X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fws%2Fdbsources%2FUniprotTest.java;h=77f8078981a010046c0572db1ea1de88ba0f3a37;hb=7b371f1422157268c4dc89ce0766916eecf9779e;hp=72e599d924a429f40ac02f227cb2ddfd129606cd;hpb=44ea28b34efb0127cf862ec4b2b684311c91c7af;p=jalview.git
diff --git a/test/jalview/ws/dbsources/UniprotTest.java b/test/jalview/ws/dbsources/UniprotTest.java
index 72e599d..77f8078 100644
--- a/test/jalview/ws/dbsources/UniprotTest.java
+++ b/test/jalview/ws/dbsources/UniprotTest.java
@@ -21,10 +21,12 @@
package jalview.ws.dbsources;
import static org.testng.AssertJUnit.assertEquals;
+import static org.testng.AssertJUnit.assertNotNull;
import static org.testng.AssertJUnit.assertNull;
import jalview.datamodel.PDBEntry;
import jalview.datamodel.SequenceFeature;
+import jalview.datamodel.SequenceI;
import jalview.datamodel.UniprotEntry;
import java.io.Reader;
@@ -46,6 +48,7 @@ public class UniprotTest
+ "Mitogen-activated protein kinase 13Henry"
+ ""
+ ""
+ + ""
+ ""
+ ""
+ ""
@@ -109,7 +112,7 @@ public class UniprotTest
* Check cross-references
*/
Vector xrefs = entry.getDbReference();
- assertEquals(2, xrefs.size());
+ assertEquals(3, xrefs.size());
PDBEntry xref = xrefs.get(0);
assertEquals("2FSQ", xref.getId());
@@ -122,8 +125,29 @@ public class UniprotTest
assertEquals("2FSR", xref.getId());
assertEquals("PDBsum", xref.getType());
assertNull(xref.getProperty());
+
+ xref = xrefs.get(2);
+ assertEquals("AE007869", xref.getId());
+ assertEquals("EMBL", xref.getType());
+ assertNotNull(xref.getProperty());
+ assertEquals("AAK85932.1",
+ (String) xref.getProperty().get("protein sequence ID"));
+ assertEquals("Genomic_DNA",
+ (String) xref.getProperty().get("molecule type"));
+ assertEquals(2, xref.getProperty().size());
+
}
+ @Test(groups = { "Functional" })
+ public void testGetUniprotSequence()
+ {
+ UniprotEntry entry = new Uniprot().getUniprotEntries(
+ new StringReader(UNIPROT_XML)).get(0);
+ SequenceI seq = new Uniprot().uniprotEntryToSequenceI(entry);
+ assertNotNull(seq);
+ assertEquals(6, seq.getDBRefs().length); // 2*Uniprot, PDB, PDBsum, 2*EMBL
+
+ }
/**
* Test the method that formats the sequence id
*/