From 0e65e147e4c164d850f3bb908ca05bc4161baa8b Mon Sep 17 00:00:00 2001
From: noerog <32459203+noerog@users.noreply.github.com>
Date: Mon, 17 Aug 2020 12:41:18 -0400
Subject: [PATCH] Add Cloud Healthcare API to Kokoro testing pipeline (#1862)

---
 .kokoro/healthcare/common.cfg                 | 29 ++++++++++++++++++
 .kokoro/healthcare/datasets.cfg               |  7 +++++
 .kokoro/healthcare/dicom.cfg                  |  7 +++++
 .kokoro/healthcare/fhir.cfg                   |  7 +++++
 .kokoro/healthcare/hl7v2.cfg                  |  7 +++++
 .../datasets/system-test/datasets.test.js     | 30 +++++++++----------
 .../dicom/system-test/dicom_stores.test.js    | 10 ++++++-
 healthcare/dicom/system-test/dicomweb.test.js | 11 ++++++-
 healthcare/fhir/exportFhirResources.js        |  2 +-
 healthcare/fhir/importFhirResources.js        |  8 +++--
 healthcare/fhir/resources/fhir_data.ndjson    |  5 ++--
 .../fhir/system-test/fhir_resources.test.js   |  9 ++++++
 .../fhir/system-test/fhir_stores.test.js      | 10 +++++++
 .../hl7v2/system-test/hl7v2_messages.test.js  |  8 +++++
 .../hl7v2/system-test/hl7v2_stores.test.js    |  8 +++++
 15 files changed, 135 insertions(+), 23 deletions(-)
 create mode 100644 .kokoro/healthcare/common.cfg
 create mode 100644 .kokoro/healthcare/datasets.cfg
 create mode 100644 .kokoro/healthcare/dicom.cfg
 create mode 100644 .kokoro/healthcare/fhir.cfg
 create mode 100644 .kokoro/healthcare/hl7v2.cfg

diff --git a/.kokoro/healthcare/common.cfg b/.kokoro/healthcare/common.cfg
new file mode 100644
index 0000000000..4b44832907
--- /dev/null
+++ b/.kokoro/healthcare/common.cfg
@@ -0,0 +1,29 @@
+# Format: //devtools/kokoro/config/proto/build.proto
+
+# Download trampoline resources. These will be in ${KOKORO_GFILE_DIR}
+gfile_resources: "/bigstore/cloud-devrel-kokoro-resources/trampoline"
+
+# Download secrets from Cloud Storage.
+gfile_resources: "/bigstore/cloud-devrel-kokoro-resources/nodejs-docs-samples"
+
+# All builds use the trampoline script to run in docker.
+build_file: "nodejs-docs-samples/.kokoro/trampoline.sh"
+
+# Configure the docker image for kokoro-trampoline.
+env_vars: {
+    key: "TRAMPOLINE_IMAGE"
+    value: "gcr.io/cloud-devrel-kokoro-resources/node:10-user"
+}
+
+# Tell the trampoline which build file to use.
+env_vars: {
+    key: "TRAMPOLINE_BUILD_FILE"
+    value: "github/nodejs-docs-samples/.kokoro/build.sh"
+}
+
+# Export XUnit test results for further analysis
+action {
+    define_artifacts {
+        regex: "**/*sponge_log.xml"
+    }
+}
diff --git a/.kokoro/healthcare/datasets.cfg b/.kokoro/healthcare/datasets.cfg
new file mode 100644
index 0000000000..3a70a5a9a4
--- /dev/null
+++ b/.kokoro/healthcare/datasets.cfg
@@ -0,0 +1,7 @@
+# Format: //devtools/kokoro/config/proto/build.proto
+
+# Set the folder in which the tests are run
+env_vars: {
+    key: "PROJECT"
+    value: "healthcare/datasets"
+}
diff --git a/.kokoro/healthcare/dicom.cfg b/.kokoro/healthcare/dicom.cfg
new file mode 100644
index 0000000000..09b90ccca2
--- /dev/null
+++ b/.kokoro/healthcare/dicom.cfg
@@ -0,0 +1,7 @@
+# Format: //devtools/kokoro/config/proto/build.proto
+
+# Set the folder in which the tests are run
+env_vars: {
+    key: "PROJECT"
+    value: "healthcare/dicom"
+}
diff --git a/.kokoro/healthcare/fhir.cfg b/.kokoro/healthcare/fhir.cfg
new file mode 100644
index 0000000000..95a05d95e5
--- /dev/null
+++ b/.kokoro/healthcare/fhir.cfg
@@ -0,0 +1,7 @@
+# Format: //devtools/kokoro/config/proto/build.proto
+
+# Set the folder in which the tests are run
+env_vars: {
+    key: "PROJECT"
+    value: "healthcare/fhir"
+}
diff --git a/.kokoro/healthcare/hl7v2.cfg b/.kokoro/healthcare/hl7v2.cfg
new file mode 100644
index 0000000000..bf1a8167ca
--- /dev/null
+++ b/.kokoro/healthcare/hl7v2.cfg
@@ -0,0 +1,7 @@
+# Format: //devtools/kokoro/config/proto/build.proto
+
+# Set the folder in which the tests are run
+env_vars: {
+    key: "PROJECT"
+    value: "healthcare/hl7v2"
+}
diff --git a/healthcare/datasets/system-test/datasets.test.js b/healthcare/datasets/system-test/datasets.test.js
index 9de8bf07f7..0f645409f1 100644
--- a/healthcare/datasets/system-test/datasets.test.js
+++ b/healthcare/datasets/system-test/datasets.test.js
@@ -58,6 +58,21 @@ it('should get a dataset', () => {
   assert.ok(output.includes('name'));
 });
 
