2 * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3 * Copyright (C) $$Year-Rel$$ The Jalview Authors
5 * This file is part of Jalview.
7 * Jalview is free software: you can redistribute it and/or
8 * modify it under the terms of the GNU General Public License
9 * as published by the Free Software Foundation, either version 3
10 * of the License, or (at your option) any later version.
12 * Jalview is distributed in the hope that it will be useful, but
13 * WITHOUT ANY WARRANTY; without even the implied warranty
14 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15 * PURPOSE. See the GNU General Public License for more details.
17 * You should have received a copy of the GNU General Public License
18 * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
19 * The Jalview Authors are detailed in the 'AUTHORS' file.
23 import jalview.gui.OptsAndParamsPage.OptionBox;
24 import jalview.gui.OptsAndParamsPage.ParamBox;
25 import jalview.util.MessageManager;
26 import jalview.ws.jws2.JabaParamStore;
27 import jalview.ws.jws2.JabaPreset;
28 import jalview.ws.jws2.Jws2Discoverer;
29 import jalview.ws.jws2.jabaws2.Jws2Instance;
30 import jalview.ws.params.ArgumentI;
31 import jalview.ws.params.OptionI;
32 import jalview.ws.params.ParamDatastoreI;
33 import jalview.ws.params.ParameterI;
34 import jalview.ws.params.WsParamSetI;
36 import java.awt.BorderLayout;
37 import java.awt.Component;
38 import java.awt.Dimension;
39 import java.awt.FlowLayout;
41 import java.awt.GridBagConstraints;
42 import java.awt.GridBagLayout;
43 import java.awt.GridLayout;
44 import java.awt.Rectangle;
45 import java.awt.event.ActionEvent;
46 import java.awt.event.ActionListener;
47 import java.awt.event.HierarchyBoundsListener;
48 import java.awt.event.HierarchyEvent;
49 import java.awt.event.ItemEvent;
50 import java.awt.event.ItemListener;
51 import java.awt.event.WindowEvent;
52 import java.awt.event.WindowListener;
54 import java.util.Hashtable;
55 import java.util.Iterator;
56 import java.util.List;
57 import java.util.Vector;
59 import javax.swing.JButton;
60 import javax.swing.JComboBox;
61 import javax.swing.JDialog;
62 import javax.swing.JFrame;
63 import javax.swing.JLabel;
64 import javax.swing.JPanel;
65 import javax.swing.JScrollPane;
66 import javax.swing.JSplitPane;
67 import javax.swing.JTextArea;
68 import javax.swing.border.TitledBorder;
69 import javax.swing.event.DocumentEvent;
70 import javax.swing.event.DocumentListener;
72 import net.miginfocom.swing.MigLayout;
74 import compbio.metadata.Argument;
75 import compbio.metadata.Option;
76 import compbio.metadata.Parameter;
77 import compbio.metadata.Preset;
78 import compbio.metadata.PresetManager;
79 import compbio.metadata.RunnerConfig;
82 * job parameter editing/browsing dialog box. User can browse existing settings
83 * (user + presets + Defaults), and any changes to parameters creates a modified
84 * user parameter set. LOGIC: If the parameter set is modified, and its name is
85 * a valid, non-existant user parameter set, then a save button is shown. If the
86 * parameter set is modified and its name is a valid, extant user parameter set,
87 * then an update button is shown. If user parameter set's name is edited, and
88 * old name exists as a writable user parameter set, then rename button is
89 * shown. If current parameter set is associated with a user defined parameter
90 * set, then : if set is modifed, a 'revert' button is shown. if set is not
91 * modified, a 'delete' button is shown.
96 public class WsJobParameters extends JPanel implements ItemListener,
97 ActionListener, DocumentListener, OptsParametersContainerI
99 URL linkImageURL = getClass().getResource("/images/link.gif");
101 private static final String SVC_DEF = "Defaults"; // this is the null
102 // parameter set as shown to
106 * manager for options and parameters.
