source: extensions/net.sf.basedb.meludi/trunk/resources/reports/meludi_quarter_month_report_generator.jsp @ 3515

<%@ 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.extensions.ExtensionsControl"
%>
<%@ taglib prefix="base" uri="/WEB-INF/base.tld" %>
<%@ taglib prefix="p" uri="/WEB-INF/path.tld" %>
<%
final SessionControl sc = Base.getExistingSessionControl(request, true);
final String ID = sc.getId();
final float scale = Base.getScale(sc);
final String home = ExtensionsControl.getHomeUrl("net.sf.basedb.meludi");
DbControl dc = null;
try
{
  dc = sc.newDbControl();
  final User user = User.getById(dc, sc.getLoggedInUserId());
  %>
<base:page type="default" >
<base:head 
  scripts="~../meludi-2.js,~boxplot.js,~meludi_quarter_month_report_generator.js" 
  styles="path.css,~../css/meludi-2.css,~../css/report.css">
  <style>
  canvas
  {
    width: 700px;
    height: 550px;
  } 
  .guide
  {
    position: absolute; 
    z-index: 99; 
    display: none; 
    background-color: #224488;
  }
  </style>
  </base:head>
  <base:body>
    <p:path><p:pathelement 
      title="MeLuDI" href="<%="../index.jsp?ID="+ID%>" 
      /><p:pathelement title="Sample processing statistics" 
      /></p:path>
      
    <div id="x-guide" class="guide" style="width: 1px;"></div>
    <div id="y-guide" class="guide" style="height: 1px;"></div>

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

      <div class="step" id="step-1">
        <div class="step-no">1</div>
        <div class="step-title">Report parameters</div>
        <div class="step-content">

          <div class="bg-filled-50" style="padding: 2px;">
            This wizard is intended for creating box-plot statistics for fixed time intervals<br>
            of original quantities for DNA and RNA extracts, as well as DNA ΔCt values.<br>
            If few entries exist for some time intervals, the results must be taken with a<br>
            grain of salt, as a box plot will only be generated if at least 5 data points<br>
            exist for a time interval, since otherwise no relevant statistic can be calculated.<br>
            This may be extra important, if filters are used to reduce the amount of data.<br>
            <br>
            The statistics is based on the following DNA and RNA items:<br>
            <br>
            1. MeLuDI items only, not extra material.<br>
            2. Extracts with a case or specimen as parent, i.e. not extract child items.<br>
            3. Extracts with QIAcube date set.<br>
            4. Extracts passing optional project focus and/or site filters.<br>
            <br>
          </div>

          <table class="step-form" id="report-type-meludiquartermonthreport">           
          <tr>
            <td class="prompt">Report period</td>
            <td valign="top" class="input">
              From <input type="text" name="fromdate" id="fromdate" 
                style="width: 8em;" maxlength="8">&nbsp;
              To <input type="text" name="todate" id="todate" 
                style="width: 8em;" maxlength="8">
            </td>
            <td class="status" id="period.status"></td>
            <td class="help">
              <span id="period.message" class="message"></span>
              [YY]YYMMDD. Define which period the report should cover. 
              Empty fields will include all items.
            </td>
          </tr> 
          <tr>
            <td class="prompt">View type</td>
            <td class="input">
              <select name="viewtype" id="viewtype" style="width: 15em;">
                <option value="QUARTERMONTH" selected="yes">Quarter + Month</option>
                <option value="AUTO">Auto</option>
                <option value="WEEK">Week</option>
                <option value="MONTH">Month</option>
                <option value="QUARTER">Quarter</option>
                <option value="YEAR">Year</option>
              </select>
            </td>
            <td class="status" id="viewtype.status"></td>
            <td class="help">
              <span id="viewtype.message" class="message"></span>
              Auto will adjust the report depending on the size of the period.
              <ul>
                <li>Period shorter than 13 months - samples per month</li>
                <li>Period shorter than 3 years - samples per quarter</li>
                <li>Period is 3 years or greater - samples per year</li>
              </ul>
            </td>
          </tr>
          <tr id="extractsource-filter">
            <td class="prompt">Extract source filter</td>
            <td class="input">
              <select name="extractsourcefilter" id="extractsourcefilter">
                <option value="none" selected="yes">None</option>
                <option value="meludi_specimen_extract">MeLuDI specimen extract</option>
                <option value="input_extract">Input extract (Pathology DNA/RNA)</option>
              </select>
            </td>
            <td class="status" id="extractsourcefilter.status"></td>
            <td class="help">
              <span id="extractsourcefilter.message" class="message"></span>
              Select extract source filter for report.
            </td>
          </tr>         
          <tr id="projectfocus-filter">
            <td class="prompt">Project focus filter</td>
            <td class="input">
              <select name="projectfocusfilter" id="projectfocusfilter">
                <option value="none" selected="yes">None</option>
                <option value="melanoma">Melanoma</option>
                <option value="lungcancer">Lung cancer</option>
                <option value="coloncancer">Colon cancer</option>
                <option value="GIST">GIST (Gastrointestinal stromal tumour)</option>
                <option value="">unknown</option>
              </select>
            </td>
            <td class="status" id="projectfocusfilter.status"></td>
            <td class="help">
              <span id="projectfocusfilter.message" class="message"></span>
              Select project focus filter for report.
            </td>
          </tr>         
          <tr>
            <td class="prompt">Chart site</td>
            <td class="input">
              <select id="sites" name="sites" style="width: 15em;"></select>
            </td>
            <td class="status" id="sites.status"></td>
            <td class="help">
              <span id="sites.message" class="message"></span>
              Select what site to take input data from.
            </td>
          </tr>         
          <tr>
            <td class="prompt">Chart data</td>
            <td class="input">
              <select name="chartvariant">
                <option value="allcharts" selected="yes">All</option>
<!--
                <option value="originalquantitytissue">Original quantity tissue</option>
                <option value="quantitytissueused">Quantity tissue used for MeLuDI specimens</option>
                <option value="histologypiecequantity">Histology piece quantity</option>
                <option value="remainingquantityformeludispecimen">Remaining quantity for MeLuDI specimens</option>
-->
                <option value="originalquantitydna">Original quantity DNA for MeLuDI extractions</option>
                <option value="originalquantityrna">Original quantity RNA for MeLuDI extractions</option>
                <option value="deltactdna">DNA ΔCt value for MeLuDI extractions</option>
<!--
                <option value="dnayield">DNA yield</option>
                <option value="rnayield">RNA yield</option>
                <option value="dnayieldcorrected">DNA yield (corrected for only processing half of the lysate volume)</option>
                <option value="rnayieldcorrected">RNA yield (corrected for only processing half of the lysate volume)</option>
                <option value="rnaqc">RNA QC</option>
                <option value="minutestornalater">Min to RNAlater</option>
-->
              </select>
            </td>
            <td valign="top" class="status" id="chartvariant.status"></td>
            <td class="help">
              <span id="chartvariant.message" class="message"></span>
              Select what data to report.
            </td>
          </tr>
          </table>
        </div>
      </div>
      
      <div class="step" id="step-2">
        <div class="step-no">2</div>
        <div class="step-title">Generated report
          <span id="printButton" class="link"><img src="../images/print.png">Print version&hellip;</span>
        </div>
        <div class="step-content" id="step-2-content">
          <div id="reportdiv" style="text-align: center;"></div>
        </div>
      </div>
      
    
    <div id="wizard-status"></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="gocreate" title="Generate" image="<%=home+"/images/gonext.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();
}
%>