+it('should create and get a dataset IAM policy', () => {
+  const localMember = 'group:dpebot@google.com';
+  const localRole = 'roles/viewer';
+
+  let output = execSync(
+    `node setDatasetIamPolicy.js ${projectId} ${cloudRegion} ${datasetId} ${localMember} ${localRole}`,
+  );
+  assert.ok(output.includes, 'ETAG');
+
+  output = execSync(
+    `node getDatasetIamPolicy.js ${projectId} ${cloudRegion} ${datasetId}`
+  );
+  assert.ok(output.includes('dpebot'));
+});
+
 it('should patch a dataset', () => {
   const timeZone = 'GMT';
   const output = execSync(
@@ -83,21 +98,6 @@ it('should de-identify data in a dataset and write to a new dataset', () => {
   );
 });
 
-it('should create and get a dataset IAM policy', () => {
-  const localMember = 'group:dpebot@google.com';
-  const localRole = 'roles/viewer';
-
-  let output = execSync(
-    `node setDatasetIamPolicy.js ${projectId} ${cloudRegion} ${datasetId} ${localMember} ${localRole}`,
-  );
-  assert.ok(output.includes, 'ETAG');
-
-  output = execSync(
-    `node getDatasetIamPolicy.js ${projectId} ${cloudRegion} ${datasetId}`
-  );
-  assert.ok(output.includes('dpebot'));
-});
-
 it('should delete a dataset', () => {
   const output = execSync(
     `node deleteDataset.js ${projectId} ${cloudRegion} ${datasetId}`,
diff --git a/healthcare/dicom/system-test/dicom_stores.test.js b/healthcare/dicom/system-test/dicom_stores.test.js
index afd14ef269..4a7bbd4f8a 100644
--- a/healthcare/dicom/system-test/dicom_stores.test.js
+++ b/healthcare/dicom/system-test/dicom_stores.test.js
@@ -33,7 +33,7 @@ const cwdDatasets = path.join(__dirname, '../../datasets');
 const cwd = path.join(__dirname, '..');
 
 const datasetId = `nodejs-docs-samples-test-${uuid.v4()}`.replace(/-/gi, '_');
-const dicomStoreId = `nodejs-docs-samples-test-fhir-store${uuid.v4()}`.replace(
+const dicomStoreId = `nodejs-docs-samples-test-dicom-store${uuid.v4()}`.replace(
   /-/gi,
   '_'
 );
@@ -41,6 +41,14 @@ const dcmFileName = 'IM-0002-0001-JPEG-BASELINE.dcm';
 
