleteSurveyFundingSourcesData(surveyId: number) { + const sqlStatement = queries.survey.deleteSurveyFundingSourcesBySurveyIdSQL(surveyId); + + return this.connection.sql(sqlStatement); + } + + async updateSurveyProprietorData(surveyId: number, surveyData: PutSurveyObject) { + await this.deleteSurveyProprietorData(surveyId); + + if (!surveyData.proprietor.survey_data_proprietary) { + return; + } + + return this.insertSurveyProprietor(surveyData.proprietor, surveyId); + } + + async deleteSurveyProprietorData(surveyId: number) { + const sqlStatement = queries.survey.deleteSurveyProprietorSQL(surveyId); + + return this.connection.sql(sqlStatement); + } + + async updateSurveyVantageCodesData(surveyId: number, surveyData: PutSurveyObject) { + await this.deleteSurveyVantageCodes(surveyId); + + const promises: Promise[] = []; + + if (surveyData.purpose_and_methodology.vantage_code_ids) { + surveyData.purpose_and_methodology.vantage_code_ids.forEach((vantageCodeId: number) => + promises.push(this.insertVantageCodes(vantageCodeId, surveyId)) + ); + } + + return Promise.all(promises); + } + + async deleteSurveyVantageCodes(surveyId: number) { + const sqlStatement = queries.survey.deleteSurveyVantageCodesSQL(surveyId); + + const response = await this.connection.query(sqlStatement.text, sqlStatement.values); + + if (!response) { + throw new ApiGeneralError('Failed to delete survey vantage codes'); + } + } + + /** + * Update a survey, marking it as published/unpublished. + * + * @param {number} surveyId + * @param {boolean} publish + * @return {*} {(Promise<{ id: number } | null>)} + * @memberof SurveyService + */ + async publishSurvey(surveyId: number, publish: boolean): Promise<{ id: number } | null> { + const sqlStatement = queries.survey.updateSurveyPublishStatusSQL(surveyId, publish); + + if (!sqlStatement) { + throw new ApiGeneralError('Failed to build survey publish SQL statement'); + } + + const response = await this.connection.sql<{ id: number }>(sqlStatement); + + return (response && response.rows && response.rows[0]) || null; + } } diff --git a/api/src/services/taxonomy-service.ts b/api/src/services/taxonomy-service.ts index c9a88bb3b6..506fa81b40 100644 --- a/api/src/services/taxonomy-service.ts +++ b/api/src/services/taxonomy-service.ts @@ -8,7 +8,7 @@ export class TaxonomyService { private async elasticSearch(searchRequest: SearchRequest) { try { const client = new Client({ node: process.env.ELASTICSEARCH_URL }); - return await client.search({ + return client.search({ index: 'taxonomy', ...searchRequest }); diff --git a/api/src/utils/file-utils.ts b/api/src/utils/file-utils.ts index 96a0d39bb9..23363f729d 100644 --- a/api/src/utils/file-utils.ts +++ b/api/src/utils/file-utils.ts @@ -3,10 +3,13 @@ import { DeleteObjectOutput, GetObjectOutput, ManagedUpload, Metadata } from 'aw import clamd from 'clamdjs'; import { S3_ROLE } from '../constants/roles'; -const scanner = - process.env.ENABLE_FILE_VIRUS_SCAN === 'true' - ? clamd.createScanner(process.env.CLAMAV_HOST || 'clamav', Number(process.env.CLAMAV_PORT) || 