108 OptsAndParamsPage opanp = new OptsAndParamsPage(this);
111 * panel containing job options
113 JPanel jobOptions = new JPanel();
116 * panel containing job parameters
118 JPanel paramList = new JPanel();
120 JPanel SetNamePanel = new JPanel();
122 JPanel setDetails = new JPanel();
124 JSplitPane settingsPanel = new JSplitPane();
126 JPanel jobPanel = new JPanel();
128 JScrollPane jobOptionsPane = new JScrollPane();
130 JButton createpref = new JButton();
132 JButton deletepref = new JButton();
134 JButton revertpref = new JButton();
136 JButton updatepref = new JButton();
138 JButton startjob = new JButton();
140 JButton canceljob = new JButton();
142 JComboBox setName = new JComboBox();
144 JTextArea setDescr = new JTextArea();
146 JScrollPane paramPane = new JScrollPane();
148 // ScrollablePanel optsAndparams = new ScrollablePanel();
149 JPanel optsAndparams = new JPanel();
151 RunnerConfig serviceOptions;
153 ParamDatastoreI paramStore;
155 private int MAX_OPTWIDTH = 200;
157 WsJobParameters(Jws2Instance service)
162 public WsJobParameters(Jws2Instance service, WsParamSetI preset)
164 this(null, service, preset, null);
170 * - if null, create new JFrame outside of desktop
174 public WsJobParameters(JFrame parent, Jws2Instance service,
175 WsParamSetI preset, List<Argument> jobArgset)
177 this(parent, null, service, preset, jobArgset);
188 public WsJobParameters(JFrame parent, ParamDatastoreI paramStorei,
189 Jws2Instance service, WsParamSetI preset,
190 List<Argument> jobArgset)
194 this.paramStore = paramStorei;
195 if (paramStore == null)
197 paramStore = service.getParamStore();
199 this.service = service;
200 // argSetModified(false);
201 // populate parameter table
202 initForService(service, preset, jobArgset);
203 // display in new JFrame attached to parent.
209 JDialog frame = null;
212 * shows a modal dialog containing the parameters.
216 public boolean showRunDialog()
219 frame = new JDialog(Desktop.instance, true);
221 frame.setTitle(MessageManager.formatMessage("label.edit_params_for",
223 { service.getActionText() }));
224 Rectangle deskr = Desktop.instance.getBounds();
225 Dimension pref = this.getPreferredSize();
227 new Rectangle((int) (deskr.getCenterX() - pref.width / 2),
228 (int) (deskr.getCenterY() - pref.height / 2),
229 pref.width, pref.height));
230 frame.setContentPane(this);
232 // should perhaps recover defaults from user prefs.
235 javax.swing.SwingUtilities.invokeLater(new Runnable()
240 // jobPanel.setDividerLocation(0.25);
244 frame.setVisible(true);
253 private void jbInit()
255 this.addHierarchyBoundsListener(new HierarchyBoundsListener()
259 public void ancestorResized(HierarchyEvent arg0)
261 refreshParamLayout();
265 public void ancestorMoved(HierarchyEvent arg0)
267 // TODO Auto-generated method stub
271 updatepref = JvSwingUtils.makeButton(
272 MessageManager.getString("action.update"),
273 MessageManager.getString("label.update_user_parameter_set"),
278 public void actionPerformed(ActionEvent e)
280 update_actionPerformed(e);
283 deletepref = JvSwingUtils.makeButton(
284 MessageManager.getString("action.delete"),
285 MessageManager.getString("label.delete_user_parameter_set"),
290 public void actionPerformed(ActionEvent e)
292 delete_actionPerformed(e);
295 createpref = JvSwingUtils.makeButton(
296 MessageManager.getString("action.create"),
297 MessageManager.getString("label.create_user_parameter_set"),
302 public void actionPerformed(ActionEvent e)
304 create_actionPerformed(e);
307 revertpref = JvSwingUtils.makeButton(
308 MessageManager.getString("action.revert"),
310 .getString("label.revert_changes_user_parameter_set"),
315 public void actionPerformed(ActionEvent e)
317 revert_actionPerformed(e);
320 startjob = JvSwingUtils.makeButton(
321 MessageManager.getString("action.start_job"),
322 MessageManager.getString("label.start_job_current_settings"),
326 public void actionPerformed(ActionEvent e)
328 startjob_actionPerformed(e);
331 canceljob = JvSwingUtils.makeButton(
332 MessageManager.getString("action.cancel_job"),
333 MessageManager.getString("label.cancel_job_close_dialog"),
337 public void actionPerformed(ActionEvent e)