 const resourceFile = `resources/${dcmFileName}`;
 const gcsUri = `${bucketName}/${dcmFileName}`;
+const installDeps = 'npm install';
+
+// Run npm install on datasets directory because modalities
+// require bootstrapping datasets, and Kokoro needs to know
+// to install dependencies from the datasets directory.
+assert.ok(
+  execSync(installDeps, {cwd: `${cwdDatasets}`, shell: true})
+);
 
 before(async () => {
   assert(
diff --git a/healthcare/dicom/system-test/dicomweb.test.js b/healthcare/dicom/system-test/dicomweb.test.js
index ec9bfa8a28..490ac73521 100644
--- a/healthcare/dicom/system-test/dicomweb.test.js
+++ b/healthcare/dicom/system-test/dicomweb.test.js
@@ -41,6 +41,15 @@ const studyUid = '1.2.840.113619.2.176.3596.3364818.7819.1259708454.105';
 const seriesUid = '1.2.840.113619.2.176.3596.3364818.7819.1259708454.108';
 const instanceUid = '1.2.840.113619.2.176.3596.3364818.7271.1259708501.876';
 
+const installDeps = 'npm install';
+
+// Run npm install on datasets directory because modalities
+// require bootstrapping datasets, and Kokoro needs to know
+// to install dependencies from the datasets directory.
+assert.ok(
+  execSync(installDeps, {cwd: `${cwdDatasets}`, shell: true})
+);
+
 before(() => {
   assert(
     process.env.GOOGLE_CLOUD_PROJECT,
@@ -64,7 +73,7 @@ after(() => {
       `node deleteDicomStore.js ${projectId} ${cloudRegion} ${datasetId} ${dicomStoreId}`,
       {cwd}
     );
-    execSync(`node deleteDataset.js ${datasetId}`, {cwd: cwdDatasets});
+    execSync(`node deleteDataset.js ${projectId} ${cloudRegion} ${datasetId}`, {cwd: cwdDatasets});
   } catch (err) {} // Ignore error
 });
 
diff --git a/healthcare/fhir/exportFhirResources.js b/healthcare/fhir/exportFhirResources.js
index 771714eff5..1e4b167494 100644
--- a/healthcare/fhir/exportFhirResources.js
+++ b/healthcare/fhir/exportFhirResources.js
@@ -64,7 +64,7 @@ const main = (
       {name: operationName}
     );
 
-    if (typeof operationStatus.data.response.resourceCount !== 'undefined') {
+    if (typeof operationStatus.data.metadata.counter !== 'undefined') {
       console.log('Exported FHIR resources successfully');
     } else {
       console.log('Export failed');
diff --git a/healthcare/fhir/importFhirResources.js b/healthcare/fhir/importFhirResources.js
index 15311cc1d8..f14de25fce 100644
--- a/healthcare/fhir/importFhirResources.js
+++ b/healthcare/fhir/importFhirResources.js
@@ -44,7 +44,7 @@ const main = (
     const request = {
       name,
       resource: {
-        contentStructure: 'BUNDLE',
+        contentStructure: 'RESOURCE',
         gcsSource: {
           uri: `gs://${gcsUri}`,
         },
@@ -66,9 +66,11 @@ const main = (
       operationRequest
     );
 
