package jalview.ws.dbsources;
+import java.io.File;
import java.io.FileInputStream;
+import java.io.FileNotFoundException;
+import java.io.IOException;
+import org.json.simple.parser.ParseException;
import org.junit.Assert;
+import org.testng.FileAssert;
import org.testng.annotations.BeforeClass;
import org.testng.annotations.DataProvider;
import org.testng.annotations.Test;
import jalview.datamodel.Sequence;
+import jalview.gui.Desktop;
import jalview.gui.JvOptionPane;
+import jalview.structure.StructureMapping;
+import jalview.structure.StructureSelectionManager;
import jalview.ws.datamodel.alphafold.PAEContactMatrix;
public class EBIAlphaFoldTest
new FileInputStream(paeFile)));
Assert.assertNotEquals("No data from " + paeFile, cm.getMax(), 0);
}
+
+ @Test(groups = { "Functional" }, dataProvider = "getPDBandPAEfiles")
+ public void checkImportPAEToStructure(String pdbFile, String paeFile)
+ {
+ FileInputStream paeInput = null;
+ try
+ {
+ paeInput = new FileInputStream(paeFile);
+ } catch (FileNotFoundException e)
+ {
+ e.printStackTrace();
+ FileAssert.assertFile(new File(paeFile),
+ "Test file '" + paeFile + "' doesn't seem to exist");
+ }
+ StructureSelectionManager ssm = StructureSelectionManager
+ .getStructureSelectionManager(Desktop.instance);
+
+ StructureMapping[] smArray = ssm.getMapping(pdbFile);
+
+ try
+ {
+ boolean done = EBIAlfaFold.importPaeJSONAsContactMatrixToStructure(
+ smArray, paeInput, "label");
+ Assert.assertTrue(
+ "Import of '" + paeFile + "' didn't complete successfully",
+ done);
+ } catch (IOException | ParseException e)
+ {
+ e.printStackTrace();
+ }
+
+ }
}