2 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
3 * Copyright (C) 2014 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.JOptionPane;
65 import javax.swing.JPanel;
66 import javax.swing.JScrollPane;
67 import javax.swing.JSplitPane;
68 import javax.swing.JTextArea;
69 import javax.swing.border.TitledBorder;
70 import javax.swing.event.DocumentEvent;
71 import javax.swing.event.DocumentListener;
73 import net.miginfocom.swing.MigLayout;
75 import compbio.metadata.Argument;
76 import compbio.metadata.Option;
77 import compbio.metadata.Parameter;
78 import compbio.metadata.Preset;
79 import compbio.metadata.PresetManager;
80 import compbio.metadata.RunnerConfig;
83 * job parameter editing/browsing dialog box. User can browse existing settings
84 * (user + presets + Defaults), and any changes to parameters creates a modified
85 * user parameter set. LOGIC: If the parameter set is modified, and its name is
86 * a valid, non-existant user parameter set, then a save button is shown. If the
87 * parameter set is modified and its name is a valid, extant user parameter set,
88 * then an update button is shown. If user parameter set's name is edited, and
89 * old name exists as a writable user parameter set, then rename button is
90 * shown. If current parameter set is associated with a user defined parameter
91 * set, then : if set is modifed, a 'revert' button is shown. if set is not
92 * modified, a 'delete' button is shown.
97 public class WsJobParameters extends JPanel implements ItemListener,
98 ActionListener, DocumentListener, OptsParametersContainerI
100 URL linkImageURL = getClass().getResource("/images/link.gif");
102 private static final String SVC_DEF = "Defaults"; // this is the null
103 // parameter set as shown to
107 * manager for options and parameters.
109 OptsAndParamsPage opanp = new OptsAndParamsPage(this);
112 * panel containing job options
114 JPanel jobOptions = new JPanel();
117 * panel containing job parameters
119 JPanel paramList = new JPanel();
121 JPanel SetNamePanel = new JPanel();
123 JPanel setDetails = new JPanel();
125 JSplitPane settingsPanel = new JSplitPane();
127 JPanel jobPanel = new JPanel();
129 JScrollPane jobOptionsPane = new JScrollPane();
131 JButton createpref = new JButton();
133 JButton deletepref = new JButton();
135 JButton revertpref = new JButton();
137 JButton updatepref = new JButton();
139 JButton startjob = new JButton();
141 JButton canceljob = new JButton();
143 JComboBox setName = new JComboBox();
145 JTextArea setDescr = new JTextArea();
147 JScrollPane paramPane = new JScrollPane();
149 // ScrollablePanel optsAndparams = new ScrollablePanel();
150 JPanel optsAndparams = new JPanel();
152 RunnerConfig serviceOptions;
154 ParamDatastoreI paramStore;
156 private int MAX_OPTWIDTH = 200;
158 WsJobParameters(Jws2Instance service)
163 public WsJobParameters(Jws2Instance service, WsParamSetI preset)
165 this(null, service, preset, null);
171 * - if null, create new JFrame outside of desktop
175 public WsJobParameters(JFrame parent, Jws2Instance service,
176 WsParamSetI preset, List<Argument> jobArgset)
178 this(parent, null, service, preset, jobArgset);
189 public WsJobParameters(JFrame parent, ParamDatastoreI paramStorei,
190 Jws2Instance service, WsParamSetI preset, 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", new String[]{service.getActionText()}));
222 Rectangle deskr = Desktop.instance.getBounds();
223 Dimension pref = this.getPreferredSize();
224 frame.setBounds(new Rectangle(
225 (int) (deskr.getCenterX() - pref.width / 2), (int) (deskr
226 .getCenterY() - pref.height / 2), pref.width,
228 frame.setContentPane(this);
230 // should perhaps recover defaults from user prefs.