-    if (typeof operationStatus.data.error === 'undefined') {
+    const success = operationStatus.data.metadata.counter.success;
+
+    if (typeof success !== 'undefined') {
       console.log(
-        `Import FHIR resources succeeded. ${operationStatus.data.response.inputSize} resources imported`
+        `Import FHIR resources succeeded. ${success} resources imported`
       );
     } else {
       console.log(
diff --git a/healthcare/fhir/resources/fhir_data.ndjson b/healthcare/fhir/resources/fhir_data.ndjson
index d357b47277..d027de5a5e 100644
--- a/healthcare/fhir/resources/fhir_data.ndjson
+++ b/healthcare/fhir/resources/fhir_data.ndjson
@@ -1,2 +1,3 @@
-{"entry":[{"resource":{"id":"2756653a-d80e-4ca1-899f-a79c5ad0c40d","identifier":[{"system":"internal","value":"travel-questionnaire"}],"item":[{"linkId":"1","text":"What country will you be travelling to?","type":"string"},{"item":[{"linkId":"2.1","text":"Departure","type":"date"},{"linkId":"2.2","text":"Return","type":"date"}],"linkId":"2","text":"What dates will you be travelling on?","type":"group"}],"resourceType":"Questionnaire","status":"active","subjectType":["Patient"],"title":"Travel Intention"}}],"resourceType":"Bundle"}
-{"entry":[{"resource":{"birthDate":"1937-05-09","gender":"female","id":"7e5f36bc-3694-49ce-bdba-8ab7a13988d2","identifier":[{"value":"demo-patient"}],"name":[{"family":"Smith","given":["Taylor"],"use":"official"}],"resourceType":"Patient","telecom":[{"value":"(555) 555-5555"}]}},{"resource":{"abatementDateTime":"1937-06-04T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Hepatitis","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/0c02267a-22cc-4204-8ec3-4c93c0800f27"}]}],"id":"eb044420-53e8-4e99-a826-cf80ac777f39","onsetDateTime":"1937-05-21T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1937-05-31T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Measles","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/0c02267a-22cc-4204-8ec3-4c93c0800f27"}]}],"id":"8e893750-719d-4b66-9bcd-cb270fbb6686","onsetDateTime":"1937-05-17T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1937-05-31T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Meningitis","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/0c02267a-22cc-4204-8ec3-4c93c0800f27"}]}],"id":"cb6e40b2-2ce6-4dee-a91e-751ac2b7954e","onsetDateTime":"1937-05-17T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1937-06-04T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Yellow Fever","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/0c02267a-22cc-4204-8ec3-4c93c0800f27"}]}],"id":"56e756d4-9f27-448c-98b1-e0eb36527f17","onsetDateTime":"1937-05-21T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1939-05-31T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Hepatitis","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/80130bc9-f124-4cd1-a5b6-b608be87627b"}]}],"id":"fbf82cf1-b0e2-4855-9660-1732d4e48799","onsetDateTime":"1939-05-17T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1939-06-02T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Measles","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/80130bc9-f124-4cd1-a5b6-b608be87627b"}]}],"id":"206a3fbb-4f1f-42e9-8bfd-68659a365503","onsetDateTime":"1939-05-19T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1939-06-02T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Meningitis","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/80130bc9-f124-4cd1-a5b6-b608be87627b"}]}],"id":"4dcf2c14-16c2-4a89-a278-442e642f7845","onsetDateTime":"1939-05-19T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1939-06-03T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Yellow Fever","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/80130bc9-f124-4cd1-a5b6-b608be87627b"}]}],"id":"aa169bde-71bb-4eae-93eb-b8f9d6a30e43","onsetDateTime":"1939-05-20T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1943-06-07T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Hepatitis","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/088891de-06fa-4070-a8b2-84b7dd852fab"}]}],"id":"8d6b9aef-64d8-419d-bb11-0fe8fb869612","onsetDateTime":"1943-05-24T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1943-06-04T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Measles","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/088891de-06fa-4070-a8b2-84b7dd852fab"}]}],"id":"59aea76e-ef40-42db-be1c-b2ae565b5f2a","onsetDateTime":"1943-05-21T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1943-06-02T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Meningitis","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/088891de-06fa-4070-a8b2-84b7dd852fab"}]}],"id":"a7780a8b-b6c2-4dfe-9244-4bda7ee43c89","onsetDateTime":"1943-05-19T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1943-06-07T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Yellow