339 canceljob_actionPerformed(e);
343 setDetails.setBorder(
344 new TitledBorder(MessageManager.getString("label.details")));
345 setDetails.setLayout(new BorderLayout());
346 setDescr.setColumns(40);
347 setDescr.setWrapStyleWord(true);
348 setDescr.setLineWrap(true);
349 setDescr.setBackground(getBackground());
350 setDescr.setEditable(true);
351 setDescr.getDocument().addDocumentListener(this);
352 setDescr.setToolTipText(
353 MessageManager.getString("label.edit_notes_parameter_set"));
354 JScrollPane setDescrView = new JScrollPane();
355 setDescrView.getViewport().setView(setDescr);
356 setName.setEditable(true);
357 setName.addItemListener(this);
358 setName.getEditor().addActionListener(this);
359 JPanel setNameInfo = new JPanel(new FlowLayout(FlowLayout.LEFT));
360 GridBagLayout gbl = new GridBagLayout();
361 SetNamePanel.setLayout(gbl);
363 JLabel setNameLabel = new JLabel(
364 MessageManager.getString("label.current_parameter_set_name"));
365 setNameLabel.setFont(new java.awt.Font("Verdana", Font.PLAIN, 10));
367 setNameInfo.add(setNameLabel);
368 setNameInfo.add(setName);
370 // initial button visibility
371 updatepref.setVisible(false);
372 deletepref.setVisible(false);
373 revertpref.setVisible(false);
374 createpref.setVisible(false);
375 JPanel setsavebuts = new JPanel();
376 setsavebuts.setLayout(new FlowLayout(FlowLayout.LEFT)); // GridLayout(1,2));
377 ((FlowLayout) setsavebuts.getLayout()).setHgap(10);
378 ((FlowLayout) setsavebuts.getLayout()).setVgap(0);
379 JPanel spacer = new JPanel();
380 spacer.setPreferredSize(new Dimension(2, 30));
381 setsavebuts.add(spacer);
382 setsavebuts.add(deletepref);
383 setsavebuts.add(revertpref);
384 setsavebuts.add(createpref);
385 setsavebuts.add(updatepref);
386 // setsavebuts.setSize(new Dimension(150, 30));
387 JPanel buttonArea = new JPanel(new GridLayout(1, 1));
388 buttonArea.add(setsavebuts);
389 SetNamePanel.add(setNameInfo);
390 GridBagConstraints gbc = new GridBagConstraints();
392 gbl.setConstraints(setNameInfo, gbc);
393 SetNamePanel.add(buttonArea);
394 gbc = new GridBagConstraints();
398 gbl.setConstraints(buttonArea, gbc);
399 setDetails.add(setDescrView, BorderLayout.CENTER);
401 // paramPane.setPreferredSize(new Dimension(360, 400));
402 // paramPane.setPreferredSize(null);
403 jobOptions.setBorder(
404 new TitledBorder(MessageManager.getString("label.options")));
405 jobOptions.setOpaque(true);
407 new TitledBorder(MessageManager.getString("label.parameters")));
408 paramList.setOpaque(true);
409 JPanel bjo = new JPanel(new BorderLayout()),
410 bjp = new JPanel(new BorderLayout());
411 bjo.add(jobOptions, BorderLayout.CENTER);
412 bjp.add(paramList, BorderLayout.CENTER);
415 // optsAndparams.setScrollableWidth(ScrollableSizeHint.FIT);
416 // optsAndparams.setScrollableHeight(ScrollableSizeHint.NONE);
417 // optsAndparams.setLayout(new BorderLayout());
418 optsAndparams.setLayout(new BorderLayout());
419 optsAndparams.add(jobOptions, BorderLayout.NORTH);
420 optsAndparams.add(paramList, BorderLayout.CENTER);
421 JPanel jp = new JPanel(new BorderLayout());
422 jp.add(optsAndparams, BorderLayout.CENTER);
423 paramPane.getViewport().setView(jp);
424 paramPane.setBorder(null);
425 setLayout(new BorderLayout());
426 jobPanel.setPreferredSize(null);
427 jobPanel.setLayout(new BorderLayout());
428 jobPanel.add(setDetails, BorderLayout.NORTH);
429 jobPanel.add(paramPane, BorderLayout.CENTER);
430 // jobPanel.setOrientation(JSplitPane.VERTICAL_SPLIT);
432 add(SetNamePanel, BorderLayout.NORTH);
433 add(jobPanel, BorderLayout.CENTER);
435 JPanel dialogpanel = new JPanel();
436 dialogpanel.add(startjob);
437 dialogpanel.add(canceljob);
438 // JAL-1580: setMaximumSize() doesn't work, so just size for the worst case:
439 // check for null is for JUnit usage
440 final int windowHeight = Desktop.instance == null ? 540
441 : Desktop.instance.getHeight();
442 setPreferredSize(new Dimension(540, windowHeight));
443 add(dialogpanel, BorderLayout.SOUTH);
447 protected void revert_actionPerformed(ActionEvent e)
449 reInitDialog(lastParmSet);
450 updateWebServiceMenus();
