source: trunk/www/admin/reporterclonetemplates/index.jsp @ 5885

Last change on this file since 5885 was 5885, checked in by Nicklas Nordborg, 10 years ago

References #1616: Clone reporter information to per-experiment tables in the dynamic database

Updated Experiment explorer to use cloned information when possible. Renamed ClonedProperty to ClonableProperty.

  • Property svn:eol-style set to native
  • Property svn:keywords set to Date Id
File size: 13.4 KB
Line 
1<%-- $Id $
2  ------------------------------------------------------------------
3  Copyright (C) 2011 Nicklas Nordborg
4
5  This file is part of BASE - BioArray Software Environment.
6  Available at http://base.thep.lu.se/
7
8  BASE is free software; you can redistribute it and/or
9  modify it under the terms of the GNU General Public License
10  as published by the Free Software Foundation; either version 3
11  of the License, or (at your option) any later version.
12
13  BASE is distributed in the hope that it will be useful,
14  but WITHOUT ANY WARRANTY; without even the implied warranty of
15  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
16  GNU General Public License for more details.
17
18  You should have received a copy of the GNU General Public License
19  along with BASE. If not, see <http://www.gnu.org/licenses/>.
20  ------------------------------------------------------------------
21
22--%>
23<%@ page pageEncoding="UTF-8" session="false"
24  import="net.sf.basedb.core.SessionControl"
25  import="net.sf.basedb.core.DbControl"
26  import="net.sf.basedb.core.Item"
27  import="net.sf.basedb.core.Include"
28  import="net.sf.basedb.core.ReporterCloneTemplate"
29  import="net.sf.basedb.core.ClonableProperty"
30  import="net.sf.basedb.core.ItemQuery"
31  import="net.sf.basedb.core.Permission"
32  import="net.sf.basedb.core.ItemContext"
33  import="net.sf.basedb.core.MultiPermissions"
34  import="net.sf.basedb.core.OwnedItem"
35  import="net.sf.basedb.core.PermissionDeniedException"
36  import="net.sf.basedb.core.ItemAlreadyExistsException"
37  import="net.sf.basedb.util.RemovableUtil"
38  import="net.sf.basedb.util.ShareableUtil"
39  import="net.sf.basedb.util.OwnableUtil"
40  import="net.sf.basedb.clients.web.Base"
41  import="net.sf.basedb.clients.web.WebException"
42  import="net.sf.basedb.util.Values"
43  import="net.sf.basedb.clients.web.util.HTML"
44  import="net.sf.basedb.core.plugin.GuiContext"
45  import="net.sf.basedb.util.extensions.ExtensionsInvoker"
46  import="net.sf.basedb.clients.web.extensions.ExtensionsControl"
47  import="net.sf.basedb.clients.web.extensions.JspContext"
48  import="net.sf.basedb.clients.web.extensions.edit.EditUtil"
49  import="net.sf.basedb.clients.web.extensions.edit.OnSaveRenderer"
50  import="java.util.Enumeration"
51  import="java.util.Set"
52  import="java.util.HashSet"
53  import="java.util.List"
54  import="java.util.ArrayList"
55  import="java.util.Collections"
56%>
57<%@ taglib prefix="base" uri="/WEB-INF/base.tld" %>
58<%!
59  private static final ItemContext defaultContext = Base.createDefaultContext("name", "name,properties,description");
60  private static final Item itemType = Item.REPORTERCLONETEMPLATE;
61%>
62<%
63final SessionControl sc = Base.getExistingSessionControl(pageContext, true);
64final String ID = sc.getId();
65final String cmd = request.getParameter("cmd");
66final String root = request.getContextPath()+"/";
67final String mode = request.getParameter("mode");
68final String callback = request.getParameter("callback");
69final String itemId = request.getParameter("item_id");
70final String listPage = "list_templates.jsp?ID="+ID
71  +(mode == null ? "" : "&mode="+mode)
72  +(callback == null ? "" : "&callback="+callback)
73  +(itemId == null ? "" : "&item_id="+itemId);
74final String viewPage = "view_template.jsp?ID="+ID;
75final String editPage = "edit_template.jsp?ID="+ID;
76
77String forward = null;
78String redirect = null;
79String message = null;
80DbControl dc = null;
81
82try
83{
84  if (cmd == null || "List".equals(cmd))
85  {
86    // Display the list page without updatinging the current context
87    Base.getAndSetCurrentContext(sc, itemType, null, defaultContext, true);
88    redirect = listPage;
89  }
90  else if ("UpdateContext".equals(cmd))
91  {
92    // Display the list page after updating the current context from the request parameters
93    Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
94    redirect = listPage;
95  }
96  else if ("LoadContext".equals(cmd))
97  {
98    // Display the list page after loading a saved context
99    int contextId = Values.getInt(request.getParameter("context"));
100    Base.loadContext(sc, contextId, defaultContext);
101    redirect = listPage;
102  }
103
104  else if ("ViewItem".equals(cmd))
105  {
106    // Display the view page for a single item
107    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
108    forward = viewPage;
109  }
110  else if ("EditItem".equals(cmd))
111  {
112    // Display the edit page for a single item (should be opened in a popup)