3310) - : null; +const ClamAVScanner = + (process.env.ENABLE_FILE_VIRUS_SCAN === 'true' && + process.env.CLAMAV_HOST && + process.env.CLAMAV_PORT && + clamd.createScanner(process.env.CLAMAV_HOST, Number(process.env.CLAMAV_PORT))) || + null; + const OBJECT_STORE_BUCKET_NAME = process.env.OBJECT_STORE_BUCKET_NAME || ''; const OBJECT_STORE_URL = process.env.OBJECT_STORE_URL || 'nrs.objectstore.gov.bc.ca'; const AWS_ENDPOINT = new AWS.Endpoint(OBJECT_STORE_URL); @@ -158,11 +161,11 @@ export function generateS3FileKey(options: IS3FileKey): string { export async function scanFileForVirus(file: Express.Multer.File): Promise { // if virus scan is not to be performed/cannot be performed - if (!scanner) { + if (!ClamAVScanner) { return true; } - const clamavScanResult = await scanner.scanBuffer(file.buffer, 3000, 1024 * 1024); + const clamavScanResult = await ClamAVScanner.scanBuffer(file.buffer, 3000, 1024 * 1024); // if virus found in file if (clamavScanResult.includes('FOUND')) { diff --git a/api/src/utils/media/xlsx/transformation/xlsx-transformation.ts b/api/src/utils/media/xlsx/transformation/xlsx-transformation.ts index 71f9c80497..3347a1c2d6 100644 --- a/api/src/utils/media/xlsx/transformation/xlsx-transformation.ts +++ b/api/src/utils/media/xlsx/transformation/xlsx-transformation.ts @@ -1,4 +1,5 @@ -import { isEqual, uniqWith } from 'lodash'; +import equal from 'fast-deep-equal'; +import { uniqWith } from 'lodash'; import xlsx from 'xlsx'; import { CSVWorksheet } from '../../csv/csv-file'; import { XLSXCSV } from '../xlsx-file'; @@ -44,7 +45,7 @@ export class XLSXTransformation { * @return {*} {RowsObjectsByFileName} * @memberof XLSXTransformation */ - transform(): RowsObjectsByFileName { + async transform(): Promise { const flattenedData = this._flattenData(); const mergedFlattenedData = this._mergedFlattenedRows(flattenedData); @@ -591,13 +592,24 @@ export class XLSXTransformation { * @return {*} {RowsObjectsByFileName} * @memberof XLSXTransformation */ - _mergeParsedData(parsedTransformedMergedFlattenedData: RowsObjectsByFileName): RowsObjectsByFileName { + async _mergeParsedData(parsedTransformedMergedFlattenedData: RowsObjectsByFileName): Promise { // For each entry (based on fileName), do a deep equality check on each of its row objects, removing any duplicates. - Object.entries(parsedTransformedMergedFlattenedData).forEach(([fileName, rowObjects]) => { - parsedTransformedMergedFlattenedData[fileName] = uniqWith(rowObjects, isEqual); - }); - return parsedTransformedMergedFlattenedData; + const breathSpace = async (delaySeconds: number) => + new Promise((resolve) => setTimeout(() => resolve(), delaySeconds * 1000)); + + const entries = Object.entries(parsedTransformedMergedFlattenedData); + + const duplicatesRemovedResponse = parsedTransformedMergedFlattenedData; + + for (const entry of entries) { + const [fileName, rowObjects] = entry; + + duplicatesRemovedResponse[fileName] = uniqWith(rowObjects, equal); + await breathSpace(1); + } + + return duplicatesRemovedResponse; } /** diff --git