/*
* Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
* Copyright (C) $$Year-Rel$$ 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.rest;
import static org.junit.Assert.assertNotNull;
import static org.junit.Assert.assertTrue;
import jalview.gui.AlignFrame;
import java.util.Map;
import org.junit.Test;
/**
* @author jimp
*
*/
public class ShmmrRSBSService
{
@Test
public void testShmmrService()
{
assertTrue(
"Test Rsd Exchange using using default Shmmr service failed.",
TestRestServiceDescription.testRsdExchange(
"Test using default Shmmr service",
RestClient.makeShmmrRestClient().service));
}
@Test
public void testShmmrServiceDataprep() throws Exception
{
RestClient _rc = RestClient.makeShmmrRestClient();
assertNotNull(_rc);
AlignFrame alf = new jalview.io.FileLoader(false)
.LoadFileWaitTillLoaded("examples/testdata/smad.fa",
jalview.io.FormatAdapter.FILE);
assertNotNull("Couldn't find test data.", alf);
alf.loadJalviewDataFile("examples/testdata/smad_groups.jva",
jalview.io.FormatAdapter.FILE, null, null);
assertTrue(
"Couldn't load the test data's annotation file (should be 5 groups but found "
+ alf.getViewport().getAlignment().getGroups().size()
+ ").", alf.getViewport().getAlignment().getGroups()
.size() == 5);
RestClient rc = new RestClient(_rc.service, alf, true);
assertNotNull("Couldn't creat RestClient job.", rc);
jalview.bin.Cache.initLogger();
RestJob rjb = new RestJob(0, new RestJobThread(rc),
rc.av.getAlignment(), null);
rjb.setAlignmentForInputs(rc.service.getInputParams().values(),
rc.av.getAlignment());
for (Map.Entry e : rc.service.getInputParams()
.entrySet())
{
System.out.println("For Input '" + e.getKey() + ":\n"
+ e.getValue().formatForInput(rjb).getContentLength());
}
}
}