From: Jim Procter Date: Tue, 26 Apr 2016 16:08:58 +0000 (+0100) Subject: JAL-2084 JAL-2079 removed RFAM(Full) from Xfam Network tests X-Git-Tag: Release_2_10_0~235^2~8 X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=519d1e7f23bd48da68619b1819f7c807d5ee3fb5;p=jalview.git JAL-2084 JAL-2079 removed RFAM(Full) from Xfam Network tests --- diff --git a/test/jalview/ws/dbsources/XfamFetcherTest.java b/test/jalview/ws/dbsources/XfamFetcherTest.java new file mode 100644 index 0000000..e164267 --- /dev/null +++ b/test/jalview/ws/dbsources/XfamFetcherTest.java @@ -0,0 +1,64 @@ +/* + * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2) + * Copyright (C) 2016 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 . + * The Jalview Authors are detailed in the 'AUTHORS' file. + */ +package jalview.ws.dbsources; + +import jalview.datamodel.AlignmentI; + +import org.testng.Assert; +import org.testng.annotations.Test; + +public class XfamFetcherTest +{ + @Test(groups = { "network" }) + public void testRfamSeed() throws Exception + { + // RfamFull rff = new RfamFull(); + RfamSeed rfs = new RfamSeed(); + + AlignmentI seedrf = rfs.getSequenceRecords(rfs.getTestQuery()); + Assert.assertNotNull(seedrf, "Seed Alignment for " + rfs.getTestQuery() + + " didn't retrieve."); + Assert.assertTrue(seedrf.getHeight() > 1, + "Seed Alignment for " + rfs.getTestQuery() + + " didn't contain more than one sequence."); + } + + @Test(groups = { "network" }) + public void testPfamFullAndSeed() throws Exception + { + PfamFull pff = new PfamFull(); + PfamSeed pfseed = new PfamSeed(); + + AlignmentI fullpf = pff.getSequenceRecords(pff.getTestQuery()); + Assert.assertNotNull(fullpf, "Full Alignment for " + pff.getTestQuery() + + " didn't retrieve."); + Assert.assertTrue(fullpf.getHeight() > 1, + "Full Alignment for " + pff.getTestQuery() + + " didn't have more than one sequence."); + AlignmentI seedpf = pfseed.getSequenceRecords(pff.getTestQuery()); + Assert.assertNotNull(seedpf, "Seed Alignment for " + pff.getTestQuery() + + " didn't retrieve."); + + Assert.assertTrue(seedpf.getHeight() < fullpf.getHeight(), + "Expected Full alignment to have more sequences than seed for " + + pff.getTestQuery()); + } +}