113    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
114    redirect = editPage;
115  }
116  else if ("NewItem".equals(cmd))
117  {
118    // Display the edit page for a new item (should be opened in a popup)
119    if (!sc.hasPermission(Permission.CREATE, itemType))
120    {
121      throw new PermissionDeniedException(Permission.CREATE, itemType.toString());
122    }
123    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
124    cc.setId(0);
125    forward = editPage;
126  }
127  else if ("UpdateItem".equals(cmd))
128  {
129    // Update the properties on an item (will close the popup)
130    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, null, defaultContext);
131    final int maxRecent = Base.getMaxRecent(sc);
132    dc = sc.newDbControl();
133    ReporterCloneTemplate template = (ReporterCloneTemplate)cc.getObject("item");
134    if (template == null)
135    {
136      template = ReporterCloneTemplate.getNew(dc);
137      message = "Reporter clone template created";
138      dc.saveItem(template);
139    }
140    else
141    {
142      dc.reattachItem(template, false);
143      message = "Reporter clone template updated";
144    }
145    JspContext jspContext = ExtensionsControl.createContext(dc, pageContext, GuiContext.item(itemType), template);
146    ExtensionsInvoker invoker = EditUtil.useOnSaveExtensions(jspContext);
147    try
148    {
149      template.setName(Values.getStringOrNull(request.getParameter("name")));
150      template.setDescription(Values.getStringOrNull(request.getParameter("description")));
151      //template.setExternalId(Values.getStringOrNull(request.getParameter("external_id")));
152 
153      // Template properties
154      String[] cloned = request.getParameterValues("cloned_properties");
155      if (cloned != null)
156      {
157        for (String propertyName : cloned)
158        {
159          if (!template.hasClonableProperty(propertyName)) 
160          {
161            template.addClonableProperty(ClonableProperty.create(propertyName));
162          }
163        }
164      }
165     
166      String[] uncloned = request.getParameterValues("uncloned_properties");
167      if (uncloned != null)
168      {
169        for (String propertyName : uncloned)
170        {
171          if (template.hasClonableProperty(propertyName)) 
172          {
173            template.removeClonableProperty(propertyName);
174          }
175        }
176      }
177     
178      // OnSave extensions
179      invoker.render(OnSaveRenderer.ON_SAVE);
180      dc.commit();
181      invoker.render(OnSaveRenderer.ON_COMMIT);
182    }
183    catch (Exception ex)
184    {
185      invoker.render(OnSaveRenderer.onRollback(ex));
186      throw ex;
187    }
188    finally
189    {
190      cc.removeObject("item");
191    }
192
193  }
194  else if ("DeleteItem".equals(cmd))
195  {
196    // Delete a single item and then return to the view page
197    dc = sc.newDbControl();
198    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
199    RemovableUtil.setRemoved(dc, itemType, Collections.singleton(cc.getId()), true);
200    dc.commit();
201    redirect = viewPage;
202  }
203  else if ("DeleteItems".equals(cmd))
204  {
205    // Delete all selected items on the list page
206    dc = sc.newDbControl();
207    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
208    int numTotal = cc.getSelected().size();
209    int numRemoved = RemovableUtil.setRemoved(dc, itemType, cc.getSelected(), true);
210    dc.commit();
211    if (numTotal != numRemoved)
212    {
213      message = (numRemoved == 0 ? "No" : "Only "+numRemoved+" of "+numTotal) + " items could be deleted, because you have no DELETE permission";
214    }
215    redirect = listPage+(message != null ? "&popmessage="+HTML.urlEncode(message) : "");
216  }
217  else if ("RestoreItem".equals(cmd))
218  {
219    // Restore a single item and then return to the view page
220    dc = sc.newDbControl();
221    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
222    RemovableUtil.setRemoved(dc, itemType, Collections.singleton(cc.getId()), false);
223    dc.commit();
224    redirect = viewPage;
225  }
226  else if ("RestoreItems".equals(cmd))
227  {
228    // Restore all selected items on the list page
229    dc = sc.newDbControl();
230    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
231    int numTotal = cc.getSelected().size();
232    int numRemoved = RemovableUtil.setRemoved(dc, itemType, cc.getSelected(), false);
233    dc.commit();
234    if (numTotal != numRemoved)
235    {
236      message = (numRemoved == 0 ? "No" : "Only "+numRemoved+" of "+numTotal) + " items could be restored, because you have no WRITE permission";
237    }
238    redirect = listPage+(message != null ? "&popmessage="+HTML.urlEncode(message) : "");
239  }
240  else if ("ShareItem".equals(cmd))
241  {
242    // Display a popup window for sharing a single item
243    dc = sc.newDbControl();
244    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