453 protected void update_actionPerformed(ActionEvent e)
457 String curname = ((String) setName.getSelectedItem()).trim();
458 _updatePreset(lastParmSet, curname);
459 lastParmSet = curname;
461 initArgSetModified();
462 syncSetNamesWithStore();
466 private void _deleteUserPreset(String lastParmSet2)
468 paramStore.deletePreset(lastParmSet2);
471 protected void delete_actionPerformed(ActionEvent e)
475 // delete current preset's saved entry
476 _deleteUserPreset(lastParmSet);
478 reInitDialog(null); // service default
479 updateWebServiceMenus();
482 protected void create_actionPerformed(ActionEvent e)
484 String curname = ((String) setName.getSelectedItem()).trim();
485 if (curname.length() > 0)
487 _storeCurrentPreset(curname);
488 lastParmSet = curname;
490 reInitDialog(curname);
491 initArgSetModified();
492 updateWebServiceMenus();
496 // TODO: show warning
497 System.err.println("Invalid name. Not saved.");
501 protected void canceljob_actionPerformed(ActionEvent e)
506 frame.setVisible(false);
510 protected void startjob_actionPerformed(ActionEvent e)
515 frame.setVisible(false);
519 Jws2Instance service;
522 * list of service presets in the gui
524 Hashtable servicePresets = null;
527 * set if dialog is being set - so handlers will avoid spurious events
529 boolean settingDialog = false;
531 void initForService(Jws2Instance service, WsParamSetI jabap,
532 List<Argument> jabajobArgset)
534 WsParamSetI p = null;
535 List<ArgumentI> jobArgset = null;
536 settingDialog = true;
537 { // instantiate the abstract proxy for Jaba objects
538 jobArgset = jabajobArgset == null ? null
539 : JabaParamStore.getJwsArgsfromJaba(jabajobArgset);
540 p = jabap; // (jabap != null) ? paramStore.getPreset(jabap.getName()) :
544 Hashtable exnames = new Hashtable();
545 for (int i = 0, iSize = setName.getItemCount(); i < iSize; i++)
547 exnames.put(setName.getItemAt(i), setName.getItemAt(i));
549 servicePresets = new Hashtable();
550 // Add the default entry - if not present already.
551 if (!exnames.contains(SVC_DEF))
553 setName.addItem(SVC_DEF);
554 exnames.put(SVC_DEF, SVC_DEF);
555 servicePresets.put(SVC_DEF, SVC_DEF);
557 String curname = (p == null ? "" : p.getName());
558 for (WsParamSetI pr : paramStore.getPresets())
560 if (!pr.isModifiable())
562 servicePresets.put(pr.getName(), "preset");
567 if (!exnames.contains(pr.getName()))
569 setName.addItem(pr.getName());
572 // TODO: if initial jobArgset matches a given user setting or preset then
573 // should recover setting accordingly
574 // updateTable(p, jobArgset);
577 reInitDialog(p.getName());
578 initArgSetModified();
582 if (jobArgset != null && jobArgset.size() > 0)
584 curSetName = "Supplied Settings";
585 isUserPreset = false;
586 updateTable(p, jobArgset);
587 setName.setSelectedItem(curSetName);
588 updateButtonDisplay();
596 settingDialog = false;
600 @SuppressWarnings("unchecked")
601 private void updateTable(WsParamSetI p, List<ArgumentI> jobArgset)
603 boolean setDefaultParams = false;
604 if (lastParmSet == null)
606 isUserPreset = false;
607 // First call - so provide Service default settings
608 setName.setSelectedItem(lastSetName = SVC_DEF);
610 if (p == null && SVC_DEF.equals("" + setName.getSelectedItem()))
612 // indicate that service defaults should be set if available
613 setDefaultParams = true;
615 // populate table from default parameter set.
616 List<ArgumentI> args = paramStore.getServiceParameters();
618 // split to params and required arguments
621 boolean optset = false;
622 for (ArgumentI myarg : args)
624 // Ideally, Argument would implement isRequired !
625 if (myarg instanceof ParameterI)
627 ParameterI parm = (ParameterI) myarg;
628 opanp.addParameter(parm).validate();
632 if (myarg instanceof OptionI)
634 OptionI opt = (OptionI) myarg;
635 OptionBox ob = opanp.addOption(opt);
636 ob.resetToDefault(setDefaultParams);
637 if (MAX_OPTWIDTH < ob.getPreferredSize().width)
639 MAX_OPTWIDTH = ob.getPreferredSize().width;
642 cw += ob.getPreferredSize().width + 5;
646 System.err.println("Ignoring unknown service argument type "
647 + myarg.getClass().getName());
651 args = null; // no more args to process.