233 javax.swing.SwingUtilities.invokeLater(new Runnable()
237 // jobPanel.setDividerLocation(0.25);
241 frame.setVisible(true);
250 private void jbInit()
252 this.addHierarchyBoundsListener(new HierarchyBoundsListener()
256 public void ancestorResized(HierarchyEvent arg0)
258 refreshParamLayout();
262 public void ancestorMoved(HierarchyEvent arg0)
264 // TODO Auto-generated method stub
268 updatepref = JvSwingUtils.makeButton(
269 MessageManager.getString("action.update"),
270 MessageManager.getString("label.update_user_parameter_set"),
274 public void actionPerformed(ActionEvent e)
276 update_actionPerformed(e);
279 deletepref = JvSwingUtils.makeButton(
280 MessageManager.getString("action.delete"),
281 MessageManager.getString("label.delete_user_parameter_set"),
285 public void actionPerformed(ActionEvent e)
287 delete_actionPerformed(e);
290 createpref = JvSwingUtils.makeButton(
291 MessageManager.getString("action.create"),
292 MessageManager.getString("label.create_user_parameter_set"),
296 public void actionPerformed(ActionEvent e)
298 create_actionPerformed(e);
301 revertpref = JvSwingUtils.makeButton(MessageManager
302 .getString("action.revert"), MessageManager
303 .getString("label.revert_changes_user_parameter_set"),
307 public void actionPerformed(ActionEvent e)
309 revert_actionPerformed(e);
312 startjob = JvSwingUtils.makeButton(
313 MessageManager.getString("action.start_job"),
314 MessageManager.getString("label.start_job_current_settings"),
317 public void actionPerformed(ActionEvent e)
319 startjob_actionPerformed(e);
322 canceljob = JvSwingUtils.makeButton(
323 MessageManager.getString("action.cancel_job"),
324 MessageManager.getString("label.cancel_job_close_dialog"),
327 public void actionPerformed(ActionEvent e)
329 canceljob_actionPerformed(e);
333 setDetails.setBorder(new TitledBorder(MessageManager
334 .getString("label.details")));
335 setDetails.setLayout(new BorderLayout());
336 setDescr.setColumns(40);
337 setDescr.setWrapStyleWord(true);
338 setDescr.setLineWrap(true);
339 setDescr.setBackground(getBackground());
340 setDescr.setEditable(true);
341 setDescr.getDocument().addDocumentListener(this);
342 setDescr.setToolTipText(MessageManager
343 .getString("label.edit_notes_parameter_set"));
344 JScrollPane setDescrView = new JScrollPane();
345 // setDescrView.setPreferredSize(new Dimension(350, 200));
346 setDescrView.getViewport().setView(setDescr);
347 setName.setEditable(true);
348 setName.addItemListener(this);
349 setName.getEditor().addActionListener(this);
350 JPanel setNameInfo = new JPanel(new FlowLayout(FlowLayout.LEFT));
351 GridBagLayout gbl = new GridBagLayout();
352 SetNamePanel.setLayout(gbl);
354 JLabel setNameLabel = new JLabel(
355 MessageManager.getString("label.current_parameter_set_name"));
356 setNameLabel.setFont(new java.awt.Font("Verdana", Font.PLAIN, 10));
358 setNameInfo.add(setNameLabel);
359 setNameInfo.add(setName);
361 // initial button visibility
362 updatepref.setVisible(false);
363 deletepref.setVisible(false);
364 revertpref.setVisible(false);
365 createpref.setVisible(false);
366 JPanel setsavebuts = new JPanel();
367 setsavebuts.setLayout(new FlowLayout(FlowLayout.LEFT)); // GridLayout(1,2));
368 ((FlowLayout) setsavebuts.getLayout()).setHgap(10);
369 ((FlowLayout) setsavebuts.getLayout()).setVgap(0);
370 JPanel spacer = new JPanel();
371 spacer.setPreferredSize(new Dimension(2, 30));
372 setsavebuts.add(spacer);
373 setsavebuts.add(deletepref);
374 setsavebuts.add(revertpref);
375 setsavebuts.add(createpref);
376 setsavebuts.add(updatepref);
377 // setsavebuts.setSize(new Dimension(150, 30));
378 JPanel buttonArea = new JPanel(new GridLayout(1, 1));
379 buttonArea.add(setsavebuts);
380 SetNamePanel.add(setNameInfo);
