source: trunk/www/lims/arraydesigns/edit_design.jsp @ 5687

<%-- $Id: edit_design.jsp 5687 2011-08-09 11:39:40Z nicklas $
  ------------------------------------------------------------------
  Copyright (C) 2006 Jari Häkkinen, Nicklas Nordborg, Martin Svensson

  This file is part of BASE - BioArray Software Environment.
  Available at http://base.thep.lu.se/

  BASE 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.

  BASE 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 BASE. If not, see <http://www.gnu.org/licenses/>.
  ------------------------------------------------------------------

  @author Nicklas
  @version 2.0
--%>
<%@ page pageEncoding="UTF-8" session="false"
  import="net.sf.basedb.core.SessionControl"
  import="net.sf.basedb.core.DbControl"
  import="net.sf.basedb.core.Item"
  import="net.sf.basedb.core.ItemContext"
  import="net.sf.basedb.core.SystemItems"
  import="net.sf.basedb.core.Permission"
  import="net.sf.basedb.core.Include"
  import="net.sf.basedb.core.ArrayDesign"
  import="net.sf.basedb.core.File"
  import="net.sf.basedb.core.Project"
  import="net.sf.basedb.core.Platform"
  import="net.sf.basedb.core.PlatformVariant"
  import="net.sf.basedb.core.RawDataType"
  import="net.sf.basedb.core.ItemQuery"
  import="net.sf.basedb.core.ItemResultList"
  import="net.sf.basedb.core.PermissionDeniedException"
  import="net.sf.basedb.core.BaseException"
  import="net.sf.basedb.core.query.Orders"
  import="net.sf.basedb.core.query.Hql"
  import="net.sf.basedb.clients.web.Base"
  import="net.sf.basedb.clients.web.util.HTML"
  import="net.sf.basedb.util.Values"
  import="net.sf.basedb.core.plugin.GuiContext"
  import="net.sf.basedb.clients.web.extensions.ExtensionsControl"
  import="net.sf.basedb.clients.web.extensions.JspContext"
  import="net.sf.basedb.clients.web.extensions.edit.EditUtil"
  import="net.sf.basedb.util.extensions.ExtensionsInvoker"
  import="java.util.List"
  import="java.util.Set"
  import="java.util.HashSet"
  import="java.util.Date"
%>
<%@ taglib prefix="base" uri="/WEB-INF/base.tld" %>
<%@ taglib prefix="t" uri="/WEB-INF/tab.tld" %>
<%
final Item itemType = Item.ARRAYDESIGN;
final SessionControl sc = Base.getExistingSessionControl(pageContext, true);
final ItemContext cc = Base.getAndSetCurrentContext(sc, itemType, null, null);
final String tabId = Values.getString(request.getParameter("tab"), null);
final int itemId = cc.getId();
final String ID = sc.getId();
final float scale = Base.getScale(sc);
final DbControl dc = sc.newDbControl();
try
{
  String title = null;
  ArrayDesign design = null;
  
  boolean deniedPlatform = false;
  Platform currentPlatform = null;
  PlatformVariant currentVariant = null;
  List<Platform> defaultPlatforms = null;
  List<PlatformVariant> defaultVariants = null;
  
  int activeProjectId = sc.getActiveProjectId();
  if (activeProjectId > 0)
  {
    Project activeProject = Project.getById(dc, activeProjectId);
    try
    {
      defaultPlatforms = (List<Platform>)activeProject.findDefaultItems(dc, Item.PLATFORM, true);
    }
    catch (PermissionDeniedException pdex)
    {}
    try
    {
      defaultVariants = (List<PlatformVariant>)activeProject.findDefaultItems(dc, Item.PLATFORMVARIANT, true);
    }
    catch (PermissionDeniedException pdex)
    {}

  }
  if (itemId == 0)
  {
    title = "Create array design";
    cc.removeObject("item");
    int currentPlatformId = Values.getInt(cc.getRecent(Item.PLATFORM.name(), 0), 0);
    int currentVariantId = Values.getInt(cc.getRecent(Item.PLATFORMVARIANT.name(), 0), 0);
    try
    {
      if (currentPlatformId != 0) currentPlatform = Platform.getById(dc, currentPlatformId);
      if (currentVariantId != 0) currentVariant = PlatformVariant.getById(dc, currentVariantId);
    }
    catch (Throwable t)
    {}
    if (currentPlatform == null && defaultPlatforms.size() > 0)
    {
      currentPlatform = defaultPlatforms.get(0);
    }
    if (currentVariant == null && defaultVariants.size() > 0)
    {
      currentVariant = defaultVariants.get(0);
    }
  }
  else
  {
    design = ArrayDesign.getById(dc, itemId);
    cc.setObject("item", design);
    title = "Edit array design -- " + HTML.encodeTags(design.getName());
    
    try
    {
      currentPlatform = design.getPlatform();
      currentVariant = design.getVariant();
    }
    catch (PermissionDeniedException ex)
    {
      deniedPlatform = true;
    }
    design.checkPermission(Permission.WRITE);
  }

