source: extensions/net.sf.basedb.reggie/trunk/resources/analysis/vcall_build.jsp @ 5766

<%@ page
  pageEncoding="UTF-8"
  session="false"
  import="net.sf.basedb.core.User"
  import="net.sf.basedb.core.DbControl"
  import="net.sf.basedb.core.SessionControl"
  import="net.sf.basedb.core.Application"
  import="net.sf.basedb.clients.web.Base" 
  import="net.sf.basedb.clients.web.util.HTML"  
  import="net.sf.basedb.clients.web.extensions.ExtensionsControl"
%>
<%@ taglib prefix="base" uri="/WEB-INF/base.tld" %>
<%@ taglib prefix="p" uri="/WEB-INF/path.tld" %>
<%
final SessionControl sc = Base.getExistingSessionControl(request, "net.sf.basedb.reggie", true);
final String ID = sc.getId();
final float scale = Base.getScale(sc);
final String home = ExtensionsControl.getHomeUrl("net.sf.basedb.reggie");
DbControl dc = null;
try
{
  dc = sc.newDbControl();
  final User user = User.getById(dc, sc.getLoggedInUserId());
%>
<base:page type="default" >
<base:head 
  scripts="~../reggie-2.js,~vcall_build.js" 
  styles="path.css,~../css/reggie-2.css"
/>
<base:body>

  <p:path><p:pathelement 
    title="Reggie" href="<%="../index.jsp?ID="+ID%>" 
    /><p:pathelement title="Build SCAN-B variant database" 
    /></p:path>

  <div class="content">
  <form name="reggie" id="wizard" class="wizard">

  <div class="step" id="step-1">
    <div class="step-no">1</div>
    <div class="step-title">Select list with alignments</div>
    <div class="step-content">
    
      <table class="step-form">
      <tr class="align-top">
        <td class="prompt">Item list</td>
        <td class="input">
        
          <table style="width: 100%;">
          <tr>
          <td>
            <select class="required" name="itemList" id="itemList"></select>
          </td>
          <td style="padding-left: 4px; width: 7em;">
            <base:button title="Select&hellip;" id="btnSelectList" />
          </td>
          </tr>
          </table>

        </td>
        <td class="status" id="itemList.status"></td>
        <td class="help"><span id="itemList.message" class="message"></span>
          Select a list containing the alignments that should be used to
          build the database. All alignments in the list need to have a raw
          variant calling file already. They also need to be linked all the 
          way up to a patient item. This is needed since the script calculates
          per-patient frequencies of variants.
        </td>
      </tr>
      </table>
    </div>
  </div>
  
  
  <div class="step" id="step-2">
    <div class="step-no">2</div>
    <div class="step-title">Parameters</div>
    <div class="step-content">

      <table class="step-form">
      <tbody>
        <tr class="section-header">
          <td colspan="4">Open Grid Scheduler</td>
        </tr>
        <tr>
          <td class="subprompt">Cluster</td>
          <td class="input">
            <select name="clusters" id="clusters" class="required"></select></td>
          <td class="status" id="clusters.status"></td>
          <td class="help">
            <span id="clusters.message" class="message"></span>
            Select the cluster to use for running the software.
          </td>
        </tr>
        <tr id="job-priority" style="display: none;">
          <td class="subprompt">Job priority</td>
          <td class="input">
            <select name="priority" id="priority"></select>
          </td>
          <td class="status" id="priority.status"></td>
          <td class="help">
            <span id="priority.message" class="message"></span>
            Select the priority of the job.
          </td>
        </tr>
        <tr>
          <td class="subprompt">Debug</td>
          <td class="input"><input type="checkbox" name="debug"></td>
          <td class="status" id="debug.status"></td>
          <td class="help">
            <span id="debug.message" class="message"></span>
            When running in debug mode temporary files are not removed from the
            cluster node.
          </td>
        </tr>
      </tbody>
      </table>
    </div>
  </div>
    
    <div id="wizard-status"></div>
    <div id="wizard-progress"></div>
  
    <table class="navigation" id="navigation">
    <tr>
      <td><base:button id="gocancel" title="Cancel" /></td>
      <td><base:button id="gonext" title="Next" image="<%=home+"/images/gonext.png"%>" /></td>
      <td><base:button id="goregister" title="Register" image="<%=home+"/images/import.png"%>"  /></td>
      <td><base:button id="gorestart" title="Restart" image="<%=home+"/images/goback.png"%>" /></td>
      <td id="gonext-message" class="message"></td>
    </tr>
    </table>
  
  </form>
  </div>
  
</base:body>
</base:page>
<%
}
finally
{
  if (dc != null) dc.close();
}
%>