JAL-1270 separated standalone tests out of Jws2ParamView, interactive

[jalview.git] / test / jalview / ws / jws2 / ParameterUtilsTest.java

diff --git a/test/jalview/ws/jws2/ParameterUtilsTest.java b/test/jalview/ws/jws2/ParameterUtilsTest.java
new file mode 100644 (file)
index 0000000..bf1b8ee
--- /dev/null
+++ b/test/jalview/ws/jws2/ParameterUtilsTest.java
@@ -0,0 +1,168 @@
+/*
+ * 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 <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+package jalview.ws.jws2;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertFalse;
+import static org.junit.Assert.assertTrue;
+
+import java.util.ArrayList;
+import java.util.Iterator;
+import java.util.List;
+
+import org.junit.BeforeClass;
+import org.junit.Test;
+
+import compbio.metadata.Option;
+import compbio.metadata.Parameter;
+import compbio.metadata.Preset;
+import compbio.metadata.PresetManager;
+import compbio.metadata.WrongParameterException;
+
+import jalview.bin.Cache;
+import jalview.ws.jabaws.JalviewJabawsTestUtils;
+import jalview.ws.jws2.jabaws2.Jws2Instance;
+
+public class ParameterUtilsTest
+{
+  /*
+   * To limit tests to specify services, add them to this list; leave list empty
+   * to test all
+   */
+  private static List<String> serviceTests = new ArrayList<String>();
+
+  private static Jws2Discoverer disc = null;
+
+  @BeforeClass
+  public static void setUpBeforeClass() throws Exception
+  {
+    serviceTests.add("AAConWS".toLowerCase());
+    Cache.initLogger();
+    disc = JalviewJabawsTestUtils.getJabawsDiscoverer();
+  }
+
+  @Test
+  public void testWriteParameterSet() throws WrongParameterException
+  {
+    for (Jws2Instance service : disc.getServices())
+    {
+      if (isForTesting(service))
+      {
+
+        List<Preset> prl = null;
+        PresetManager prman = service.getPresets();
+        if (prman == null)
+        {
+          continue;
+        }
+        prl = prman.getPresets();
+        if (prl == null)
+        {
+          continue;
+        }
+        for (Preset pr : prl)
+        {
+          List<String> writeparam = null;
+          List<String> readparam = null;
+          writeparam = ParameterUtils.writeParameterSet(
+                  pr.getArguments(service.getRunnerConfig()), " ");
+          List<Option> pset = ParameterUtils.processParameters(writeparam,
+                  service.getRunnerConfig(), " ");
+          readparam = ParameterUtils.writeParameterSet(pset, " ");
+          Iterator<String> o = pr.getOptions().iterator();
+          Iterator<String> s = writeparam.iterator();
+          Iterator<String> t = readparam.iterator();
+          boolean failed = false;
+          while (s.hasNext() && t.hasNext())
+          {
+            String on = o.next();
+            String sn = s.next();
+            String st = t.next();
+            final String errorMsg = "Original was " + on + " Phase 1 wrote " + sn
+                    + "\tPhase 2 wrote " + st;
+            assertEquals(errorMsg, sn, st);
+            assertEquals(errorMsg, sn, on);
+          }
+        }
+      }
+    }
+  }
+
+  /**
+   * Returns true if the service is in the list of the ones we chose to test,
+   * _or_ the list is empty (test all)
+   * 
+   * @param service
+   * @return
+   */
+  public boolean isForTesting(Jws2Instance service)
+  {
+    return serviceTests.size() == 0
+            || serviceTests.contains(service.serviceType.toLowerCase());
+  }
+
+  @Test
+  public void testCopyOption()
+  {
+    for (Jws2Instance service : disc.getServices())
+    {
+      if (isForTesting(service))
+      {
+        List<Option<?>> options = service.getRunnerConfig().getOptions();
+        for (Option<?> o : options)
+        {
+          System.out.println("Testing copyOption for option " + o.getName()
+                  + " of " + service.getActionText());
+          Option<?> cpy = ParameterUtils.copyOption(o);
+          assertTrue(cpy.equals(o));
+          assertEquals(cpy.getName(), o.getName());
+          assertFalse(cpy == o);
+          // todo more assertions?
+        }
+      }
+    }
+  }
+
+  /**
+   */
+  @Test
+  public void testCopyParameter()
+  {
+    for (Jws2Instance service : disc.getServices())
+    {
+      if (isForTesting(service))
+      {
+        List<Parameter> parameters = service.getRunnerConfig()
+                .getParameters();
+        for (Parameter o : parameters)
+        {
+          System.out.println("Testing copyParameter for parameter "
+                  + o.getName() + " of " + service.getActionText());
+          Parameter cpy = ParameterUtils.copyParameter(o);
+          assertTrue(cpy.equals(o));
+          assertFalse(cpy == o);
+          assertEquals(cpy.getName(), o.getName());
+          // todo more assertions?
+        }
+      }
+    }
+  }
+}