parameter set serialization/deserialization and preset/userdefined parameter set...

[jalview.git] / src / jalview / gui / WsJobParameters.java

diff --git a/src/jalview/gui/WsJobParameters.java b/src/jalview/gui/WsJobParameters.java
index cbfa273..3facfa1 100644 (file)
--- a/src/jalview/gui/WsJobParameters.java
+++ b/src/jalview/gui/WsJobParameters.java
@@ -290,8 +290,8 @@ public class WsJobParameters extends JPanel implements ItemListener,
     setName.setEditable(true);
     setName.addItemListener(this);
     setName.getEditor().addActionListener(this);
-    JPanel setNameInfo=new JPanel(new FlowLayout(FlowLayout.LEFT));
-    SetNamePanel.setLayout(new GridLayout(2,1));
+    JPanel setNameInfo = new JPanel(new FlowLayout(FlowLayout.LEFT));
+    SetNamePanel.setLayout(new GridLayout(2, 1));
     SetNamePanel.setMinimumSize(new Dimension(300, 40));
     JLabel setNameLabel = new JLabel("Parameter set: ");
     setNameLabel.setFont(new java.awt.Font("Verdana", Font.PLAIN, 10));
@@ -305,14 +305,14 @@ public class WsJobParameters extends JPanel implements ItemListener,
     createpref.setVisible(false);
     JPanel setsavebuts = new JPanel();
     setsavebuts.setLayout(new FlowLayout(FlowLayout.LEFT)); // GridLayout(1,2));
-    ((FlowLayout)setsavebuts.getLayout()).setHgap(10);
-    ((FlowLayout)setsavebuts.getLayout()).setVgap(0);
+    ((FlowLayout) setsavebuts.getLayout()).setHgap(10);
+    ((FlowLayout) setsavebuts.getLayout()).setVgap(0);
     setsavebuts.add(deletepref);
     setsavebuts.add(revertpref);
     setsavebuts.add(createpref);
     setsavebuts.add(updatepref);
     setsavebuts.setSize(new Dimension(150, 20));
-    JPanel buttonArea=new JPanel(new GridLayout(1,1));
+    JPanel buttonArea = new JPanel(new GridLayout(1, 1));
     buttonArea.add(setsavebuts);
     SetNamePanel.add(setNameInfo);
     SetNamePanel.add(buttonArea);
@@ -689,7 +689,7 @@ public class WsJobParameters extends JPanel implements ItemListener,
       while (_getUserPreset(tnm) != null)
       {
         tnm = nm + " (" + (++i) + ")";
-        renamed=true;
+        renamed = true;
       }
       if (i > 0)
       {
@@ -715,7 +715,7 @@ public class WsJobParameters extends JPanel implements ItemListener,
     }
     if (renamed)
     {
-      settingDialog=false; // we need this name change to be registered.
+      settingDialog = false; // we need this name change to be registered.
       argSetModified(setName, renamed);
     }
     settingDialog = stn;
@@ -756,7 +756,7 @@ public class WsJobParameters extends JPanel implements ItemListener,
     {
       cb = addOption(opt);
     }
-    cb.enabled.setSelected(string!=null); // initial state for an option.
+    cb.enabled.setSelected(string != null); // initial state for an option.