655 isUserPreset = false;
656 // initialise setname
657 setName.setSelectedItem(lastSetName = p.getName());
658 setDescr.setText(lastDescrText = p.getDescription());
662 args = p.getArguments();
663 } catch (Exception e)
667 // TODO: check if args should be unselected prior to resetting using the
671 if (jobArgset != null)
673 argSetModified(jobArgset, true);
676 // get setargs from current object
679 for (ArgumentI arg : args)
681 if (arg instanceof ParameterI)
683 opanp.setParameter((ParameterI) arg);
687 if (arg instanceof OptionI)
689 // System.out.println("Setting option "
690 // + System.identityHashCode(arg) + ":" + arg.getName()
691 // + " with " + arg.getDefaultValue());
692 opanp.selectOption((OptionI) arg, arg.getValue());
699 refreshParamLayout();
703 private boolean isModified()
705 return modifiedElements.size() > 0;
708 private Hashtable modifiedElements = new Hashtable();
711 * reset gui and modification state settings
713 private void initArgSetModified()
716 modifiedElements.clear();
717 updateButtonDisplay();
720 private void updateButtonDisplay()
722 boolean _update = false, _create = false, _delete = false,
724 if (modifiedElements.size() > 0)
728 _update = isUserPreset; // can only update user presets
729 if (!isUserPreset || modifiedElements.containsKey(setName))
731 // name modified - can create new preset
739 // can still delete a user preset
740 _delete = isUserPreset;
742 createpref.setVisible(_create);
743 updatepref.setVisible(_update);
744 deletepref.setVisible(_delete);
745 revertpref.setVisible(_revert);
750 public void argSetModified(Object modifiedElement, boolean b)
758 modifiedElements.remove(modifiedElement);
762 if (b && modifiedElement == setName
763 && modifiedElements.contains(modifiedElement))
765 // HACK! prevents iteration on makeSetNameValid
768 modifiedElements.put(modifiedElement, modifiedElement);
770 // set mod status based on presence of elements in table
771 if (b && modifiedElements.size() > 0)
773 makeSetNameValid(!isUserPreset);
774 SetNamePanel.revalidate();
776 updateButtonDisplay();
779 private boolean isServicePreset(String selectedItem)
781 return selectedItem.equals(SVC_DEF)
782 || servicePresets.containsKey(selectedItem);
786 * check if the current set name is a valid set name for saving, if not, then
789 private void makeSetNameValid(boolean newuserset)
791 boolean stn = settingDialog;
792 boolean renamed = false;
793 settingDialog = true;
794 String nm = (curSetName != null ? curSetName
795 : (String) setName.getSelectedItem());
796 // check if the name is reserved - if it is, rename it.
797 if (isServicePreset(nm))
806 while (paramStore.getPreset(tnm) != null)
808 tnm = nm + " (" + (++i) + ")";
817 boolean makeupdate = false;
818 // sync the gui with the preset database
819 for (int i = 0, iS = setName.getItemCount(); i < iS; i++)
821 String snm = (String) setName.getItemAt(i);
825 // setName.setSelectedIndex(i);
830 setName.addItem(curSetName = nm);
831 setName.setSelectedItem(curSetName);
835 settingDialog = false; // we need this name change to be registered.
836 argSetModified(setName, renamed);
842 public void refreshParamLayout()
844 // optsAndparams.setPreferredSize(null);
845 FlowLayout fl = new FlowLayout(FlowLayout.LEFT);
846 int sep = fl.getVgap();
849 s = jobOptions.getBorder().getBorderInsets(jobOptions).bottom
850 + jobOptions.getBorder().getBorderInsets(jobOptions).top
853 * final height for viewport
856 int panewidth = paramPane.getViewport().getSize().width - 120
857 - jobOptions.getBorder().getBorderInsets(jobOptions).left
858 + jobOptions.getBorder().getBorderInsets(jobOptions).right;
860 int w = 2 * fl.getHgap()
861 + (MAX_OPTWIDTH > OptsAndParamsPage.PARAM_WIDTH ? MAX_OPTWIDTH
862 : OptsAndParamsPage.PARAM_WIDTH);
863 int hgap = fl.getHgap(), cw = hgap;
865 if (opanp.getOptSet().size() > 0)
868 jobOptions.setLayout(new MigLayout("", "", ""));
869 jobOptions.removeAll();
871 for (OptionBox pbox : opanp.getOptSet().values())
874 cw += pbox.getSize().width + hgap;
875 if (cw + 120 > panewidth)
877 jobOptions.add(pbox, "wrap");
878 // System.out.println("Wrap on "+pbox.option.getName());
879 cw = hgap + pbox.getSize().width;
884 jobOptions.add(pbox);
888 finalh += pbox.getSize().height + fl.getVgap();
892 jobOptions.revalidate();
896 jobOptions.setVisible(false);
899 // Now layout the parameters assuming they occupy one column - to calculate
900 // total height of options+parameters
901 fl = new FlowLayout(FlowLayout.LEFT);
903 // http://stackoverflow.com/questions/2743177/top-alignment-for-flowlayout
904 fl.setAlignOnBaseline(true);
