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17 | 17 | package org.labkey.test.tests.pmr; |
18 | 18 |
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19 | 19 | import au.com.bytecode.opencsv.CSVReader; |
20 | | -import org.apache.hc.client5.http.classic.methods.HttpUriRequest; |
21 | 20 | import org.junit.Assert; |
22 | 21 | import org.junit.Before; |
23 | 22 | import org.junit.BeforeClass; |
24 | 23 | import org.junit.Test; |
25 | 24 | import org.junit.experimental.categories.Category; |
26 | | -import org.labkey.remoteapi.Command; |
27 | | -import org.labkey.remoteapi.CommandResponse; |
28 | | -import org.labkey.remoteapi.PostCommand; |
29 | 25 | import org.labkey.remoteapi.query.SelectRowsCommand; |
30 | 26 | import org.labkey.remoteapi.query.TruncateTableCommand; |
31 | 27 | import org.labkey.serverapi.reader.Readers; |
32 | 28 | import org.labkey.test.BaseWebDriverTest; |
33 | 29 | import org.labkey.test.Locator; |
34 | | -import org.labkey.test.Locators; |
35 | 30 | import org.labkey.test.ModulePropertyValue; |
36 | 31 | import org.labkey.test.TestFileUtils; |
37 | 32 | import org.labkey.test.TestTimeoutException; |
38 | 33 | import org.labkey.test.WebTestHelper; |
39 | 34 | import org.labkey.test.categories.External; |
40 | 35 | import org.labkey.test.categories.LabModule; |
41 | | -import org.labkey.test.tests.di.ETLHelper; |
42 | 36 | import org.labkey.test.util.Ext4Helper; |
43 | | -import org.labkey.test.util.PipelineStatusTable; |
44 | 37 | import org.labkey.test.util.RReportHelper; |
45 | 38 | import org.labkey.test.util.RemoteConnectionHelper; |
46 | 39 | import org.labkey.test.util.SqlserverOnlyTest; |
| 40 | +import org.labkey.test.util.di.DataIntegrationHelper; |
47 | 41 | import org.labkey.test.util.ehr.EHRClientAPIHelper; |
48 | | -import org.labkey.test.util.ehr.EHRTestHelper; |
49 | 42 |
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50 | 43 | import java.io.File; |
51 | | -import java.net.URI; |
52 | 44 | import java.util.Arrays; |
53 | 45 | import java.util.Collections; |
54 | 46 | import java.util.Date; |
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60 | 52 | @Category({External.class, LabModule.class}) |
61 | 53 | public class PMRTest extends BaseWebDriverTest implements SqlserverOnlyTest |
62 | 54 | { |
63 | | - private final ETLHelper _etlHelper = new ETLHelper(this, getProjectName()); |
| 55 | + private final DataIntegrationHelper _etlHelper = new DataIntegrationHelper(getProjectName()); |
64 | 56 |
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65 | 57 | @Override |
66 | 58 | protected void doCleanup(boolean afterTest) throws TestTimeoutException |
@@ -158,7 +150,7 @@ private void testKinshipEtl() throws Exception |
158 | 150 | Assert.assertEquals("Incorrect number of kinship rows", 0, select1.execute(getApiHelper().getConnection(), getProjectName()).getRowCount().intValue()); |
159 | 151 |
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160 | 152 | // Kick off ETL to stage data. This should also kick off a separate pipeline job to import, using geneticscore-importGeneticsData.view |
161 | | - _etlHelper.runETL("{PMR}/KinshipDataStaging"); |
| 153 | + _etlHelper.runTransform("{PMR}/KinshipDataStaging"); |
162 | 154 | goToDataPipeline(); |
163 | 155 | waitForPipelineJobsToComplete(4, "ETL Job: Import PRIMe-seq Kinship Data", false); |
164 | 156 |
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