source: trunk/www/common/datafiles/select_files.jsp @ 5698

<%-- $Id:select_files.jsp 3820 2007-10-12 10:03:18Z nicklas $
  ------------------------------------------------------------------
  Copyright (C) 2005 Nicklas Nordborg
  Copyright (C) 2006 Jari Häkkinen, Nicklas Nordborg
  Copyright (C) 2007 Nicklas Nordborg

  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/>.
  ------------------------------------------------------------------
  
--%>
<%@ 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.Type"
  import="net.sf.basedb.core.BasicItem"
  import="net.sf.basedb.core.Permission"
  import="net.sf.basedb.core.Nameable"
  import="net.sf.basedb.core.FileStoreEnabled"
  import="net.sf.basedb.core.FileSet"
  import="net.sf.basedb.core.FileSetMember"
  import="net.sf.basedb.core.File"
  import="net.sf.basedb.core.Platform"
  import="net.sf.basedb.core.PlatformVariant"
  import="net.sf.basedb.core.PlatformFileType"
  import="net.sf.basedb.core.DataFileType"
  import="net.sf.basedb.core.Subtypable"
  import="net.sf.basedb.core.ItemSubtype"
  import="net.sf.basedb.core.ItemQuery"
  import="net.sf.basedb.core.Include"
  import="net.sf.basedb.core.ItemResultList"
  import="net.sf.basedb.core.PermissionDeniedException"
  import="net.sf.basedb.core.query.Expressions"
  import="net.sf.basedb.core.query.Restrictions"
  import="net.sf.basedb.core.query.Hql"
  import="net.sf.basedb.core.query.Orders"
  import="net.sf.basedb.clients.web.Base"
  import="net.sf.basedb.clients.web.util.HTML"
  import="net.sf.basedb.util.formatter.Formatter"
  import="net.sf.basedb.clients.web.formatter.FormatterFactory"
  import="net.sf.basedb.clients.web.formatter.FormatterSettings"
  import="net.sf.basedb.util.Values"
  import="java.util.ArrayList"
  import="java.util.List"
  import="java.util.Date"
  import="java.util.Set"
  import="java.util.HashSet"
  import="java.util.TreeSet"
%>
<%@ taglib prefix="base" uri="/WEB-INF/base.tld" %>
<%
final SessionControl sc = Base.getExistingSessionControl(pageContext, true);
final String ID = sc.getId();
final float scale = Base.getScale(sc);
final Item itemType = Item.valueOf(request.getParameter("item_type"));
final int itemId = Values.getInt(request.getParameter("item_id"));
final int platformId = Values.getInt(request.getParameter("platform_id"), -1);
final int variantId = Values.getInt(request.getParameter("variant_id"), -1);
final int itemSubtypeId = Values.getInt(request.getParameter("itemsubtype_id"), -1);
final ItemContext cc = sc.getCurrentContext(itemType);

final DbControl dc = sc.newDbControl();
try
{

  // Get the current item; null if we are editing a new item
  final FileStoreEnabled item = itemId == 0 ? null : (FileStoreEnabled)itemType.getById(dc, itemId);
  FileSet fileSet = null;
  if (item != null && item.hasFileSet())
  {
    fileSet = item.getFileSet();
  }

  // Get the current platform/variant/itemsubtype
  // -- if not submitted in URL use values from current item
  PlatformVariant variant = null;
  Platform platform = null;
  ItemSubtype itemSubtype = null;
  boolean deniedPlatform = false;
  try
  {
    if (itemSubtypeId > 0)
    {
      itemSubtype = ItemSubtype.getById(dc, itemSubtypeId);
    }
    else if (item instanceof Subtypable)
    {
      itemSubtype = ((Subtypable)item).getItemSubtype();
    }
    if (variantId > 0)
    {
      variant = PlatformVariant.getById(dc, variantId);
      platform = variant.getPlatform();
    }
    else if (platformId > 0)
    {
      platform = Platform.getById(dc, platformId);
    }
    else if (item != null)
    {
      variant = item.getVariant();
      platform = item.getPlatform();
    }
  }
  catch (PermissionDeniedException ex)
  {
    deniedPlatform = true;  
  }
  