381 GridBagConstraints gbc = new GridBagConstraints();
383 gbl.setConstraints(setNameInfo, gbc);
384 SetNamePanel.add(buttonArea);
385 gbc = new GridBagConstraints();
389 gbl.setConstraints(buttonArea, gbc);
390 setDetails.add(setDescrView, BorderLayout.CENTER);
392 // paramPane.setPreferredSize(new Dimension(360, 400));
393 // paramPane.setPreferredSize(null);
394 jobOptions.setBorder(new TitledBorder(MessageManager
395 .getString("label.options")));
396 jobOptions.setOpaque(true);
397 paramList.setBorder(new TitledBorder(MessageManager
398 .getString("label.parameters")));
399 paramList.setOpaque(true);
400 JPanel bjo = new JPanel(new BorderLayout()), bjp = new JPanel(
402 bjo.add(jobOptions, BorderLayout.CENTER);
403 bjp.add(paramList, BorderLayout.CENTER);
406 // optsAndparams.setScrollableWidth(ScrollableSizeHint.FIT);
407 // optsAndparams.setScrollableHeight(ScrollableSizeHint.NONE);
408 // optsAndparams.setLayout(new BorderLayout());
409 optsAndparams.setLayout(new BorderLayout());
410 optsAndparams.add(jobOptions, BorderLayout.NORTH);
411 optsAndparams.add(paramList, BorderLayout.CENTER);
412 JPanel jp = new JPanel(new BorderLayout());
413 jp.add(optsAndparams, BorderLayout.CENTER);
414 paramPane.getViewport().setView(jp);
415 paramPane.setBorder(null);
416 setLayout(new BorderLayout());
417 jobPanel.setPreferredSize(null);
418 jobPanel.setLayout(new BorderLayout());
419 jobPanel.add(setDetails, BorderLayout.NORTH);
420 jobPanel.add(paramPane, BorderLayout.CENTER);
421 // jobPanel.setOrientation(JSplitPane.VERTICAL_SPLIT);
423 add(SetNamePanel, BorderLayout.NORTH);
424 add(jobPanel, BorderLayout.CENTER);
426 JPanel dialogpanel = new JPanel();
427 dialogpanel.add(startjob);
428 dialogpanel.add(canceljob);
429 add(dialogpanel, BorderLayout.SOUTH);
433 protected void revert_actionPerformed(ActionEvent e)
435 reInitDialog(lastParmSet);
439 protected void update_actionPerformed(ActionEvent e)
443 String curname = ((String) setName.getSelectedItem()).trim();
444 _updatePreset(lastParmSet, curname);
445 lastParmSet = curname;
447 initArgSetModified();
448 syncSetNamesWithStore();
452 private void _deleteUserPreset(String lastParmSet2)
454 paramStore.deletePreset(lastParmSet2);
457 protected void delete_actionPerformed(ActionEvent e)
461 // delete current preset's saved entry
462 _deleteUserPreset(lastParmSet);
464 reInitDialog(null); // service default
467 protected void create_actionPerformed(ActionEvent e)
469 String curname = ((String) setName.getSelectedItem()).trim();
470 if (curname.length() > 0)
472 _storeCurrentPreset(curname);
473 lastParmSet = curname;
475 initArgSetModified();
479 // TODO: show warning
480 System.err.println("Invalid name. Not saved.");
484 protected void canceljob_actionPerformed(ActionEvent e)
489 frame.setVisible(false);
493 protected void startjob_actionPerformed(ActionEvent e)
498 frame.setVisible(false);
502 Jws2Instance service;
505 * list of service presets in the gui
507 Hashtable servicePresets = null;
510 * set if dialog is being set - so handlers will avoid spurious events
512 boolean settingDialog = false;
514 void initForService(Jws2Instance service, WsParamSetI jabap,
515 List<Argument> jabajobArgset)
517 WsParamSetI p = null;
518 List<ArgumentI> jobArgset = null;
519 settingDialog = true;
520 { // instantiate the abstract proxy for Jaba objects
521 jobArgset = jabajobArgset == null ? null : JabaParamStore
522 .getJwsArgsfromJaba(jabajobArgset);
523 p = jabap; // (jabap != null) ? paramStore.getPreset(jabap.getName()) :
527 Hashtable exnames = new Hashtable();
528 for (int i = 0, iSize = setName.getItemCount(); i < iSize; i++)
530 exnames.put((String) setName.getItemAt(i), setName.getItemAt(i));
532 servicePresets = new Hashtable();
533 // Add the default entry - if not present already.
