package jalview.fts.threedbeacons; import static org.testng.AssertJUnit.assertEquals; import static org.testng.AssertJUnit.assertTrue; import java.util.ArrayList; import java.util.Collection; import java.util.HashSet; import java.util.List; import java.util.Set; import org.testng.Assert; import org.testng.annotations.AfterMethod; import org.testng.annotations.BeforeClass; import org.testng.annotations.BeforeMethod; import org.testng.annotations.Test; import jalview.fts.api.FTSDataColumnI; import jalview.fts.api.FTSDataColumnI.FTSDataColumnGroupI; import jalview.fts.core.FTSRestClient; import jalview.fts.core.FTSRestRequest; import jalview.fts.core.FTSRestResponse; import jalview.fts.service.pdb.PDBFTSRestClient; import jalview.fts.service.threedbeacons.TDBeaconsFTSRestClient; import jalview.gui.JvOptionPane; public class TDBeaconsFTSRestClientTest { @BeforeClass(alwaysRun = true) public void setUpJvOptionPane() { JvOptionPane.setInteractiveMode(false); JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION); } private FTSRestClient ftsRestClient; @BeforeMethod(alwaysRun = true) public void setUp() throws Exception { ftsRestClient = new FTSRestClient() { @Override public String getColumnDataConfigFileName() { return "/fts/tdbeacons_data_columns.txt"; } @Override public FTSRestResponse executeRequest(FTSRestRequest ftsRequest) throws Exception { return null; } }; } @AfterMethod(alwaysRun = true) public void tearDown() throws Exception { } @Test public void getAllDefaulDisplayedDataColumns() { // to change when resources.tdbeacons_data_columns.txt is changed Assert.assertNotNull(ftsRestClient .getAllDefaultDisplayedFTSDataColumns()); System.out.println(ftsRestClient.getAllDefaultDisplayedFTSDataColumns()); Assert.assertTrue(!ftsRestClient.getAllDefaultDisplayedFTSDataColumns() .isEmpty()); Assert.assertEquals(ftsRestClient .getAllDefaultDisplayedFTSDataColumns().size(), 11); } @Test(groups = { "Functional" }) public void getPrimaryKeyColumIndexTest() { Collection wantedFields = ftsRestClient .getAllDefaultDisplayedFTSDataColumns(); int foundIndex = -1; try { Assert.assertEquals(foundIndex, -1); foundIndex = ftsRestClient.getPrimaryKeyColumIndex(wantedFields, false); Assert.assertEquals(foundIndex, 10); foundIndex = ftsRestClient .getPrimaryKeyColumIndex(wantedFields, true); Assert.assertEquals(foundIndex, 11); } catch (Exception e) { e.printStackTrace(); Assert.fail("Exception thrown while testing..."); } } @Test(groups = { "Functional" }) public void getDataColumnsFieldsAsCommaDelimitedString() { // to change when resources.tdbeacons_data_columns.txt is changed Collection wantedFields = ftsRestClient .getAllDefaultDisplayedFTSDataColumns(); String actual = ftsRestClient .getDataColumnsFieldsAsCommaDelimitedString(wantedFields); Assert.assertEquals(actual, "model_identifier,provider,model_category,uniprot_start,uniprot_end,resolution,qmean_avg_local_score,coverage,created,entry_name,model_url"); } @Test(groups = { "Functional" }) public void getAllFTSDataColumns() { Collection allFields = ftsRestClient .getAllFTSDataColumns(); Assert.assertNotNull(allFields); //System.out.println(allFields.size()); Assert.assertEquals(allFields.size(), 15); } @Test(groups = { "Functional" }) public void getSearchableDataColumns() { // to change when resources.tdbeacons_data_columns.txt is changed Collection searchableFields = ftsRestClient .getSearchableDataColumns(); Assert.assertNotNull(searchableFields); //System.out.println(searchableFields.size()); Assert.assertEquals(searchableFields.size(), 1); //only 1: uniprot accession } @Test(groups = { "Functional" }) public void getPrimaryKeyColumn() { // to change when resources.tdbeacons_data_columns.txt is changed FTSDataColumnI expectedPKColumn; try { expectedPKColumn = ftsRestClient .getDataColumnByNameOrCode("Url"); Assert.assertNotNull(ftsRestClient.getPrimaryKeyColumn()); Assert.assertEquals(ftsRestClient.getPrimaryKeyColumn(), expectedPKColumn); } catch (Exception e) { e.printStackTrace(); Assert.fail("Exception thrown while testing..."); } } @Test(groups = { "Functional" }) public void getDataColumnByNameOrCode() { try { FTSDataColumnI foundDataCol = ftsRestClient .getDataColumnByNameOrCode("uniprot_accession"); Assert.assertNotNull(foundDataCol); Assert.assertEquals(foundDataCol.getName(), "UniProt