a/app/.pipeline/config.js b/app/.pipeline/config.js index 1f005db4ea..cf60906e24 100644 --- a/app/.pipeline/config.js +++ b/app/.pipeline/config.js @@ -89,7 +89,7 @@ const phases = { env: 'dev', sso: sso.dev, replicas: 1, - maxReplicas: 2 + maxReplicas: 1 }, test: { namespace: 'af2668-test', diff --git a/app/openshift/app.dc.yaml b/app/openshift/app.dc.yaml index a820f9f8cc..c67ecd24e9 100644 --- a/app/openshift/app.dc.yaml +++ b/app/openshift/app.dc.yaml @@ -35,6 +35,9 @@ parameters: - name: REACT_APP_NODE_ENV description: NODE_ENV specification variable for React app value: 'dev' + - name: OBJECT_STORE_SECRETS + description: Secrets used to read and write to the S3 storage + value: 'biohubbc-object-store' - name: APP_PORT_DEFAULT description: Application default port value: '7100' @@ -128,6 +131,16 @@ objects: value: ${REACT_APP_MAX_UPLOAD_NUM_FILES} - name: REACT_APP_MAX_UPLOAD_FILE_SIZE value: ${REACT_APP_MAX_UPLOAD_FILE_SIZE} + - name: OBJECT_STORE_URL + valueFrom: + secretKeyRef: + key: object_store_url + name: ${OBJECT_STORE_SECRETS} + - name: OBJECT_STORE_BUCKET_NAME + valueFrom: + secretKeyRef: + key: object_store_bucket_name + name: ${OBJECT_STORE_SECRETS} - name: NODE_ENV value: ${NODE_ENV} - name: REACT_APP_NODE_ENV @@ -194,13 +207,6 @@ objects: name: ${NAME}:${VERSION} type: ImageChange - type: ConfigChange - status: - availableReplicas: 0 - latestVersion: 0 - observedGeneration: 0 - replicas: 0 - unavailableReplicas: 0 - updatedReplicas: 0 - apiVersion: v1 kind: Service metadata: @@ -241,7 +247,7 @@ objects: wildcardPolicy: None status: ingress: null - - apiVersion: autoscaling/v1 + - apiVersion: autoscaling/v2beta2 kind: HorizontalPodAutoscaler metadata: annotations: {} @@ -252,8 +258,13 @@ objects: maxReplicas: '${{REPLICA_MAX}}' minReplicas: '${{REPLICAS}}' scaleTargetRef: - apiVersion: v1 + apiVersion: apps.openshift.io/v1 kind: DeploymentConfig name: ${NAME}${SUFFIX} - cpuUtilization: - targetPercentage: 95 + metrics: + - type: Resource + resource: + name: cpu + target: + type: Utilization + averageUtilization: 95 diff --git a/app/package-lock.json b/app/package-lock.json index dfd27d916f..0da2e56ce1 100644 --- a/app/package-lock.json +++ b/app/package-lock.json @@ -1,22355 +1,8 @@ { "name": "sims-app", "version": "0.0.0", - "lockfileVersion": 2, + "lockfileVersion": 1, "requires": true, - 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"dev": true, - "requires": {} + "dev": true }, "acorn-walk": { "version": "6.2.0", @@ -25349,15 +3068,13 @@ "version": "1.0.1", "resolved": "https://registry.npmjs.org/ajv-errors/-/ajv-errors-1.0.1.tgz", "integrity": "sha512-DCRfO/4nQ+89p/RK43i8Ezd41EqdGIU4ld7nGF8OQ14oc/we5rEntLCUa7+jrn3nn83BosfwZA0wb4pon2o8iQ==", - "dev": true, - "requires": {} + "dev": true }, "ajv-keywords": { "version": "3.5.2", "resolved": "https://registry.npmjs.org/ajv-keywords/-/ajv-keywords-3.5.2.tgz", "integrity": "sha512-5p6WTN0DdTGVQk6VjcEju19IgaHudalcfabD7yhDGeA6bcQnmL+CpveLJq/3hvfwd1aof6L386Ougkx6RfyMIQ==", - "dev": true, - "requires": {} + "dev": true }, "alphanum-sort": { "version": "1.0.2", @@ -25958,8 +3675,7 @@ "version": "0.3.7", "resolved": "https://registry.npmjs.org/babel-plugin-named-asset-import/-/babel-plugin-named-asset-import-0.3.7.tgz", "integrity": "sha512-squySRkf+6JGnvjoUtDEjSREJEBirnXi9NqP6rjSYsylxQxqBTz+pkmf395i9E2zsvmYUaI40BHo6SqZUdydlw==", - "dev": true, - "requires": {} + "dev": true }, "babel-plugin-syntax-object-rest-spread": { "version": "6.13.0", @@ -27210,6 +4926,17 @@ "typedarray": "^0.0.6" } }, + "concaveman": { + "version": "1.2.1", + "resolved": "https://registry.npmjs.org/concaveman/-/concaveman-1.2.1.tgz", + "integrity": "sha512-PwZYKaM/ckQSa8peP5JpVr7IMJ4Nn/MHIaWUjP4be+KoZ7Botgs8seAZGpmaOM+UZXawcdYRao/px9ycrCihHw==", + "requires": { + "point-in-polygon": "^1.1.0", + "rbush": "^3.0.1", + "robust-predicates": "^2.0.4", + "tinyqueue": "^2.0.3" + } + }, "confusing-browser-globals": { "version": "1.0.10", "resolved": "https://registry.npmjs.org/confusing-browser-globals/-/confusing-browser-globals-1.0.10.tgz", @@ -28941,8 +6668,7 @@ "version": "1.7.0", "resolved": "https://registry.npmjs.org/eslint-plugin-react-hooks/-/eslint-plugin-react-hooks-1.7.0.tgz", "integrity": "sha512-iXTCFcOmlWvw4+TOE8CLWj6yX1GwzT0Y6cUfHHZqWnSk144VmVIRcVGtUAzrLES7C798lmvnt02C7rxaOX1HNA==", - "dev": true, - "requires": {} + "dev": true }, "eslint-scope": { "version": "5.1.1", @@ -32101,8 +9827,7 @@ "version": "1.2.2", "resolved": "https://registry.npmjs.org/jest-pnp-resolver/-/jest-pnp-resolver-1.2.2.tgz", "integrity": "sha512-olV41bKSMm8BdnuMsewT4jqlZ8+3TCARAXjZGT9jcoSnrfUnRCqnMoF9XEeoWjbzObpqF9dRhHQj0Xb9QdF6/w==", - "dev": true, - "requires": {} + "dev": true }, "jest-regex-util": { "version": "24.9.0", @@ -33019,8 +10744,7 @@ "leaflet.markercluster": { "version": "1.5.0", "resolved": "https://registry.npmjs.org/leaflet.markercluster/-/leaflet.markercluster-1.5.0.tgz", - "integrity": "sha512-Fvf/cq4o806mJL50n+fZW9+QALDDLPvt7vuAjlD2vfnxx3srMDs2vWINJze4nKYJYRY45OC6tM/669C3pLwMCA==", - "requires": {} + "integrity": "sha512-Fvf/cq4o806mJL50n+fZW9+QALDDLPvt7vuAjlD2vfnxx3srMDs2vWINJze4nKYJYRY45OC6tM/669C3pLwMCA==" }, "left-pad": { "version": "1.3.0", @@ -34621,6 +12345,11 @@ "ts-pnp": "^1.1.6" } }, + "point-in-polygon": { + "version": "1.1.0", + "resolved": "https://registry.npmjs.org/point-in-polygon/-/point-in-polygon-1.1.0.tgz", + "integrity": "sha512-3ojrFwjnnw8Q9242TzgXuTD+eKiutbzyslcq1ydfu82Db2y+Ogbmyrkpv0Hgj31qwT3lbS9+QAAO/pIQM35XRw==" + }, "popper.js": { "version": "1.16.1-lts", "resolved": "https://registry.npmjs.org/popper.js/-/popper.js-1.16.1-lts.tgz", @@ -35717,8 +13446,7 @@ "version": "2.3.4", "resolved": "https://registry.npmjs.org/prettier-plugin-organize-imports/-/prettier-plugin-organize-imports-2.3.4.tgz", "integrity": "sha512-R8o23sf5iVL/U71h9SFUdhdOEPsi3nm42FD/oDYIZ2PQa4TNWWuWecxln6jlIQzpZTDMUeO1NicJP6lLn2TtRw==", - "dev": true, - "requires": {} + "dev": true }, "pretty-bytes": { "version": "5.5.0", @@ -35977,6 +13705,11 @@ "integrity": "sha512-FIqgj2EUvTa7R50u0rGsyTftzjYmv/a3hO345bZNrqabNqjtgiDMgmo4mkUjd+nzU5oF3dClKqFIPUKybUyqoQ==", "dev": true }, + "quickselect": { + "version": "2.0.0", + "resolved": "https://registry.npmjs.org/quickselect/-/quickselect-2.0.0.tgz", + "integrity": "sha512-RKJ22hX8mHe3Y6wH/N3wCM6BWtjaxIyyUIkpHOvfFnxdI4yD4tBXEBKSbriGujF6jnSVkJrffuo6vxACiSSxIw==" + }, "raf": { "version": "3.4.1", "resolved": "https://registry.npmjs.org/raf/-/raf-3.4.1.tgz", @@ -36021,6 +13754,14 @@ "unpipe": "1.0.0" } }, + "rbush": { + "version": "3.0.1", + "resolved": "https://registry.npmjs.org/rbush/-/rbush-3.0.1.tgz", + "integrity": "sha512-XRaVO0YecOpEuIvbhbpTrZgoiI6xBlz6hnlr6EHhd+0x9ase6EmeN+hdwwUaJvLcsFFQ8iWVF1GAK1yB0BWi0w==", + "requires": { + "quickselect": "^2.0.0" + } + }, "react": { "version": "16.14.0", "resolved": "https://registry.npmjs.org/react/-/react-16.14.0.tgz", @@ -37404,6 +15145,11 @@ "inherits": "^2.0.1" } }, + "robust-predicates": { + "version": "2.0.4", + "resolved": "https://registry.npmjs.org/robust-predicates/-/robust-predicates-2.0.4.tgz", + "integrity": "sha512-l4NwboJM74Ilm4VKfbAtFeGq7aEjWL+5kVFcmgFA2MrdnQWx9iE/tUGvxY5HyMI7o/WpSIUFLbC5fbeaHgSCYg==" + }, "rsvp": { "version": "4.8.5", "resolved": "https://registry.npmjs.org/rsvp/-/rsvp-4.8.5.tgz", @@ -38369,14 +16115,6 @@ "integrity": "sha1-J5siXfHVgrH1TmWt3UNS4Y+qBxM=", "dev": true }, - "string_decoder": { - "version": "1.1.1", - "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-1.1.1.tgz", - "integrity": "sha512-n/ShnvDi6FHbbVfviro+WojiFzv+s8MPMHBczVePfUpDJLwoLT0ht1l4YwBCbi8pJAveEEdnkHyPyTP/mzRfwg==", - "requires": { - "safe-buffer": "~5.1.0" - } - }, "string-length": { "version": "2.0.0", "resolved": "https://registry.npmjs.org/string-length/-/string-length-2.0.0.tgz", @@ -38449,6 +16187,14 @@ "define-properties": "^1.1.3" } }, + "string_decoder": { + "version": "1.1.1", + "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-1.1.1.tgz", + "integrity": "sha512-n/ShnvDi6FHbbVfviro+WojiFzv+s8MPMHBczVePfUpDJLwoLT0ht1l4YwBCbi8pJAveEEdnkHyPyTP/mzRfwg==", + "requires": { + "safe-buffer": "~5.1.0" + } + }, "stringify-object": { "version": "3.3.0", "resolved": "https://registry.npmjs.org/stringify-object/-/stringify-object-3.3.0.tgz", @@ -38994,6 +16740,11 @@ "resolved": "https://registry.npmjs.org/tiny-warning/-/tiny-warning-1.0.3.tgz", "integrity": "sha512-lBN9zLN/oAf68o3zNXYrdCt1kP8WsiGW8Oo2ka41b2IM5JL/S1CTyX1rW0mb/zSuJun0ZUrDxx4sqvYS2FWzPA==" }, + "tinyqueue": { + "version": "2.0.3", + "resolved": "https://registry.npmjs.org/tinyqueue/-/tinyqueue-2.0.3.tgz", + "integrity": "sha512-ppJZNDuKGgxzkHihX8v9v9G5f+18gzaTfrukGrq6ueg0lmH4nqVnA2IPG0AEH3jKEk2GRJCUhDoqpoiw3PHLBA==" + }, "tmp": { "version": "0.0.33", "resolved": "https://registry.npmjs.org/tmp/-/tmp-0.0.33.tgz", diff --git a/app/server/index.js b/app/server/index.js index 7f54407772..9d68cfc3cb 100644 --- a/app/server/index.js +++ b/app/server/index.js @@ -38,6 +38,9 @@ const request = require('request'); // App config app.use('/config', (_, resp) => { + const OBJECT_STORE_URL = process.env.OBJECT_STORE_URL || 'nrs.objectstore.gov.bc.ca'; + const OBJECT_STORE_BUCKET_NAME = process.env.OBJECT_STORE_BUCKET_NAME || 'gblhvt'; + const config = { API_HOST: process.env.REACT_APP_API_HOST || 'localhost', N8N_HOST: process.env.REACT_APP_N8N_HOST, @@ -53,7 +56,8 @@ const request = require('request'); SITEMINDER_LOGOUT_URL: process.env.REACT_APP_SITEMINDER_LOGOUT_URL || 'https://logontest7.gov.bc.ca/clp-cgi/logoff.cgi', MAX_UPLOAD_NUM_FILES: Number(process.env.REACT_APP_MAX_UPLOAD_NUM_FILES) || 10, - MAX_UPLOAD_FILE_SIZE: Number(process.env.REACT_APP_MAX_UPLOAD_FILE_SIZE) || 52428800 + MAX_UPLOAD_FILE_SIZE: Number(process.env.REACT_APP_MAX_UPLOAD_FILE_SIZE) || 52428800, + S3_PUBLIC_HOST_URL: `https://${OBJECT_STORE_URL}/${OBJECT_STORE_BUCKET_NAME}` }; resp.status(200).json(config); }); diff --git a/app/src/AppRouter.tsx b/app/src/AppRouter.tsx index 2ec1a3536b..bc339354ef 100644 --- a/app/src/AppRouter.tsx +++ b/app/src/AppRouter.tsx @@ -8,7 +8,7 @@ import AdminUsersRouter from 'features/admin/AdminUsersRouter'; import PermitsRouter from 'features/permits/PermitsRouter'; import ProjectsRouter from 'features/projects/ProjectsRouter'; import PublicProjectsRouter from 'features/projects/PublicProjectsRouter'; -import ResourcesRouter from 'features/resources/ResourcesRouter'; +import ResourcesPage from 'features/resources/ResourcesPage'; import SearchPage from 'features/search/SearchPage'; import PublicLayout from 'layouts/PublicLayout'; import RequestSubmitted from 'pages/200/RequestSubmitted'; @@ -45,6 +45,10 @@ const AppRouter: React.FC = () => { + + + + @@ -93,12 +97,6 @@ const AppRouter: React.FC = () => { - - - - - - diff --git a/app/src/components/boundary/MapBoundary.tsx b/app/src/components/boundary/MapBoundary.tsx index 2fafdec665..f80337023d 100644 --- a/app/src/components/boundary/MapBoundary.tsx +++ b/app/src/components/boundary/MapBoundary.tsx @@ -191,21 +191,21 @@ const MapBoundary: React.FC = (props) => { setFieldValue(name, newGeo) }} bounds={(shouldUpdateBounds && updatedBounds) || bounds} selectedLayer={selectedLayer} setInferredLayersInfo={setInferredLayersInfo} /> - {values.geometry && values.geometry.length > 0 && ( + {get(values, name) && get(values, name).length > 0 && ( { - setUpdatedBounds(calculateUpdatedMapBounds(values.geometry)); + setUpdatedBounds(calculateUpdatedMapBounds(get(values, name))); setShouldUpdateBounds(true); }}> diff --git a/app/src/components/dialog/EditDialog.tsx b/app/src/components/dialog/EditDialog.tsx index 7e5a1dc06b..b3bd427aca 100644 --- a/app/src/components/dialog/EditDialog.tsx +++ b/app/src/components/dialog/EditDialog.tsx @@ -102,10 +102,15 @@ export const EditDialog = (props: PropsWithChildren{props.dialogTitle} {props.component.element} - - diff --git a/app/src/components/dialog/__snapshots__/EditDialog.test.tsx.snap b/app/src/components/dialog/__snapshots__/EditDialog.test.tsx.snap index 8dc18dac12..059472899f 100644 --- a/app/src/components/dialog/__snapshots__/EditDialog.test.tsx.snap +++ b/app/src/components/dialog/__snapshots__/EditDialog.test.tsx.snap @@ -105,6 +105,7 @@ exports[`EditDialog matches snapshot when open, with error message 1`] = ` >