534 if (!exnames.contains(SVC_DEF))
536 setName.addItem(SVC_DEF);
537 exnames.put(SVC_DEF, SVC_DEF);
538 servicePresets.put(SVC_DEF, SVC_DEF);
540 String curname = (p == null ? "" : p.getName());
541 for (WsParamSetI pr : paramStore.getPresets())
543 if (!pr.isModifiable())
545 servicePresets.put(pr.getName(), "preset");
550 if (!exnames.contains(pr.getName()))
552 setName.addItem(pr.getName());
555 // TODO: if initial jobArgset matches a given user setting or preset then
556 // should recover setting accordingly
557 // updateTable(p, jobArgset);
560 reInitDialog(p.getName());
561 initArgSetModified();
565 if (jobArgset != null && jobArgset.size() > 0)
567 curSetName = "Supplied Settings";
568 isUserPreset = false;
569 updateTable(p, jobArgset);
570 setName.setSelectedItem(curSetName);
571 updateButtonDisplay();
579 settingDialog = false;
583 @SuppressWarnings("unchecked")
584 private void updateTable(WsParamSetI p, List<ArgumentI> jobArgset)
586 boolean setDefaultParams = false;
587 if (lastParmSet == null)
589 isUserPreset = false;
590 // First call - so provide Service default settings
591 setName.setSelectedItem(lastSetName = SVC_DEF);
593 if (p == null && SVC_DEF.equals("" + setName.getSelectedItem()))
595 // indicate that service defaults should be set if available
596 setDefaultParams = true;
598 // populate table from default parameter set.
599 List<ArgumentI> args = paramStore.getServiceParameters();
601 // split to params and required arguments
604 boolean optset = false;
605 for (ArgumentI myarg : args)
607 // Ideally, Argument would implement isRequired !
608 if (myarg instanceof ParameterI)
610 ParameterI parm = (ParameterI) myarg;
611 opanp.addParameter(parm).validate();
615 if (myarg instanceof OptionI)
617 OptionI opt = (OptionI) myarg;
618 OptionBox ob = opanp.addOption(opt);
619 ob.resetToDefault(setDefaultParams);
620 if (MAX_OPTWIDTH < ob.getPreferredSize().width)
622 MAX_OPTWIDTH = ob.getPreferredSize().width;
625 cw += ob.getPreferredSize().width + 5;
629 System.err.println("Ignoring unknown service argument type "
630 + myarg.getClass().getName());
634 args = null; // no more args to process.
638 isUserPreset = false;
639 // initialise setname
640 setName.setSelectedItem(lastSetName = p.getName());
641 setDescr.setText(lastDescrText = p.getDescription());
645 args = p.getArguments();
646 } catch (Exception e)
650 // TODO: check if args should be unselected prior to resetting using the
654 if (jobArgset != null)
656 argSetModified(jobArgset, true);
659 // get setargs from current object
662 for (ArgumentI arg : args)
664 if (arg instanceof ParameterI)
666 opanp.setParameter((ParameterI) arg);
670 if (arg instanceof OptionI)
672 // System.out.println("Setting option "
673 // + System.identityHashCode(arg) + ":" + arg.getName()
674 // + " with " + arg.getDefaultValue());
675 opanp.selectOption((OptionI) arg, arg.getValue());
682 refreshParamLayout();
686 private boolean isModified()
688 return modifiedElements.size() > 0;
691 private Hashtable modifiedElements = new Hashtable();
694 * reset gui and modification state settings
696 private void initArgSetModified()
699 modifiedElements.clear();
700 updateButtonDisplay();
703 private void updateButtonDisplay()
705 boolean _update = false, _create = false, _delete = false, _revert = false;
706 if (modifiedElements.size() > 0)
710 _update = isUserPreset; // can only update user presets
711 if (!isUserPreset || modifiedElements.containsKey(setName))
713 // name modified - can create new preset
721 // can still delete a user preset
722 _delete = isUserPreset;
724 createpref.setVisible(_create);
725 updatepref.setVisible(_update);
726 deletepref.setVisible(_delete);
727 revertpref.setVisible(_revert);
731 public void argSetModified(Object modifiedElement, boolean b)
739 modifiedElements.remove(modifiedElement);
743 if (b && modifiedElement == setName
744 && modifiedElements.contains(modifiedElement))
746 // HACK! prevents iteration on makeSetNameValid
749 modifiedElements.put(modifiedElement, modifiedElement);
751 // set mod status based on presence of elements in table
752 if (b && modifiedElements.size() > 0)
754 makeSetNameValid(!isUserPreset);
755 SetNamePanel.revalidate();
757 updateButtonDisplay();
760 private boolean isServicePreset(String selectedItem)
762 return selectedItem.equals(SVC_DEF)
763 || servicePresets.containsKey(selectedItem);
767 * check if the current set name is a valid set name for saving, if not, then
770 private void makeSetNameValid(boolean newuserset)
772 boolean stn = settingDialog;
773 boolean renamed = false;
774 settingDialog = true;
775 String nm = (curSetName != null ? curSetName : (String) setName
777 // check if the name is reserved - if it is, rename it.