Fever","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/088891de-06fa-4070-a8b2-84b7dd852fab"}]}],"id":"130ab1bf-6b99-49c1-973f-b0f77cef3e1a","onsetDateTime":"1943-05-24T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1944-06-03T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Hepatitis","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/ef69ba1a-f9d2-4ac2-81a5-a15ed9658a35"}]}],"id":"ca9b79fd-c5ff-47b0-942f-350032b684f3","onsetDateTime":"1944-05-20T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1944-06-01T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Measles","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/ef69ba1a-f9d2-4ac2-81a5-a15ed9658a35"}]}],"id":"45ead8ee-6b76-4e41-b0f4-27d2ea14af35","onsetDateTime":"1944-05-18T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1944-06-06T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Meningitis","system":"http://hl7.org/fhir/v3/ConditionCode"}]},"evidence":[{"detail":[{"reference":"QuestionnaireResponse/ef69ba1a-f9d2-4ac2-81a5-a15ed9658a35"}]}],"id":"f58e7cf6-4147-4847-9c02-91100965fe5e","onsetDateTime":"1944-05-23T00:00:00Z","resourceType":"Condition","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"abatementDateTime":"1944-06-04T00:00:00Z","clinicalStatus":"resolved","code":{"coding":[{"code":"Yellow 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Congo"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1944-05-07"}],"linkId":"2.1"},{"answer":[{"valueDate":"1944-05-21"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"ac6556be-5099-49ce-8684-9a1a0949a000","item":[{"answer":[{"valueString":"Egypt"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1946-05-07"}],"linkId":"2.1"},{"answer":[{"valueDate":"1946-05-11"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"4f3fb6c3-c2f2-4451-940d-82c84a2473e8","item":[{"answer":[{"valueString":"Mexico"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1949-05-06"}],"linkId":"2.1"},{"answer":[{"valueDate":"1949-05-07"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"f5d6e8cf-b0d0-49f7-98d9-089d57d924b3","item":[{"answer":[{"valueString":"Mexico"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1950-05-06"}],"linkId":"2.1"},{"answer":[{"valueDate":"1950-05-19"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"42fe5ae2-c45a-4c85-b062-ba00e34b3873","item":[{"answer":[{"valueString":"Ethiopia"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1954-05-05"}],"linkId":"2.1"},{"answer":[{"valueDate":"1954-05-19"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"0fdfee07-b5ac-4225-9eed-b1b333953cad","item":[{"answer":[{"valueString":"Brazil"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1957-05-04"}],"linkId":"2.1"},{"answer":[{"valueDate":"1957-05-10"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"2118c2ee-79ff-495d-aec7-b2dad1fc577c","item":[{"answer":[{"valueString":"Iran"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1960-05-03"}],"linkId":"2.1"},{"answer":[{"valueDate":"1960-05-11"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"9a410039-a9d9-40f8-a3bd-ee9573c2110c","item":[{"answer":[{"valueString":"Bangladesh"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1965-05-02"}],"linkId":"2.1"},{"answer":[{"valueDate":"1965-05-09"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"82167200-02ca-4d7c-8be1-d5f0bf7dd5dd","item":[{"answer":[{"valueString":"Thailand"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1967-05-02"}],"linkId":"2.1"},{"answer":[{"valueDate":"1967-05-15"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"cb23d929-69c4-490b-a640-1d618990325e","item":[{"answer":[{"valueString":"Ethiopia"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1968-05-01"}],"linkId":"2.1"},{"answer":[{"valueDate":"1968-05-06"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"8653983c-7de9-4367-b33d-2e9982092a90","item":[{"answer":[{"valueString":"India"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1973-04-30"}],"linkId":"2.1"},{"answer":[{"valueDate":"1973-05-11"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"27ef7dc1-080f-43da-86e4-67313a073a6c","item":[{"answer":[{"valueString":"Pakistan"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1974-04-30"}],"linkId":"2.1"},{"answer":[{"valueDate":"1974-05-13"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"9711d7c8-b082-47cd-802a-2bd51717cc8c","item":[{"answer":[{"valueString":"Japan"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1977-04-29"}],"linkId":"2.1"},{"answer":[{"valueDate":"1977-05-08"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"3e39aa22-c175-4e91-9d29-0e02b87ea7ff","item":[{"answer":[{"valueString":"Brazil"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1981-04-28"}],"linkId":"2.1"},{"answer":[{"valueDate":"1981-05-10"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"e42a4fe0-f12e-4e54-8541-8636139211cd","item