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GitHub Issue #159: Require all assay transform scripts to reside in container's @scripts dir #1049

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Merged
cnathe merged 1 commit into from
Aug 4, 2026
Merged

GitHub Issue #159: Require all assay transform scripts to reside in container's @scripts dir #1049

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9 changes: 9 additions & 0 deletions luminex/test/src/org/labkey/test/tests/luminex/LuminexTest.java
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Original file line number Diff line number Diff line change
Expand Up @@ -39,6 +39,7 @@
import org.labkey.test.components.html.BootstrapMenu;
import org.labkey.test.components.html.Checkbox;
import org.labkey.test.pages.ReactAssayDesignerPage;
import org.labkey.test.pages.files.WebDavPage;
import org.labkey.test.pages.luminex.LuminexImportWizard;
import org.labkey.test.util.DataRegionTable;
import org.labkey.test.util.ExtHelper;
Expand Down Expand Up @@ -103,6 +104,7 @@ public abstract class LuminexTest extends BaseWebDriverTest

public static final File RTRANSFORM_SCRIPT_FILE_LABKEY = new File(TestFileUtils.getLabKeyRoot(), "server/modules/commonAssays/luminex/resources/transformscripts/labkey_luminex_transform.R");
public static final File RTRANSFORM_SCRIPT_FILE_LAB = new File(TestFileUtils.getLabKeyRoot(), "server/modules/commonAssays/luminex/resources/transformscripts/tomaras_luminex_transform.R");
public static final File RTRANSFORM_YOUTIL_FILE = new File(TestFileUtils.getLabKeyRoot(), "server/modules/commonAssays/luminex/resources/transformscripts/youtil.R");
public static final File RTRANSFORM_SCRIPT_FILE_NOOP = TestFileUtils.getSampleData("qc/noopTransform.R");

public static final String ASSAY_DATA_FILE_LOCATION_MULTIPLE_FIELD = "__primaryFile__";
Expand Down Expand Up @@ -279,6 +281,13 @@ private void doInit() throws Exception
SaveProtocolCommand saveProtocolCommand = new SaveProtocolCommand(assayProtocol);
saveProtocolCommand.execute(createDefaultConnection(), getProjectName());
}

// Assay designs that use the luminex transform scripts need to upload youtil.R script as sibling in @scripts
// so just include it there now for all cases
WebDavPage webDavPage = WebDavPage.beginAt(this, getProjectName() + "/@scripts");
if (!webDavPage.getFileBrowserHelper().getFileList().contains(RTRANSFORM_YOUTIL_FILE.getName()))
webDavPage.getFileBrowserHelper().uploadFile(RTRANSFORM_YOUTIL_FILE);
goToProjectHome();
}

private void setFieldsToDomain(List<PropertyDescriptor> fields, Domain domain)
Expand Down
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