905 if (opanp.getParamSet().size() > 0)
907 paramList.removeAll();
908 paramList.setLayout(new MigLayout("", "", ""));
910 for (ParamBox pbox : opanp.getParamSet().values())
913 cw += pbox.getSize().width + hgap;
914 if (cw + 160 > panewidth)
916 paramList.add(pbox, "wrap");
917 cw = pbox.getSize().width + hgap;
926 finalh += pbox.getSize().height + fl.getVgap();
932 * s = 2 * sep; for (ParamBox pbox : opanp.getParamSet().values()) {
933 * pbox.validate(); s += sep +
934 * pbox.getPreferredSize().height+pbox.getBorder
935 * ().getBorderInsets(pbox).bottom; }
937 * // paramList.setPreferredSize(new Dimension(w, s));
938 * os+=s+2*sep+paramList
939 * .getBorder().getBorderInsets(paramList).bottom+paramList
940 * .getBorder().getBorderInsets(paramList).top;
942 paramList.revalidate();
946 paramList.setVisible(false);
948 // TODO: waste some time trying to eliminate any unnecessary .validate calls
950 // System.out.println("Size will be : "+w+","+os);
951 // optsAndparams.setPreferredSize(null);
952 // paramPane.getViewport().setView(optsAndparams);
953 paramPane.getViewport().setAutoscrolls(true);
954 paramPane.revalidate();
959 * testing method - grab a service and parameter set and show the window
963 public static void main(String[] args)
965 jalview.ws.jws2.Jws2Discoverer disc = jalview.ws.jws2.Jws2Discoverer
970 Vector<String> services = new Vector<String>();
971 services.addElement(args[p++]);
972 Jws2Discoverer.getDiscoverer().setServiceUrls(services);
977 } catch (Exception e)
979 System.err.println("Aborting. Problem discovering services.");
983 Jws2Instance lastserv = null;
984 for (Jws2Instance service : disc.getServices())
987 if (p >= args.length || service.serviceType.equalsIgnoreCase(args[p]))
989 if (lastserv != null)
991 List<Preset> prl = null;
993 if (++p < args.length)
995 PresetManager prman = lastserv.getPresets();
998 pr = prman.getPresetByName(args[p]);
1001 // just grab the last preset.
1002 prl = prman.getPresets();
1008 PresetManager prman = lastserv.getPresets();
1011 prl = prman.getPresets();
1014 Iterator<Preset> en = (prl == null) ? null : prl.iterator();
1015 while (en != null && en.hasNext())
1021 en = prl.iterator();
1026 System.out.println("Testing opts dupes for "
1027 + lastserv.getUri() + " : " + lastserv.getActionText()
1028 + ":" + pr.getName());
1029 List<Option> rg = lastserv.getRunnerConfig().getOptions();
1034 Option cpy = jalview.ws.jws2.ParameterUtils.copyOption(o);
1035 } catch (Exception e)
1037 System.err.println("Failed to copy " + o.getName());
1038 e.printStackTrace();
1041 System.err.println("Failed to copy " + o.getName());
1042 e.printStackTrace();
1047 System.out.println("Testing param dupes:");
1048 List<Parameter> rg = lastserv.getRunnerConfig()
1050 for (Parameter o : rg)
1054 Parameter cpy = jalview.ws.jws2.ParameterUtils
1056 } catch (Exception e)
1058 System.err.println("Failed to copy " + o.getName());
1059 e.printStackTrace();
1062 System.err.println("Failed to copy " + o.getName());
1063 e.printStackTrace();
1068 System.out.println("Testing param write:");
1069 List<String> writeparam = null, readparam = null;
1072 writeparam = jalview.ws.jws2.ParameterUtils
1074 pr.getArguments(lastserv.getRunnerConfig()),
1076 System.out.println("Testing param read :");
1077 List<Option> pset = jalview.ws.jws2.ParameterUtils
1078 .processParameters(writeparam,
1079 lastserv.getRunnerConfig(), " ");
1080 readparam = jalview.ws.jws2.ParameterUtils
1081 .writeParameterSet(pset, " ");
1082 Iterator<String> o = pr.getOptions().iterator(),
1083 s = writeparam.iterator(), t = readparam.iterator();
1084 boolean failed = false;
1085 while (s.hasNext() && t.hasNext())
1087 String on = o.next(), sn = s.next(), st = t.next();
1091 "Original was " + on + " Phase 1 wrote " + sn
1092 + "\tPhase 2 wrote " + st);
1099 "Original parameters:\n" + pr.getOptions());
1101 "Wrote parameters in first set:\n" + writeparam);
1103 "Wrote parameters in second set:\n" + readparam);
1106 } catch (Exception e)
1108 e.printStackTrace();
1111 WsJobParameters pgui = new WsJobParameters(lastserv,
1112 new JabaPreset(lastserv, pr));
1113 JFrame jf = new JFrame(MessageManager
1114 .formatMessage("label.ws_parameters_for", new String[]
1115 { lastserv.getActionText() }));
1116 JPanel cont = new JPanel(new BorderLayout());
1118 cont.setPreferredSize(pgui.getPreferredSize());
1119 cont.add(pgui, BorderLayout.CENTER);
1120 jf.setLayout(new BorderLayout());
1121 jf.add(cont, BorderLayout.CENTER);
1123 final Thread thr = Thread.currentThread();
1124 jf.addWindowListener(new WindowListener()
1128 public void windowActivated(WindowEvent e)