Accession"); } catch (Exception e) { e.printStackTrace(); Assert.fail("Exception thrown while testing..."); } } @Test(groups = { "Functional" }) public void getDataColumnGroupById() { FTSDataColumnGroupI foundDataColGroup; try { foundDataColGroup = ftsRestClient.getDataColumnGroupById("g2"); Assert.assertNotNull(foundDataColGroup); Assert.assertEquals(foundDataColGroup.getName(), "Quality"); } catch (Exception e) { e.printStackTrace(); } } @Test(groups = { "Functional" }) public void getDefaultResponsePageSize() { int defaultResSize = ftsRestClient.getDefaultResponsePageSize(); Assert.assertEquals(defaultResSize, 100); //why 100 or 500 ? pdb is 100, uniprot 500 } @Test(groups = { "Functional" }) public void getColumnMinWidthTest() { try { FTSDataColumnI foundDataCol = ftsRestClient .getDataColumnByNameOrCode("uniprot_accession"); Assert.assertNotNull(foundDataCol); int actualColMinWidth = foundDataCol.getMinWidth(); Assert.assertEquals(actualColMinWidth, 50); } catch (Exception e) { e.printStackTrace(); Assert.fail("Exception thrown while testing..."); } } // could add test for MaxWidth & PreferedWith @Test(groups = { "Functional" }) public void getColumnClassTest() { try { FTSDataColumnI foundDataCol = ftsRestClient .getDataColumnByNameOrCode("uniprot_accession"); Assert.assertNotNull(foundDataCol); Assert.assertEquals(foundDataCol.getDataType().getDataTypeClass(), String.class); foundDataCol = ftsRestClient.getDataColumnByNameOrCode("id"); Assert.assertNotNull(foundDataCol); Assert.assertEquals(foundDataCol.getDataType().getDataTypeClass(), String.class); } catch (Exception e) { e.printStackTrace(); Assert.fail("Exception thrown while testing..."); } } @Test(groups = { "Functional" }) public void coverageForEqualsAndHashFunction() { Set uniqueSet = new HashSet(); Collection searchableCols = ftsRestClient .getSearchableDataColumns(); System.out.println(searchableCols); for (FTSDataColumnI foundCol : searchableCols) { System.out.println(foundCol.toString()); uniqueSet.add(foundCol); uniqueSet.add(foundCol); } Assert.assertTrue(!uniqueSet.isEmpty()); //Assert.assertEquals(uniqueSet.size(), 22); -> 1 or 2 currently for 3DB } @Test(groups = { "Functional" }) public void getTDBIdColumIndexTest() { List wantedFields = new ArrayList(); try { wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("Model id")); wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("uniprot_accession")); wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("entry name")); } catch (Exception e) { e.printStackTrace(); } try { assertEquals(4, TDBeaconsFTSRestClient.getInstance() .getPrimaryKeyColumIndex(wantedFields, true)); // assertEquals(3, TDBeaconsFTSRestClient.getInstance() // .getPrimaryKeyColumIndex(wantedFields, true)); } catch (Exception e) { e.printStackTrace(); } } @Test(groups = { "External", "Network" }) public void executeRequestTest() { List wantedFields = new ArrayList(); try { wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("Model Id")); wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("model_url")); wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("provider")); wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("model_category")); wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("qmean_avg_local_score")); wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("uniprot_start")); wantedFields.add(TDBeaconsFTSRestClient.getInstance() .getDataColumnByNameOrCode("uniprot_end")); } catch (Exception e1) { e1.printStackTrace(); } System.out.println("wantedFields >>" + wantedFields); FTSRestRequest request = new FTSRestRequest(); request.setResponseSize(100); request.setFieldToSearchBy(""); request.setSearchTerm("P01318.json"); request.setWantedFields(wantedFields); System.out.println("request : " + request.getFieldToSearchBy()); //System.out.println(request.toString()); FTSRestResponse response; try { response = TDBeaconsFTSRestClient.getInstance().executeRequest(request); } catch (Exception e) { e.printStackTrace(); Assert.fail("Couldn't execute webservice call!"); return; } assertTrue(response.getSearchSummary() != null); assertTrue(response.getNumberOfItemsFound() > 3); //4 atm System.out.println("Search summary : \n" + response.getSearchSummary()); //System.out.println(response.getSearchSummary().size()); } }