778 if (isServicePreset(nm))
787 while (paramStore.getPreset(tnm) != null)
789 tnm = nm + " (" + (++i) + ")";
798 boolean makeupdate = false;
799 // sync the gui with the preset database
800 for (int i = 0, iS = setName.getItemCount(); i < iS; i++)
802 String snm = (String) setName.getItemAt(i);
806 // setName.setSelectedIndex(i);
811 setName.addItem(curSetName = nm);
812 setName.setSelectedItem(curSetName);
816 settingDialog = false; // we need this name change to be registered.
817 argSetModified(setName, renamed);
822 public void refreshParamLayout()
824 // optsAndparams.setPreferredSize(null);
825 FlowLayout fl = new FlowLayout(FlowLayout.LEFT);
826 int sep = fl.getVgap();
828 int os = 0, s = jobOptions.getBorder().getBorderInsets(jobOptions).bottom
829 + jobOptions.getBorder().getBorderInsets(jobOptions).top
833 * final height for viewport
836 int panewidth = paramPane.getViewport().getSize().width - 120
837 - jobOptions.getBorder().getBorderInsets(jobOptions).left
838 + jobOptions.getBorder().getBorderInsets(jobOptions).right;
842 + (MAX_OPTWIDTH > OptsAndParamsPage.PARAM_WIDTH ? MAX_OPTWIDTH
843 : OptsAndParamsPage.PARAM_WIDTH);
844 int hgap = fl.getHgap(), cw = hgap;
846 if (opanp.getOptSet().size() > 0)
849 jobOptions.setLayout(new MigLayout("", "", ""));
850 jobOptions.removeAll();
852 for (OptionBox pbox : opanp.getOptSet().values())
855 cw += pbox.getSize().width + hgap;
856 if (cw + 120 > panewidth)
858 jobOptions.add(pbox, "wrap");
859 // System.out.println("Wrap on "+pbox.option.getName());
860 cw = hgap + pbox.getSize().width;
865 jobOptions.add(pbox);
869 finalh += pbox.getSize().height + fl.getVgap();
873 jobOptions.revalidate();
877 jobOptions.setVisible(false);
880 // Now layout the parameters assuming they occupy one column - to calculate
881 // total height of options+parameters
882 fl = new FlowLayout(FlowLayout.LEFT);
884 // http://stackoverflow.com/questions/2743177/top-alignment-for-flowlayout
885 fl.setAlignOnBaseline(true);
886 if (opanp.getParamSet().size() > 0)
888 paramList.removeAll();
889 paramList.setLayout(new MigLayout("", "", ""));
891 for (ParamBox pbox : opanp.getParamSet().values())
894 cw += pbox.getSize().width + hgap;
895 if (cw + 160 > panewidth)
897 paramList.add(pbox, "wrap");
898 cw = pbox.getSize().width + hgap;
907 finalh += pbox.getSize().height + fl.getVgap();
913 * s = 2 * sep; for (ParamBox pbox : opanp.getParamSet().values()) {
914 * pbox.validate(); s += sep +
915 * pbox.getPreferredSize().height+pbox.getBorder
916 * ().getBorderInsets(pbox).bottom; }
918 * // paramList.setPreferredSize(new Dimension(w, s));
919 * os+=s+2*sep+paramList
920 * .getBorder().getBorderInsets(paramList).bottom+paramList
921 * .getBorder().getBorderInsets(paramList).top;
923 paramList.revalidate();
927 paramList.setVisible(false);
929 // TODO: waste some time trying to eliminate any unnecessary .validate calls
931 // System.out.println("Size will be : "+w+","+os);
932 // optsAndparams.setPreferredSize(null);
933 // paramPane.getViewport().setView(optsAndparams);
934 paramPane.getViewport().setAutoscrolls(true);
935 paramPane.revalidate();
940 * testing method - grab a service and parameter set and show the window
944 public static void main(String[] args)
946 jalview.ws.jws2.Jws2Discoverer disc = jalview.ws.jws2.Jws2Discoverer
951 Vector<String> services = new Vector<String>();
952 services.addElement(args[p++]);
953 Jws2Discoverer.setServiceUrls(services);
958 } catch (Exception e)
960 System.err.println("Aborting. Problem discovering services.");
964 Jws2Instance lastserv = null;
965 for (Jws2Instance service : disc.getServices())