1130 // TODO Auto-generated method stub
1135 public void windowClosed(WindowEvent e)
1140 public void windowClosing(WindowEvent e)
1147 public void windowDeactivated(WindowEvent e)
1149 // TODO Auto-generated method stub
1154 public void windowDeiconified(WindowEvent e)
1156 // TODO Auto-generated method stub
1161 public void windowIconified(WindowEvent e)
1163 // TODO Auto-generated method stub
1168 public void windowOpened(WindowEvent e)
1170 // TODO Auto-generated method stub
1175 jf.setVisible(true);
1176 boolean inter = false;
1181 Thread.sleep(10000);
1182 } catch (Exception e)
1195 public boolean isServiceDefaults()
1197 return (!isModified()
1198 && (lastParmSet != null && lastParmSet.equals(SVC_DEF)));
1201 public List<ArgumentI> getJobParams()
1203 return opanp.getCurrentSettings();
1206 String lastParmSet = null;
1209 * Hashtable<String, Object[]> editedParams = new Hashtable<String,
1212 * store the given parameters in the user parameter set database.
1214 * @param storeSetName - lastParmSet
1216 * @param descr - setDescr.getText()
1218 * @param jobParams - getJobParams()
1220 * private void _storeUserPreset(String storeSetName, String descr,
1221 * List<ArgumentI> jobParams) { // this is a simple hash store. Object[] pset;
1222 * editedParams.put(storeSetName, pset = new Object[3]); pset[0] =
1223 * storeSetName; pset[1] = descr; pset[2] = jobParams; // writeParam("Saving "
1224 * + storeSetName + ": ", jobParams); }
1226 * private void writeParam(String nm, List<ArgumentI> params) { for (ArgumentI
1227 * p : params) { System.out.println(nm + ":" + System.identityHashCode(p) +
1228 * " Name: " + p.getName() + " Value: " + p.getDefaultValue()); } }
1230 * private Object[] _getUserPreset(String setName) { Object[] pset =
1231 * editedParams.get(setName); // if (pset != null) // writeParam("Retrieving "
1232 * + setName + ": ", (List<Argument>) pset[2]); return pset; }
1234 * * remove the given user preset from the preset stash
1238 * private void _deleteUserPreset(String setName) {
1239 * editedParams.remove(setName); }
1242 private void syncSetNamesWithStore()
1245 // remove any set names in the drop down menu that aren't either a reserved
1246 // setting, or a user defined or service preset.
1247 Vector items = new Vector();
1248 while (n < setName.getItemCount())
1250 String item = (String) setName.getItemAt(n);
1251 if (!item.equals(SVC_DEF) && !paramStore.presetExists(item))
1253 setName.removeItemAt(n);
1257 items.addElement(item);
1261 if (!items.contains(SVC_DEF))
1263 setName.addItem(SVC_DEF);
1265 for (WsParamSetI upn : paramStore.getPresets())
1267 if (!items.contains(upn.getName()))
1269 setName.addItem(upn.getName());
1275 * true if lastParmSet is a user preset
1277 boolean isUserPreset = false;
1279 private void reInitDialog(String nextPreset)
1281 settingDialog = true;
1282 // updateTable(null,null); // first reset to defaults
1283 WsParamSetI pset = null;
1284 if (nextPreset != null && nextPreset.length() > 0)
1286 pset = paramStore.getPreset(nextPreset);
1290 if (pset.isModifiable())
1292 isUserPreset = true;
1293 setDescr.setText(pset.getDescription());
1294 updateTable(null, pset.getArguments());
1295 lastParmSet = nextPreset;
1299 isUserPreset = false;
1300 setDescr.setText("");
1301 // must be a default preset from service
1302 updateTable(pset, null);
1303 lastParmSet = nextPreset;
1308 isUserPreset = false;
1310 setDescr.setText("");
1311 updateTable(null, null);
1312 lastParmSet = SVC_DEF;
1315 initArgSetModified();
1316 syncSetNamesWithStore();
1317 setName.setSelectedItem(lastParmSet);
1318 SetNamePanel.validate();
1320 settingDialog = false;
1324 * Rebuild the AlignFrame web service menus (after add/delete of a preset
1327 protected void updateWebServiceMenus()
1329 for (AlignFrame alignFrame : Desktop.getAlignFrames())
1331 alignFrame.BuildWebServiceMenu();
1335 String curSetName = null;
1338 public void itemStateChanged(ItemEvent e)
1340 if (e.getSource() == setName && e.getStateChange() == e.SELECTED)
1342 final String setname = (String) setName.getSelectedItem();
1343 System.out.println("Item state changed for " + setname
1344 + " (handling ? " + !settingDialog + ")");
1350 if (setname == null)
1354 javax.swing.SwingUtilities.invokeLater(new Runnable()
1359 doPreferenceComboStateChange(setname);
1365 private void doPreferenceComboStateChange(String setname)
1367 // user has selected a different item from combo-box
1370 String lsetname = (curSetName != null) ? curSetName : lastParmSet;
1371 if (lsetname.equals(setname))
1373 // setname was just edited - so ignore this event.
