+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
+ * Copyright (C) 2014 The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
package jalview.ws;
import static org.junit.Assert.*;
public class PDBSequenceFetcherTest
{
+ SequenceFetcher sf;
+
@Before
public void setUp() throws Exception
{
+ sf = new SequenceFetcher(false);
+ }
+
+ @Test
+ public void testPdbPerChainRetrieve() throws Exception
+ {
+ List<DbSourceProxy> sps = sf.getSourceProxy("PDB");
+ AlignmentI response = sps.get(0).getSequenceRecords("1QIPA");
+ assertTrue(response != null);
+ assertTrue(response.getHeight() == 1);
}
@Test
public void testRnaSeqRetrieve() throws Exception
{
- List<DbSourceProxy> sps = new SequenceFetcher(false)
- .getSourceProxy("PDB");
+ List<DbSourceProxy> sps = sf.getSourceProxy("PDB");
AlignmentI response = sps.get(0).getSequenceRecords("2GIS");
- assertTrue(response!=null);
- assertTrue(response.getHeight()==1);
- for (SequenceI sq:response.getSequences())
+ assertTrue(response != null);
+ assertTrue(response.getHeight() == 1);
+ for (SequenceI sq : response.getSequences())
{
- assertTrue("No annotation transfered to sequence.",sq.getAnnotation().length>0);
- assertTrue("No PDBEntry on sequence.",sq.getPDBId().size()>0);
- assertTrue("No RNA annotation on sequence.", sq.getRNA()!=null);
+ assertTrue("No annotation transfered to sequence.",
+ sq.getAnnotation().length > 0);
+ assertTrue("No PDBEntry on sequence.", sq.getPDBId().size() > 0);
+ assertTrue("No RNA annotation on sequence.", sq.getRNA() != null);
}
}