  // Query to load data file types for specific itemType/platform/variant
  final ItemQuery<DataFileType> fileTypeQuery = 
    Base.getDataFileTypes(itemType, item, platform, variant, itemSubtype);
  List<DataFileType> fileTypes = fileTypeQuery.list(dc);
  
  
  String title = "Select data files for " + 
    HTML.encodeTags((item instanceof Nameable ? ((Nameable)item).getName() : 
      (item == null ? " new item" : item.toString())));

  final String clazz = "class=\"text\"";
  final String requiredClazz = "class=\"text required\"";
  final StringBuilder sb = new StringBuilder();
  List<File> recentFiles = null;
  
  %>
<base:page type="popup" title="<%=title%>">
  <base:head scripts="" styles="parameters.css">
  
  <script language="JavaScript">
  function init()
  {
  }
  var lastFileInputName;
  var updateCheckboxes = false;
  function browseOnClick(inputName, extension, updateCheck)
  {
    var frm = document.forms['datafiles'];
    updateCheckboxes = updateCheck;
    var url = '../../filemanager/index.jsp?ID=<%=ID%>&cmd=SelectOne&callback=setFileCallback';
    if (extension)
    {
      url += '&resetTemporary=1&tmpfilter:STRING:name='+escape('%.' + extension);
    }
    else
    {
      url += '&resetTemporary=1&filter:STRING:name=';
    }
    lastFileInputName = inputName;
    Main.openPopup(url, 'SelectFile', 1000, 700);
  }
  function setFileCallback(fileId, path)
  {
    var frm = document.forms['datafiles'];
    frm[lastFileInputName].value = path;
    fileOnChange(lastFileInputName, updateCheckboxes);
  }
  function fileOnChange(inputName, updateCheckbox)
  {
    var frm = document.forms['datafiles'];
    var validateCheckbox = frm['datafiles.validate'];

    // Check boxes should be updated if the data file type 
    //supports validation or metadata-extraction
    if (updateCheckbox)
    {
      if (frm[inputName].value != '')
      {
        // Data filetype supports validation
        if (validateCheckbox)
        {       
          if (validateCheckbox.disabled) validateCheckbox.disabled = false;  
          validateCheckbox.checked = "1";
        }
      }
    }   
  }
  function recentOnChange(inputName, updateCheck)
  {
    var frm = document.forms['datafiles'];
    var recentInput = frm['recent.'+inputName];
    if (recentInput.selectedIndex > 0)
    {
      var option = recentInput[recentInput.selectedIndex];
      var path = option.value == '' ? '' : option.text;
      if (frm[inputName].value != path)
      {
        frm[inputName].value = path;
        fileOnChange(inputName, updateCheck);
      }
      recentInput.selectedIndex = 0;
    }
  }
  </script>
  </base:head>
  
  <base:body onload="init()" style="background: #E0E0E0;">

    <form name="datafiles">
    <%
    if (fileTypes.size() == 0)
    {
      String what = "";
      if (platform != null)
      {
        what = "'" + HTML.encodeTags(platform.getName()) + "' platform";
      }
      else if (itemSubtype != null)
      {
        what = "'" + HTML.encodeTags(itemSubtype.getName()) + "' subtype";
      }
      %>
      <div class="error">
        The <%=what%> doesn't define any file types for 
        <%=itemType.toString() %> items.
      </div>
      <%
    }
    else if (deniedPlatform)
    {
      %>
      <div class="error">Denied</div>
      <%
    }
    else
    {
      %>
      <table class="form" cellspacing="2" border="0" cellpadding="0" width="100%">
      <%
      boolean hasNonPlatformFiles = false;      
      boolean activateCheckBoxes = false;

      boolean validationSupport = false;
      
