<commit_before><%@ page import = "java.io.PrintWriter" %>
<%@ page import = "java.text.SimpleDateFormat" %>
<%@ page import = "java.text.ParseException" %>
<%@ page import = "java.util.ArrayList" %>
<%@ page import = "java.util.Date" %>
<%@ page import = "java.util.Iterator" %>
<%@ page import = "java.util.Locale" %>
<%@ page import = "gov.nih.nci.rembrandt.util.RembrandtConstants" %>
<%@ page import = "gov.nih.nci.rembrandt.dto.lookup.*" %>
<%@taglib uri='/WEB-INF/caintegrator-graphing.tld' prefix='graphing' %>
<%

String filename="";
String graphURL= "";

%>
<!-- 
<script type="text/javascript" src="js/overlib.js"></script>
<script type="text/javascript" src="js/overlib_hideform.js"></script>
<div id="overDiv" style="position:absolute; visibility:hidden; z-index:1000;"></div>
-->
	<script language="javascript" src="XSL/js.js"></script>

<div style="background-color:#ffffff">
	<div>
<%
 if(request.getParameter("reporter")!=null)	{
%>
       <script type="text/javascript">Help.insertHelp("Coin_plot", " align='right'", "padding:2px;");</script>
<% } else { %>
	   <script type="text/javascript">Help.insertHelp("Simple_gene_expression_plot", " align='right'", "padding:2px;");</script><br clear="all"/>
<% } %>   
	</div>

	<!-- 
	<img src="<%= graphURL %>" border=0 usemap="#<%= filename %>">
	-->

<%
//String geneSymbol = request.getAttribute("geneSymbol")!=null ? (String) request.getAttribute("geneSymbol") : "N/A";
String alg = request.getParameter("alg")!=null ? (String) request.getParameter("alg") : RembrandtConstants.REPORTER_SELECTION_AFFY; 

%>
<div align="center">
	<div>
	<graphing:GenePlot algorithm="<%=alg%>" /><commit_msg>needed JS includes for annotation link outs<commit_after><%@ page import = "java.io.PrintWriter" %>
<%@ page import = "java.text.SimpleDateFormat" %>
<%@ page import = "java.text.ParseException" %>
<%@ page import = "java.util.ArrayList" %>
<%@ page import = "java.util.Date" %>
<%@ page import = "java.util.Iterator" %>
<%@ page import = "java.util.Locale" %>
<%@ page import = "gov.nih.nci.rembrandt.util.RembrandtConstants" %>
<%@ page import = "gov.nih.nci.rembrandt.dto.lookup.*" %>
<%@taglib uri='/WEB-INF/caintegrator-graphing.tld' prefix='graphing' %>
<%

String filename="";
String graphURL= "";

%>
<!-- 
<script type="text/javascript" src="js/overlib.js"></script>
<script type="text/javascript" src="js/overlib_hideform.js"></script>
<div id="overDiv" style="position:absolute; visibility:hidden; z-index:1000;"></div>
-->

	<script type='text/javascript' src='/rembrandt/dwr/interface/DynamicReport.js'></script>
	<script type='text/javascript' src='/rembrandt/dwr/engine.js'></script>

	<script language="javascript" src="js/lib/json.js"></script>
	<script language="javascript" src="XSL/js.js"></script>
	

<div style="background-color:#ffffff">
	<div>
<%
 if(request.getParameter("reporter")!=null)	{
%>
       <script type="text/javascript">Help.insertHelp("Coin_plot", " align='right'", "padding:2px;");</script>
<% } else { %>
	   <script type="text/javascript">Help.insertHelp("Simple_gene_expression_plot", " align='right'", "padding:2px;");</script><br clear="all"/>
<% } %>   
	</div>

	<!-- 
	<img src="<%= graphURL %>" border=0 usemap="#<%= filename %>">
	-->

<%
//String geneSymbol = request.getAttribute("geneSymbol")!=null ? (String) request.getAttribute("geneSymbol") : "N/A";
String alg = request.getParameter("alg")!=null ? (String) request.getParameter("alg") : RembrandtConstants.REPORTER_SELECTION_AFFY; 

%>
<div align="center">
	<div>
	<graphing:GenePlot algorithm="<%=alg%>" />
{'fraction_non_alphanumeric': 0.2276673200784094, 'fraction_numerical': 0.003920470456454775, 'mean_word_length': 5.739622641509434, 'pattern_counts': {'":': 0, '<': 89, '<?xml version=': 0, '>': 89, 'https://': 0, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '1153348', 'n_tokens_mistral': 1330, 'n_tokens_neox': 1238, 'n_words': 189}