1376 settingDialog = true;
1377 System.out.println("Prompting to save " + lsetname);
1378 if (JvOptionPane.showConfirmDialog(this, "Parameter set '" + lsetname
1379 + "' is modifed, and your changes will be lost.\nReally change preset ?",
1380 "Warning: Unsaved Changes",
1381 JvOptionPane.OK_CANCEL_OPTION) != JvOptionPane.OK_OPTION)
1383 // revert the combobox to the current item
1384 settingDialog = true;
1385 setName.setSelectedItem(lsetname);
1386 settingDialog = false;
1389 // System.out.println("Saving for " + lsetname);
1390 // _storeCurrentPreset(lsetname);
1394 settingDialog = true;
1395 reInitDialog(setname);
1396 settingDialog = false;
1400 private void _renameExistingPreset(String oldName, String curSetName2)
1402 paramStore.updatePreset(oldName, curSetName2, setDescr.getText(),
1407 * store current settings as given name. You should then reset gui.
1409 * @param curSetName2
1411 private void _storeCurrentPreset(String curSetName2)
1413 paramStore.storePreset(curSetName2, setDescr.getText(), getJobParams());
1416 private void _updatePreset(String lastParmSet2, String curname)
1418 paramStore.updatePreset(lastParmSet2, curname, setDescr.getText(),
1424 * last saved name for this user preset
1426 String lastSetName = null;
1429 * last saved value of the description text for this user preset
1431 String lastDescrText = null;
1434 public void actionPerformed(ActionEvent e)
1436 if (e.getSource() instanceof Component)
1438 Component src = (Component) e.getSource();
1439 if (src.getParent() == setName)
1441 // rename any existing records we know about for this set.
1442 String newname = e.getActionCommand().trim();
1444 if (isServicePreset(newname))
1446 final String oldname = curSetName != null ? curSetName
1448 final Component ourframe = this;
1449 settingDialog = true;
1450 setName.getEditor().setItem(oldname);
1451 settingDialog = false;
1452 javax.swing.SwingUtilities.invokeLater(new Runnable()
1457 JvOptionPane.showMessageDialog(ourframe,
1458 MessageManager.getString(
1459 "label.invalid_name_preset_exists"),
1460 MessageManager.getString("label.invalid_name"),
1461 JvOptionPane.WARNING_MESSAGE);
1467 curSetName = newname;
1468 System.err.println("New name for user setting " + curSetName
1469 + " (was " + setName.getSelectedItem() + ")");
1470 if (curSetName.equals(setName.getSelectedItem()))
1474 if (curSetName != null)
1476 argSetModified(setName, true);
1484 private void checkDescrModified()
1489 argSetModified(setDescr,
1490 (lastDescrText == null
1491 ? setDescr.getText().trim().length() > 0
1492 : !setDescr.getText().equals(lastDescrText)));
1498 public void insertUpdate(DocumentEvent e)
1500 checkDescrModified();
1504 public void removeUpdate(DocumentEvent e)
1506 checkDescrModified();
1510 public void changedUpdate(DocumentEvent e)
1512 checkDescrModified();
1517 * @return null or the service preset selected by the user
1519 public WsParamSetI getPreset()
1521 if (isUserPreset || isModified()
1522 || (lastParmSet != null && lastParmSet.equals(SVC_DEF)))
1528 return paramStore.getPreset(lastParmSet);