      for (DataFileType dft : fileTypes)
      {
        PlatformFileType pft = platform == null ?
          null : platform.getFileType(dft, variant);
        // If file type is not registered with a variant, also check if it is inherited from platform
        if (pft == null && variant != null) pft = platform.getFileType(dft, null);
        boolean isPartOfPlatform = pft != null || (itemSubtype != null && itemSubtype.isAssociatedDataFileType(dft));
        boolean isRequired = pft == null ? false : pft.isRequired();
        FileSetMember member = fileSet == null || !fileSet.hasMember(dft) ?
          null : fileSet.getMember(dft);
        File file = null;
        boolean deniedFile = false;
        String extension = dft.getExtension();
        
        boolean hasValidator = dft.hasActiveValidator(dc);
        boolean affectCheckboxes = hasValidator;
        validationSupport |= hasValidator;
        if (member != null)
        {
          try
          {
            file = member.getFile();            
          }
          catch (PermissionDeniedException ex)
          {
            deniedFile = true;
          }
        }
        
        String path = "";
        if (file != null)
        {
          path = file.getPath().toString();
          activateCheckBoxes |= hasValidator;
        }
        else if (deniedFile || deniedPlatform)
        {
          path = "- denied -";
        }
        String inputName= "datafile."+dft.getId();
        recentFiles = (List<File>)cc.getRecent(dc, Item.FILE, dft.getExternalId());
        %>
        <tr>
          <td class="prompt "><%=HTML.encodeTags(dft.getName())%>
          <%
          if (!isPartOfPlatform && !deniedPlatform)
          {
            hasNonPlatformFiles = true;
            %>
            <base:icon image="warning.gif" tooltip="This file is not part of the platform/subtype" />
            <%
          }
          %>
          </td>
          <td>
            <table border="0" cellspacing="0" cellpadding="0">
            <tr>
              <td>      
                <input <%=isRequired ? requiredClazz : clazz%> type="text" 
                name="<%=inputName%>" value="<%=HTML.encodeTags(path)%>"
                size="50" title="<%=HTML.encodeTags(dft.getDescription())%>"
                <%=deniedFile || deniedPlatform ? "disabled" : "" %>
                onchange="fileOnChange('<%=inputName%>', <%=affectCheckboxes %>)">&nbsp;
              </td>
              <td><base:button 
                  title="Browse&hellip;"
                  onclick="<%="browseOnClick('"+inputName+"', '" + HTML.javaScriptEncode(extension) + "', "+ affectCheckboxes + ")"%>"
                  disabled="<%=deniedFile || deniedPlatform %>"
                  />
              </td>
            </tr>
            </table>
          </td>
        </tr>
        <tr>
          <td align="right"></td>
          <td>
          <%
          if (recentFiles != null && recentFiles.size() > 0)
          {
            %>
            <select name="recent.<%=inputName%>" onchange="recentOnChange('<%=inputName%>', <%=affectCheckboxes%>)">
            <option value="">- recently used -
            <option value="">- clear -
            <%
            for (File recent : recentFiles)
            {
              %>
              <option value="<%=recent.getId()%>"><%=HTML.encodeTags(recent.getPath().toString())%>
              <%
            }
            %>
            </select>
            <%
          }
          %>
          </td>
        </tr>
        <%
      }
      if (validationSupport)
      {
      %>
      <tr>
        <td class="prompt">Validate</td>
        <td><input type="checkbox" value="1" <%=activateCheckBoxes ? "" : "disabled"%> name="datafiles.validate"></td>
      </tr>
      <%
      }
      %>
      </table>
      <%
      if (hasNonPlatformFiles)
      {
        if (platform != null)
        {
          %>
          <div align="right">
          <base:icon image="warning.gif" /> 
          = The file type is not part of the <i><%=HTML.encodeTags(platform.getName())%></i> platform
          </div>
          <%
        }
        else if (itemSubtype != null)
        {
          %>
          <div align="right">
          <base:icon image="warning.gif" /> 
          = The file type is not part of the <i><%=HTML.encodeTags(itemSubtype.getName())%></i> subtype
          </div>
          <%
        }
      }
    }
    %>

    </form>
    
  </base:body>
  </base:page>
  <%
}
finally
{
  if (dc != null) dc.close();
}
%>