968 if (p >= args.length || service.serviceType.equalsIgnoreCase(args[p]))
970 if (lastserv != null)
972 List<Preset> prl = null;
974 if (++p < args.length)
976 PresetManager prman = lastserv.getPresets();
979 pr = prman.getPresetByName(args[p]);
982 // just grab the last preset.
983 prl = prman.getPresets();
989 PresetManager prman = lastserv.getPresets();
992 prl = prman.getPresets();
995 Iterator<Preset> en = (prl == null) ? null : prl.iterator();
996 while (en != null && en.hasNext())
1002 en = prl.iterator();
1007 System.out.println("Testing opts dupes for "
1008 + lastserv.getUri() + " : "
1009 + lastserv.getActionText() + ":" + pr.getName());
1010 List<Option> rg = lastserv.getRunnerConfig().getOptions();
1015 Option cpy = jalview.ws.jws2.ParameterUtils.copyOption(o);
1016 } catch (Exception e)
1018 System.err.println("Failed to copy " + o.getName());
1019 e.printStackTrace();
1022 System.err.println("Failed to copy " + o.getName());
1023 e.printStackTrace();
1028 System.out.println("Testing param dupes:");
1029 List<Parameter> rg = lastserv.getRunnerConfig()
1031 for (Parameter o : rg)
1035 Parameter cpy = jalview.ws.jws2.ParameterUtils
1037 } catch (Exception e)
1039 System.err.println("Failed to copy " + o.getName());
1040 e.printStackTrace();
1043 System.err.println("Failed to copy " + o.getName());
1044 e.printStackTrace();
1049 System.out.println("Testing param write:");
1050 List<String> writeparam = null, readparam = null;
1053 writeparam = jalview.ws.jws2.ParameterUtils
1055 pr.getArguments(lastserv.getRunnerConfig()),
1057 System.out.println("Testing param read :");
1058 List<Option> pset = jalview.ws.jws2.ParameterUtils
1059 .processParameters(writeparam,
1060 lastserv.getRunnerConfig(), " ");
1061 readparam = jalview.ws.jws2.ParameterUtils
1062 .writeParameterSet(pset, " ");
1063 Iterator<String> o = pr.getOptions().iterator(), s = writeparam
1064 .iterator(), t = readparam.iterator();
1065 boolean failed = false;
1066 while (s.hasNext() && t.hasNext())
1068 String on = o.next(), sn = s.next(), st = t.next();
1071 System.out.println("Original was " + on
1072 + " Phase 1 wrote " + sn + "\tPhase 2 wrote "
1079 System.out.println("Original parameters:\n"
1081 System.out.println("Wrote parameters in first set:\n"
1083 System.out.println("Wrote parameters in second set:\n"
1087 } catch (Exception e)
1089 e.printStackTrace();
1092 WsJobParameters pgui = new WsJobParameters(lastserv,
1093 new JabaPreset(lastserv, pr));
1094 JFrame jf = new JFrame(MessageManager.formatMessage("label.ws_parameters_for", new String[]{lastserv.getActionText()}));
1095 JPanel cont = new JPanel(new BorderLayout());
1097 cont.setPreferredSize(pgui.getPreferredSize());
1098 cont.add(pgui, BorderLayout.CENTER);
1099 jf.setLayout(new BorderLayout());
1100 jf.add(cont, BorderLayout.CENTER);
1102 final Thread thr = Thread.currentThread();
1103 jf.addWindowListener(new WindowListener()
1106 public void windowActivated(WindowEvent e)
1108 // TODO Auto-generated method stub
1112 public void windowClosed(WindowEvent e)
1116 public void windowClosing(WindowEvent e)
1122 public void windowDeactivated(WindowEvent e)
1124 // TODO Auto-generated method stub
1128 public void windowDeiconified(WindowEvent e)
1130 // TODO Auto-generated method stub
1134 public void windowIconified(WindowEvent e)
1136 // TODO Auto-generated method stub
1140 public void windowOpened(WindowEvent e)
1142 // TODO Auto-generated method stub
1147 jf.setVisible(true);
1148 boolean inter = false;
1153 Thread.sleep(10000);
1154 } catch (Exception e)
1167 public boolean isServiceDefaults()
1169 return (!isModified() && (lastParmSet != null && lastParmSet