  ItemQuery<Platform> platformQuery = Platform.getQuery();
  platformQuery.include(Include.REMOVED, Include.NOT_REMOVED);
  platformQuery.order(Orders.asc(Hql.property("name")));
  platformQuery.setCacheResult(true);
  ItemResultList<Platform> platforms = platformQuery.list(dc);

  ItemQuery<PlatformVariant> variantQuery = PlatformVariant.getQuery();
  variantQuery.include(Include.REMOVED, Include.NOT_REMOVED);
  variantQuery.order(Orders.asc(Hql.property("name")));
  variantQuery.setCacheResult(true);
  ItemResultList<PlatformVariant> variants = variantQuery.list(dc);
  
  final String clazz = "class=\"text\"";
  final String requiredClazz = "class=\"text required\"";
  JspContext jspContext = ExtensionsControl.createContext(dc, pageContext, GuiContext.item(itemType), design);
  ExtensionsInvoker invoker = EditUtil.useEditExtensions(jspContext);
  %>
  <base:page type="popup" title="<%=title%>">
  <base:head scripts="tabcontrol.js,annotations.js,platforms.js" styles="tabcontrol.css">
    <ext:scripts context="<%=jspContext%>" />
    <ext:stylesheets context="<%=jspContext%>" />
    <script language="JavaScript">
    // Validate the "ArrayDesign" tab
    function validateArrayDesign()
    {
      var frm = document.forms['design'];
      if (Main.trimString(frm.name.value) == '')
      {
        alert("You must enter a name");
        frm.name.focus();
        return false;
      }
      else if (!Numbers.isInteger(frm.numArrays.value))
      {
        alert("'" + frm.numArrays.value + "' is not a valid number");
        frm.numArrays.focus();
        return false;
      }
      else if (parseInt(frm.numArrays.value) <= 0)
      {
        alert("Number of arrays must be > 0");
        frm.numArrays.focus();
        return false;
      }
      return true;
    }

    // Submit the form
    function saveSettings()
    {
      var frm = document.forms['design'];
      if (TabControl.validateActiveTab('settings'))
      {
        if (annotationsLoaded) 
        {
          Annotations.addModifiedAnnotationsToForm(frames.annotations, frm);
        }
        if (inheritedAnnotationsLoaded)
        {
          Annotations.addInheritedAnnotationsToForm(frames.inheritedAnnotations, frm);
        }
        if (dataFilesLoaded)
        {
          Platforms.addDataFilesToForm(frames.datafiles, frm);
        }
        frm.submit();
      }
    }
    
    var annotationsLoaded = false;
    var inheritedAnnotationsLoaded = false;
    var parentsChanged = false;
    var dataFilesLoaded = false;
    var platformChanged = false;
    function switchTab(tabControlId, tabId)
    {
      var frm = document.forms['design'];
      if (TabControl.setActiveTab(tabControlId, tabId))
      {
        if (tabId == 'annotations' && !annotationsLoaded)
        {
          Annotations.loadAnnotateFrame(frames.annotations, '<%=ID%>', '<%=itemType.name()%>', <%=design == null ? 0 : design.getId()%>);
          annotationsLoaded = true;
        }
        else if (tabId == 'inheritedAnnotations' && 
          (parentsChanged || !inheritedAnnotationsLoaded))
        {
          Annotations.loadInheritFrame(frames.inheritedAnnotations, '<%=ID%>', '<%=itemType.name()%>', <%=itemId%>, getParents());
          inheritedAnnotationsLoaded = true;
          parentsChanged = false;
        }
        else if (tabId == 'datafiles' && (platformChanged || !dataFilesLoaded))
        {
          var platform = Platforms.getSelectedPlatform(frm.platform);
          var variant = Platforms.getSelectedVariant(frm.platform);
          Platforms.loadDataFilesFrame(frames.datafiles, '<%=ID%>', '<%=itemType.name()%>', <%=design == null ? 0 : design.getId()%>, platform == null ? 0 : platform.id, variant == null ? 0 : variant.id);
          dataFilesLoaded = true;
          platformChanged = false;
        }
      }
    }
    
    function getParents()
    {
      return new Array();
    }
    
    function platformOnChange()
    {
      platformChanged = true;
    }

    function init()
    {
      var frm = document.forms['design'];
      <%
      if (design == null)
      {
        %>
        frm.name.focus();
        frm.name.select();
        <%
      }
      %>
      initPlatforms(<%=currentPlatform == null ? 0 : currentPlatform.getId()%>, <%=currentVariant == null ? 0 : currentVariant.getId()%>);
    }
    
