From a98eb17c63fd7f60dab46c2e80573262530cf06b Mon Sep 17 00:00:00 2001
From: tpylak <tpylak>
Date: Thu, 14 Jul 2011 13:02:34 +0000
Subject: [PATCH] minor: changes in class to test MatLab API
SVN: 22143
---
.../java/BiozentrumMatLabApiTest.java | 44 ++++++++++++++++---
1 file changed, 38 insertions(+), 6 deletions(-)
diff --git a/screening/sourceTest/java/BiozentrumMatLabApiTest.java b/screening/sourceTest/java/BiozentrumMatLabApiTest.java
index b5d0dcd2e87..4c840e5fe16 100644
--- a/screening/sourceTest/java/BiozentrumMatLabApiTest.java
+++ b/screening/sourceTest/java/BiozentrumMatLabApiTest.java
@@ -29,7 +29,7 @@ public class BiozentrumMatLabApiTest
.println("Specify the password and optionally the plate identifier, mount point and dataset type pattern!");
}
String passwd = args[0];
- String chosenPlate = "/TEST/KB01";
+ String chosenPlate = "/GROUP_DEHIO/KB03-2O-130";
String mountPoint = null;
String datasetTypePattern = "HCS_ANALYSIS_CELL_CLASSIFICATIONS_MAT";
if (args.length > 1)
@@ -41,34 +41,66 @@ public class BiozentrumMatLabApiTest
mountPoint = args[2];
}
+ // OpenBISScreeningML.login("cisd", passwd, "https://infectx.biozentrum.unibas.ch");
OpenBISScreeningML.login("cisd", passwd, "http://bc2-openbis01.bc2.unibas.ch:8443");
+ // OpenBISScreeningML.login("admin", passwd, "https://sprint-openbis.ethz.ch:8446");
+ // OpenBISScreeningML.login("admin", passwd, "http://127.0.0.1:8888");
String experiment = "/TEST/TEST-USER/MY-ASSAY";
- Object[][] channels = OpenBISScreeningML.listChannels(experiment);
- print2DArray(channels);
+ testListChannels(experiment);
testLoadFeatures(chosenPlate, experiment);
-
testImagesMetadata(chosenPlate);
testLoadImage(chosenPlate);
testWellProperties(chosenPlate);
testLoadDataset(chosenPlate, mountPoint, datasetTypePattern);
+ testUploadDataset(chosenPlate);
+
+ testUploadDataset("/RESEARCH_IT/TEST2");
+ // testUploadDataset("/DEMO/VL0206A-FV1801");
+ // testUploadDataset("/TEST/PLATE1");
OpenBISScreeningML.logout();
}
+ private static void testListChannels(String experiment)
+ {
+ Object[][] channels = OpenBISScreeningML.listChannels(experiment);
+ print2DArray(channels);
+ }
+
+ private static void testUploadDataset(String chosenPlate)
+ {
+ String file = "/Users/tpylak/main/tmp/bioz-test/PlateSummary.csv";
+ String datasetType = "HCS_ANALYSIS_WELL_CLASSIFICATION_SUMMARIES";
+ String datasetCode;
+ Object[][] dataSetProperties = new Object[][]
+ { new Object[] {} };
+ datasetCode =
+ (String) OpenBISScreeningML.uploadDataSet(chosenPlate, file, datasetType,
+ dataSetProperties);
+ System.out.println("Uploaded classification dataset " + datasetCode);
+
+ datasetCode =
+ (String) OpenBISScreeningML.uploadDataSet(chosenPlate, file,
+ "HCS_ANALYSIS_CELL_CLASSIFICATIONS_MAT", dataSetProperties);
+ System.out.println("Uploaded any dataset " + datasetCode);
+ }
+
private static void testLoadFeatures(String chosenPlate, String experiment)
{
Object[][] features = OpenBISScreeningML.listFeatures(experiment, null);
print2DArray(features);
- Object[][][] featureMatrix = OpenBISScreeningML.getFeatureMatrixForPlate(chosenPlate, null, null);
+ Object[][][] featureMatrix =
+ OpenBISScreeningML.getFeatureMatrixForPlate(chosenPlate, null, null);
System.out.println("per plate features -------------------------------");
print3DArray(featureMatrix);
String[] featureNames = new String[]
{ "OOF" };
- featureMatrix = OpenBISScreeningML.getFeatureMatrixForPlate(chosenPlate, null, featureNames);
+ featureMatrix =
+ OpenBISScreeningML.getFeatureMatrixForPlate(chosenPlate, null, featureNames);
System.out.println("one per plate feature -------------------------------");
print3DArray(featureMatrix);
--
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