":[{"answer":[{"valueString":"Nigeria"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1986-04-27"}],"linkId":"2.1"},{"answer":[{"valueDate":"1986-05-08"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"fe48c934-0dbb-4d01-86df-b44a0464955a","item":[{"answer":[{"valueString":"Turkey"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1989-04-26"}],"linkId":"2.1"},{"answer":[{"valueDate":"1989-05-08"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"707e7b4c-bf95-453d-b24e-bc463ef2fb87","item":[{"answer":[{"valueString":"Bangladesh"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1990-04-26"}],"linkId":"2.1"},{"answer":[{"valueDate":"1990-05-08"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"7c7b1a31-fbab-4f04-a8f1-577aa2bd31d3","item":[{"answer":[{"valueString":"China"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1992-04-25"}],"linkId":"2.1"},{"answer":[{"valueDate":"1992-05-01"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"c66f15f6-4ff9-4ed4-9586-f33bc801daf2","item":[{"answer":[{"valueString":"Brazil"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"1997-04-24"}],"linkId":"2.1"},{"answer":[{"valueDate":"1997-05-04"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"0d4d0f1b-0301-4887-a7c6-a2bcafcadb06","item":[{"answer":[{"valueString":"India"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"2001-04-23"}],"linkId":"2.1"},{"answer":[{"valueDate":"2001-04-24"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"a015259a-8bf9-46d2-b200-8fd2fef1a66d","item":[{"answer":[{"valueString":"Democratic Republic of the Congo"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"2004-04-22"}],"linkId":"2.1"},{"answer":[{"valueDate":"2004-04-26"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"81ddbdf2-e375-4480-a9cf-f31c2a1c9f09","item":[{"answer":[{"valueString":"Democratic Republic of the Congo"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"2006-04-22"}],"linkId":"2.1"},{"answer":[{"valueDate":"2006-04-23"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"29a8cc27-3929-403a-97b3-06c8256fd4c9","item":[{"answer":[{"valueString":"Indonesia"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"2009-04-21"}],"linkId":"2.1"},{"answer":[{"valueDate":"2009-04-22"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"11d56a76-6010-4da5-b7f7-f8d919447f2d","item":[{"answer":[{"valueString":"Indonesia"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"2013-04-20"}],"linkId":"2.1"},{"answer":[{"valueDate":"2013-05-01"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"e370c4e6-b5b3-407b-b673-436617498fef","item":[{"answer":[{"valueString":"Mexico"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"2015-04-20"}],"linkId":"2.1"},{"answer":[{"valueDate":"2015-04-26"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"6f0b68af-68eb-4b73-a601-e5892819f93c","item":[{"answer":[{"valueString":"Brazil"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"2016-04-19"}],"linkId":"2.1"},{"answer":[{"valueDate":"2016-04-22"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}},{"resource":{"author":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"},"id":"e7dd38fd-e7ea-4823-9d05-5afb6884a3ec","item":[{"answer":[{"valueString":"Egypt"}],"linkId":"1"},{"item":[{"answer":[{"valueDate":"2019-04-19"}],"linkId":"2.1"},{"answer":[{"valueDate":"2019-04-21"}],"linkId":"2.2"}],"linkId":"2"}],"questionnaire":{"reference":"Questionnaire/2756653a-d80e-4ca1-899f-a79c5ad0c40d"},"resourceType":"QuestionnaireResponse","status":"completed","subject":{"reference":"Patient/7e5f36bc-3694-49ce-bdba-8ab7a13988d2"}}}],"resourceType":"Bundle"}
\ No newline at end of file
+{"class":{"code":"IMP","display":"inpatient encounter","system":"http://hl7.org/fhir/v3/ActCode"},"id":"6090e773-3e91-40a7-8fce-1e22f6774c29","reason":[{"text":"The patient had an abnormal heart rate. She was concerned about this."}],"resourceType":"Encounter","status":"finished","subject":{"reference":"Patient/2938bb9e-1f16-429e-8d44-9508ab0e4151"}}
+{"class":{"code":"IMP","display":"inpatient encounter","system":"http://hl7.org/fhir/v3/ActCode"},"id":"7101f884-4f02-51b8-9gdf-2f33g7885d30","reason":[{"text":"The patient was experiencing recurrent fevers."}],"resourceType":"Encounter","status":"finished","subject":{"reference":"Patient/3049cc0f-2g27-530f-9e55-0619bc1f5262"}}
+{"birthDate":"1970-01-01","gender":"female","id":"2938bb9e-1f16-429e-8d44-9508ab0e4151","name":[{"family":"Smith","given":["Darcy"],"use":"official"}],"resourceType":"Patient"}
diff --git a/healthcare/fhir/system-test/fhir_resources.test.js b/healthcare/fhir/system-test/fhir_resources.test.js
index fefe014354..b5e817b876 100644
--- a/healthcare/fhir/system-test/fhir_resources.test.js
+++ b/healthcare/fhir/system-test/fhir_resources.test.js
@@ -35,6 +35,15 @@ const resourceType = 'Patient';
 const version = 'STU3';
 let resourceId;
 