1173 public List<ArgumentI> getJobParams()
1175 return opanp.getCurrentSettings();
1178 String lastParmSet = null;
1181 * Hashtable<String, Object[]> editedParams = new Hashtable<String,
1184 * store the given parameters in the user parameter set database.
1186 * @param storeSetName - lastParmSet
1188 * @param descr - setDescr.getText()
1190 * @param jobParams - getJobParams()
1192 * private void _storeUserPreset(String storeSetName, String descr,
1193 * List<ArgumentI> jobParams) { // this is a simple hash store. Object[] pset;
1194 * editedParams.put(storeSetName, pset = new Object[3]); pset[0] =
1195 * storeSetName; pset[1] = descr; pset[2] = jobParams; // writeParam("Saving "
1196 * + storeSetName + ": ", jobParams); }
1198 * private void writeParam(String nm, List<ArgumentI> params) { for (ArgumentI
1199 * p : params) { System.out.println(nm + ":" + System.identityHashCode(p) +
1200 * " Name: " + p.getName() + " Value: " + p.getDefaultValue()); } }
1202 * private Object[] _getUserPreset(String setName) { Object[] pset =
1203 * editedParams.get(setName); // if (pset != null) // writeParam("Retrieving "
1204 * + setName + ": ", (List<Argument>) pset[2]); return pset; }
1206 * * remove the given user preset from the preset stash
1210 * private void _deleteUserPreset(String setName) {
1211 * editedParams.remove(setName); }
1214 private void syncSetNamesWithStore()
1217 // remove any set names in the drop down menu that aren't either a reserved
1218 // setting, or a user defined or service preset.
1219 Vector items = new Vector();
1220 while (n < setName.getItemCount())
1222 String item = (String) setName.getItemAt(n);
1223 if (!item.equals(SVC_DEF) && !paramStore.presetExists(item))
1225 setName.removeItemAt(n);
1229 items.addElement(item);
1233 if (!items.contains(SVC_DEF))
1235 setName.addItem(SVC_DEF);
1237 for (WsParamSetI upn : paramStore.getPresets())
1239 if (!items.contains(upn.getName()))
1241 setName.addItem(upn.getName());
1247 * true if lastParmSet is a user preset
1249 boolean isUserPreset = false;
1251 private void reInitDialog(String nextPreset)
1253 settingDialog = true;
1254 // updateTable(null,null); // first reset to defaults
1255 WsParamSetI pset = null;
1256 if (nextPreset != null && nextPreset.length() > 0)
1258 pset = paramStore.getPreset(nextPreset);
1262 if (pset.isModifiable())
1264 isUserPreset = true;
1265 setDescr.setText(pset.getDescription());
1266 updateTable(null, pset.getArguments());
1267 lastParmSet = nextPreset;
1271 isUserPreset = false;
1272 setDescr.setText("");
1273 // must be a default preset from service
1274 updateTable(pset, null);
1275 lastParmSet = nextPreset;
1280 isUserPreset = false;
1282 setDescr.setText("");
1283 updateTable(null, null);
1284 lastParmSet = SVC_DEF;
1287 initArgSetModified();
1288 syncSetNamesWithStore();
1289 setName.setSelectedItem(lastParmSet);
1290 SetNamePanel.validate();
1292 settingDialog = false;
1296 String curSetName = null;
1298 public void itemStateChanged(ItemEvent e)
1300 if (e.getSource() == setName && e.getStateChange() == e.SELECTED)
1302 final String setname = (String) setName.getSelectedItem();
1303 System.out.println("Item state changed for " + setname
1304 + " (handling ? " + !settingDialog + ")");
1310 if (setname == null)
1314 javax.swing.SwingUtilities.invokeLater(new Runnable()
1318 doPreferenceComboStateChange(setname);
1324 private void doPreferenceComboStateChange(String setname)
1326 // user has selected a different item from combo-box
1329 String lsetname = (curSetName != null) ? curSetName : lastParmSet;
1330 if (lsetname.equals(setname))
1332 // setname was just edited - so ignore this event.