    function initPlatforms(platformId, variantId)
    {
      <%
      for (Platform p : platforms)
      {
        if (!p.isRemoved() || p.equals(currentPlatform))
        {
          RawDataType rdt = p.isFileOnly() ? null : p.getRawDataType();
          %>
          var p<%=p.getId()%> = new Platform(<%=p.getId()%>, '<%=HTML.javaScriptEncode(p.getExternalId())%>', '<%=HTML.javaScriptEncode(p.getName())%>', <%=p.isFileOnly()%>, '<%=rdt == null ? "" : rdt.getId()%>');
          <%
        }
      }
      for (PlatformVariant v : variants)
      {
        Platform p = v.getPlatform();
        if ((!v.isRemoved() || v.equals(currentVariant)) && (!p.isRemoved() || p.equals(currentPlatform)))
        {
          RawDataType rdt = v.isFileOnly() ? null : v.getRawDataType();
          %>
          var v<%=v.getId()%> = new Variant(p<%=p.getId()%>, <%=v.getId()%>, '<%=HTML.javaScriptEncode(v.getExternalId())%>', '<%=HTML.javaScriptEncode(v.getName())%>', <%=v.isFileOnly()%>, '<%=rdt == null ? "" : rdt.getId()%>');
          <%
        }
      }
      %>
      var frm = document.forms['design'];
      Platforms.populateList(frm.platform, platformId, variantId);
    }
    </script>
  </base:head>
  <base:body onload="init()">
    <p>
    <form action="index.jsp?ID=<%=ID%>" method="post" name="design" onsubmit="return false;">
    <input type="hidden" name="cmd" value="UpdateItem">

    <h3 class="docked"><%=title%> <base:help tabcontrol="settings" /></h3>
    <t:tabcontrol id="settings" contentstyle="<%="height: "+(int)(scale*370)+"px;"%>" 
      position="bottom" active="<%=tabId%>" remember="<%=tabId == null && design != null%>" switch="switchTab"
      extensions="<%=invoker%>">
    <t:tab id="info" title="Array design" validate="validateArrayDesign()" helpid="arraydesign.edit">
      <table class="form" cellspacing=0>
      <tr>
        <td class="prompt">Name</td>
        <td><input <%=requiredClazz%> type="text" name="name" 
          value="<%=HTML.encodeTags(design == null ? Values.getString(cc.getPropertyValue("name"), "New array design") : design.getName())%>" 
          size="40" maxlength="<%=ArrayDesign.MAX_NAME_LENGTH%>"></td>
      </tr>
      <tr>
        <td class="prompt">Platform</td>
        <td>
          <select name="platform" onchange="platformOnChange()" class="required"
            <%=deniedPlatform ? "disabled" : "" %>>
          <%
          if (deniedPlatform)
          {
            %>
            <option value="-1">- denied -
            <%
          }
          %>
          </select>
        </td>
      </tr>
      <tr>
        <td class="prompt">Arrays / slide</td>
        <td><input <%=requiredClazz%> type="text" name="numArrays" 
          value="<%=design == null ? Values.getString(cc.getPropertyValue("numArrays"), "1") : design.getNumArrays()%>" 
          size="12" maxlength="10" onkeypress="return Numbers.integerOnly(event)"></td>
      </tr>
      <tr valign=top>
        <td class="prompt">Description</td>
        <td nowrap>
          <textarea <%=clazz%> rows="4" cols="40" name="description" wrap="virtual"
            ><%=HTML.encodeTags(design == null ? cc.getPropertyValue("description") : design.getDescription())%></textarea>
          <a href="javascript:Main.zoom('Description', 'design', 'description')"
            title="Edit in larger window"><base:icon image="zoom.gif" /></a>
        </td>
      </tr>
      </table>
      <div align=right>&nbsp;<i><base:icon image="required.gif" /> = required information</i></div>
    </t:tab>

    <t:tab id="datafiles" title="Data files" helpid="datafiles.edit">
      <iframe name="datafiles" id="idDatafiles" src="../../common/datafiles/wait.jsp" 
        width="100%"  height="<%=(int)(scale*370)%>" frameborder=0 vspace=0 hspace=0
        marginwidth=0 marginheight=0 scrolling="auto" style="overflow: visible"></iframe>
    </t:tab>
    
    <t:tab id="annotations" title="Annotations" helpid="annotations.edit">
      <iframe name="annotations" id="idAnnotations" src="../../common/annotations/wait.jsp" 
        width="100%"  height="<%=(int)(scale*370)%>" frameborder=0 vspace=0 hspace=0
        marginwidth=0 marginheight=0 scrolling="auto" style="overflow: visible"></iframe>
    </t:tab>
    
    <t:tab id="inheritedAnnotations" title="Inherited annotations" helpid="annotations.edit.inherited">
    
      <iframe name="inheritedAnnotations" id="idInheritedAnnotations" src="../../common/annotations/wait.jsp" 
        width="100%"  height="<%=(int)(scale*370)%>" frameborder=0 vspace=0 hspace=0
        marginwidth=0 marginheight=0 scrolling="auto" style="overflow: visible"></iframe>
    </t:tab>
    </t:tabcontrol>

    <table align="center">
    <tr>
      <td width="50%"><base:button onclick="saveSettings()" title="Save" /></td>
      <td width="50%"><base:button onclick="window.close()" title="Cancel" /></td>
    </tr>
    </table>
    </form>
  </base:body>
  </base:page>
  <%
}
finally
{
  if (dc != null) dc.close();
}
%>