     if (string != null)
     {
       if (opt.getPossibleValues().contains(string))
@@ -1224,7 +1224,7 @@ public class WsJobParameters extends JPanel implements ItemListener,
       {
         return null;
       }
-      Option opt=null;
+      Option opt = null;
       try
       {
         opt = jalview.ws.jws2.ParameterUtils.copyOption(option);
@@ -1258,9 +1258,12 @@ public class WsJobParameters extends JPanel implements ItemListener,
         if (initVal != null)
         {
           notmod &= initVal.equals(val.getSelectedItem());
-        } else {
+        }
+        else
+        {
           // compare against default service setting
-          notmod &= option.getDefaultValue()==null || option.getDefaultValue().equals(val.getSelectedItem()); 
+          notmod &= option.getDefaultValue() == null
+                  || option.getDefaultValue().equals(val.getSelectedItem());
         }
       }
       else
@@ -1340,10 +1343,10 @@ public class WsJobParameters extends JPanel implements ItemListener,
   {
     FlowLayout fl = new FlowLayout();
     paramList.setLayout(fl);
-    int s = 2*fl.getVgap();
+    int s = 2 * fl.getVgap();
     for (ParamBox pbox : paramSet.values())
     {
-      s += fl.getVgap()+pbox.getBoxHeight(); // getBoxHeight();
+      s += fl.getVgap() + pbox.getBoxHeight(); // getBoxHeight();
     }
     paramList.setPreferredSize(new Dimension(PARAM_WIDTH, s));
     validate();
@@ -1458,6 +1461,46 @@ public class WsJobParameters extends JPanel implements ItemListener,
                 }
               }
             }
+            {
+              System.out.println("Testing param write:");
+              List<String> writeparam = null, readparam = null;
+              try
+              {
+                writeparam = jalview.ws.jws2.ParameterUtils
+                        .writeParameterSet(
+                                pr.getArguments(lastserv.getRunnerConfig()),
+                                " ");
+                System.out.println("Testing param read :");
+                List<Option> pset = jalview.ws.jws2.ParameterUtils
+                        .processParameters(writeparam,
+                                lastserv.getRunnerConfig(), " ");
+                readparam = jalview.ws.jws2.ParameterUtils
+                        .writeParameterSet(pset, " ");
+                Iterator<String> o=pr.getOptions().iterator(),s = writeparam.iterator(), t = readparam
+                .iterator();
+                boolean failed=false;
+                while (s.hasNext() && t.hasNext())
+                {
+                  String on=o.next(),sn = s.next(),st=t.next();
+                  if (!sn.equals(st))
+                  {
+                    System.out.println("Original was "+on+" Phase 1 wrote " + sn
+                          + "\tPhase 2 wrote " + st);
+                    failed=true;
+                  }
+                }
+                if (failed)
+                {
+                  System.out.println("Original parameters:\n"+pr.getOptions());
+                  System.out.println("Wrote parameters in first set:\n"+writeparam);
+                  System.out.println("Wrote parameters in second set:\n"+readparam);
+
+                }
+              } catch (Exception e)
+              {
+                e.printStackTrace();
+              }
+            }
             WsJobParameters pgui = new WsJobParameters(lastserv, pr);
             JFrame jf = new JFrame("Parameters for "
                     + lastserv.getActionText());
@@ -1715,15 +1758,16 @@ public class WsJobParameters extends JPanel implements ItemListener,
       if (isModified())
       {
         String lsetname = (curSetName != null) ? curSetName : lastParmSet;
-        if (lsetname.equals(setname)) {
+        if (lsetname.equals(setname))
+        {
           // setname was just edited - so ignore this event.
           return;
         }
-        settingDialog=true;
+        settingDialog = true;
         System.out.println("Prompting to save " + lsetname);
         if (javax.swing.JOptionPane.showConfirmDialog(this,
-                "Parameter set '"+lsetname+"' is modifed\nsave ?", "Save changes ?",
-                javax.swing.JOptionPane.OK_CANCEL_OPTION) == JOptionPane.OK_OPTION)
+                "Parameter set '" + lsetname + "' is modifed\nsave ?",
+                "Save changes ?", javax.swing.JOptionPane.OK_CANCEL_OPTION) == JOptionPane.OK_OPTION)
         {
           System.out.println("Saving for " + lsetname);
           _storeCurrentPreset(lsetname);
@@ -1820,4 +1864,25 @@ public class WsJobParameters extends JPanel implements ItemListener,
   {
     checkDescrModified();
   }
+
+  public Preset getPreset()
+  {
+    if (isUserPreset || isModified()
+            || (lastParmSet != null && lastParmSet.equals(SVC_DEF)))
+    {
+      return null;
+    }
+    else
+    {
+      Preset p = null;
+      try
+      {
+        return (Preset) service.getPresets().getPresetByName(lastParmSet);
+      } catch (Exception e)
+      {
+        e.printStackTrace();
+        return null;
+      }
+    }
+  }
 }
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