245    MultiPermissions permissions = ShareableUtil.getMultiPermissions(dc, itemType, Collections.singleton(cc.getId()));
246    dc.close();
247    cc.setObject("MultiPermissions", permissions);
248    redirect = "../../common/share/share.jsp?ID="+ID+"&item_type="+itemType.name();
249  }
250  else if ("ShareItems".equals(cmd))
251  {
252    // Display a popup window for sharing all selected items on the list page
253    dc = sc.newDbControl();
254    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
255    MultiPermissions permissions = ShareableUtil.getMultiPermissions(dc, itemType, cc.getSelected());
256    dc.close();
257    cc.setObject("MultiPermissions", permissions);
258    redirect = "../../common/share/share.jsp?ID="+ID+"&item_type="+itemType.name();
259  }
260  else if ("SetOwnerOfItem".equals(cmd))
261  {
262    // Change owner of items selected on a list page
263    dc = sc.newDbControl();
264    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
265    OwnedItem item = (OwnedItem)itemType.getById(dc, cc.getId());
266    cc.setObject("OwnedItems", Collections.singleton(item));
267    redirect = "../../common/ownership/ownership.jsp?ID="+ID+"&item_type="+itemType.name();
268  }
269  else if ("SetOwnerOfItems".equals(cmd))
270  {
271    // Change owner of items selected on a list page
272    dc = sc.newDbControl();
273    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
274    Set<OwnedItem> items = new HashSet<OwnedItem>();
275    for (Integer id : cc.getSelected())
276    {
277      if (id != null) items.add((OwnedItem)itemType.getById(dc, id));
278    }
279    dc.close();
280    cc.setObject("OwnedItems", items);
281    redirect = "../../common/ownership/ownership.jsp?ID="+ID+"&item_type="+itemType.name();
282  }
283  else if ("ExportItems".equals(cmd))
284  {
285    // Run an export plugin in a list context
286    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
287    final ItemQuery<ReporterCloneTemplate> query = ReporterCloneTemplate.getQuery();
288    dc = sc.newDbControl();
289    cc.configureQuery(dc, query, true);
290    dc.close();
291    cc.setQuery(query);
292    redirect = "../../common/export/index.jsp?ID="+ID+"&cmd=SelectPlugin&item_type="+itemType.name()+"&context_type=LIST&title=Export+reporter+clone+templates";
293  }
294  else if ("ExportItem".equals(cmd))
295  {
296    // Run an export plugin in single-item context
297    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
298    redirect = "../../common/export/index.jsp?ID="+ID+"&cmd=SelectPlugin&item_type="+itemType.name()+"&context_type=ITEM&title=Export+reporter+clone+template";
299  }
300  else if ("ImportItems".equals(cmd))
301  {
302    // Run an import plugin in a list context
303    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
304    final ItemQuery<ReporterCloneTemplate> query = ReporterCloneTemplate.getQuery();
305    dc = sc.newDbControl();
306    cc.configureQuery(dc, query, true);
307    dc.close();
308    cc.setQuery(query);
309    redirect = "../../common/import/index.jsp?ID="+ID+"&cmd=SelectPlugin&item_type="+itemType.name()+"&context_type=LIST&title=Import+reporter+clone+template";
310  }
311  else if ("ImportItem".equals(cmd))
312  {
313    // Run an import plugin in single-item context
314    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
315    redirect = "../../common/import/index.jsp?ID="+ID+"&cmd=SelectPlugin&item_type="+itemType.name()+"&context_type=ITEM&title=Import+reporter+clone+template";
316  }
317  else if ("RunListPlugin".equals(cmd))
318  {
319    // Run another plugin in a list context
320    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
321    final ItemQuery<ReporterCloneTemplate> query = ReporterCloneTemplate.getQuery();
322    dc = sc.newDbControl();
323    cc.configureQuery(dc, query, true);
324    dc.close();
325    cc.setQuery(query);
326    redirect = "../../common/plugin/index.jsp?ID="+ID+"&cmd=SelectPlugin&item_type="+itemType.name()+"&context_type=LIST&main_type=OTHER&title=Run+plugin";
327  }
328  else if ("RunPlugin".equals(cmd))
329  {
330    // Run another plugin in single-item context
331    ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, pageContext, defaultContext);
332    redirect = "../../common/plugin/index.jsp?ID="+ID+"&cmd=SelectPlugin&item_type="+itemType.name()+"&context_type=ITEM&main_type=OTHER&title=Run+plugin";
333  }
334  else
335  {
336    throw new WebException("popup", "Invalid command", "The command {1} is not recognised as a valid command.", cmd);
337  }
338}
339finally
340{
341  if (dc != null) dc.close();
342}
343
344if (forward != null)
345{
346  pageContext.forward(forward);
347}
348else if (redirect != null)
349{
350  response.sendRedirect(redirect);
351}
352else if (message == null)
353{
354  response.sendRedirect(root + "common/close_popup.jsp?refresh_opener=1&wait=0");
355}
356else
357{
358  response.sendRedirect(root + "common/close_popup.jsp?refresh_opener=1&message="+HTML.urlEncode(message));
359}
360%>
361
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