+const installDeps = 'npm install';
+
+// Run npm install on datasets directory because modalities
+// require bootstrapping datasets, and Kokoro needs to know
+// to install dependencies from the datasets directory.
+assert.ok(
+  execSync(installDeps, {cwd: `${cwdDatasets}`, shell: true})
+);
+
 before(() => {
   assert(
     process.env.GOOGLE_CLOUD_PROJECT,
diff --git a/healthcare/fhir/system-test/fhir_stores.test.js b/healthcare/fhir/system-test/fhir_stores.test.js
index d1f987dbed..03d49a16c6 100644
--- a/healthcare/fhir/system-test/fhir_stores.test.js
+++ b/healthcare/fhir/system-test/fhir_stores.test.js
@@ -43,6 +43,14 @@ const fhirFileName = 'fhir_data.ndjson';
 
 const fhirResourceFile = `resources/${fhirFileName}`;
 const gcsUri = `${bucketName}/${fhirFileName}`;
+const installDeps = 'npm install';
+
+// Run npm install on datasets directory because modalities
+// require bootstrapping datasets, and Kokoro needs to know
+// to install dependencies from the datasets directory.
+assert.ok(
+  execSync(installDeps, {cwd: `${cwdDatasets}`, shell: true})
+);
 
 before(async () => {
   assert(
@@ -56,6 +64,8 @@ before(async () => {
   // Create a Cloud Storage bucket to be used for testing.
   await storage.createBucket(bucketName);
   console.log(`Bucket ${bucketName} created.`);
+  // Upload the FHIR resource file so that there's something to
+  // use for the importFhirResources test.
   await storage.bucket(bucketName).upload(fhirResourceFile);
 
   // Create a Pub/Sub topic to be used for testing.
diff --git a/healthcare/hl7v2/system-test/hl7v2_messages.test.js b/healthcare/hl7v2/system-test/hl7v2_messages.test.js
index 82a643e4b4..c0110fc8b7 100644
--- a/healthcare/hl7v2/system-test/hl7v2_messages.test.js
+++ b/healthcare/hl7v2/system-test/hl7v2_messages.test.js
@@ -34,6 +34,14 @@ const messageFile = 'resources/hl7v2-sample.json';
 const messageId = '2yqbdhYHlk_ucSmWkcKOVm_N0p0OpBXgIlVG18rB-cw=';
 const labelKey = 'my-key';
 const labelValue = 'my-value';
+const installDeps = 'npm install';
+
+// Run npm install on datasets directory because modalities
+// require bootstrapping datasets, and Kokoro needs to know
+// to install dependencies from the datasets directory.
+assert.ok(
+  execSync(installDeps, {cwd: `${cwdDatasets}`, shell: true})
+);
 
 before(() => {
   assert(
diff --git a/healthcare/hl7v2/system-test/hl7v2_stores.test.js b/healthcare/hl7v2/system-test/hl7v2_stores.test.js
index cf101b7455..32a046cdf7 100644
--- a/healthcare/hl7v2/system-test/hl7v2_stores.test.js
+++ b/healthcare/hl7v2/system-test/hl7v2_stores.test.js
@@ -32,6 +32,14 @@ const hl7v2StoreId = `nodejs-docs-samples-test-hl7v2-store${uuid.v4()}`.replace(
   '_'
 );
 const topicName = `nodejs-healthcare-test-topic-${uuid.v4()}`;
+const installDeps = 'npm install';
+
+// Run npm install on datasets directory because modalities
+// require bootstrapping datasets, and Kokoro needs to know
+// to install dependencies from the datasets directory.
+assert.ok(
+  execSync(installDeps, {cwd: `${cwdDatasets}`, shell: true})
+);
 
 before(async () => {
   assert(