1335 settingDialog = true;
1336 System.out.println("Prompting to save " + lsetname);
1337 if (javax.swing.JOptionPane
1342 + "' is modifed, and your changes will be lost.\nReally change preset ?",
1343 "Warning: Unsaved Changes",
1344 javax.swing.JOptionPane.OK_CANCEL_OPTION) != JOptionPane.OK_OPTION)
1346 // revert the combobox to the current item
1347 settingDialog = true;
1348 setName.setSelectedItem(lsetname);
1349 settingDialog = false;
1352 // System.out.println("Saving for " + lsetname);
1353 // _storeCurrentPreset(lsetname);
1357 settingDialog = true;
1358 reInitDialog(setname);
1359 settingDialog = false;
1363 private void _renameExistingPreset(String oldName, String curSetName2)
1365 paramStore.updatePreset(oldName, curSetName2, setDescr.getText(),
1370 * store current settings as given name. You should then reset gui.
1372 * @param curSetName2
1374 private void _storeCurrentPreset(String curSetName2)
1376 paramStore.storePreset(curSetName2, setDescr.getText(), getJobParams());
1379 private void _updatePreset(String lastParmSet2, String curname)
1381 paramStore.updatePreset(lastParmSet2, curname, setDescr.getText(),
1387 * last saved name for this user preset
1389 String lastSetName = null;
1392 * last saved value of the description text for this user preset
1394 String lastDescrText = null;
1396 public void actionPerformed(ActionEvent e)
1398 if (e.getSource() instanceof Component)
1400 Component src = (Component) e.getSource();
1401 if (src.getParent() == setName)
1403 // rename any existing records we know about for this set.
1404 String newname = (String) e.getActionCommand().trim();
1406 if (isServicePreset(newname))
1408 final String oldname = curSetName != null ? curSetName
1410 final Component ourframe = this;
1411 settingDialog = true;
1412 setName.getEditor().setItem(oldname);
1413 settingDialog = false;
1414 javax.swing.SwingUtilities.invokeLater(new Runnable()
1418 JOptionPane.showMessageDialog(ourframe,
1419 MessageManager.getString("label.invalid_name_preset_exists"),
1420 MessageManager.getString("label.invalid_name"), JOptionPane.WARNING_MESSAGE);
1426 curSetName = newname;
1427 System.err.println("New name for user setting " + curSetName
1428 + " (was " + setName.getSelectedItem() + ")");
1429 if (curSetName.equals(setName.getSelectedItem()))
1433 if (curSetName != null)
1435 argSetModified(setName, true);
1443 private void checkDescrModified()
1450 (lastDescrText == null ? setDescr.getText().trim().length() > 0
1451 : !setDescr.getText().equals(lastDescrText)));
1456 public void insertUpdate(DocumentEvent e)
1458 checkDescrModified();
1461 public void removeUpdate(DocumentEvent e)
1463 checkDescrModified();
1466 public void changedUpdate(DocumentEvent e)
1468 checkDescrModified();
1473 * @return null or the service preset selected by the user
1475 public WsParamSetI getPreset()
1477 if (isUserPreset || isModified()
1478 || (lastParmSet != null && lastParmSet.equals(SVC_DEF)))
1484 return paramStore.getPreset(lastParmSet);