Added: 
incubator/taverna/site/trunk/content/javadoc/taverna-commandline/index-all.html
URL: 
http://svn.apache.org/viewvc/incubator/taverna/site/trunk/content/javadoc/taverna-commandline/index-all.html?rev=1750821&view=auto
==============================================================================
--- 
incubator/taverna/site/trunk/content/javadoc/taverna-commandline/index-all.html 
(added)
+++ 
incubator/taverna/site/trunk/content/javadoc/taverna-commandline/index-all.html 
Thu Jun 30 15:58:50 2016
@@ -0,0 +1,543 @@
+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" 
"http://www.w3.org/TR/html4/loose.dtd";>
+<!-- NewPage -->
+<html lang="en">
+<head>
+<!-- Generated by javadoc (1.8.0_91) on Thu Jun 30 16:50:23 BST 2016 -->
+<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
+<title>Index (Apache Taverna Command-line Tool 3.1.0-incubating API)</title>
+<meta name="date" content="2016-06-30">
+<link rel="stylesheet" type="text/css" href="stylesheet.css" title="Style">
+<script type="text/javascript" src="script.js"></script>
+</head>
+<body>
+<script type="text/javascript"><!--
+    try {
+        if (location.href.indexOf('is-external=true') == -1) {
+            parent.document.title="Index (Apache Taverna Command-line Tool 
3.1.0-incubating API)";
+        }
+    }
+    catch(err) {
+    }
+//-->
+</script>
+<noscript>
+<div>JavaScript is disabled on your browser.</div>
+</noscript>
+<!-- ========= START OF TOP NAVBAR ======= -->
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links">Skip navigation links</a></div>
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+<!--   -->
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+<ul class="navList" title="Navigation">
+<li><a href="overview-summary.html">Overview</a></li>
+<li>Package</li>
+<li>Class</li>
+<li>Use</li>
+<li><a href="overview-tree.html">Tree</a></li>
+<li><a href="deprecated-list.html">Deprecated</a></li>
+<li class="navBarCell1Rev">Index</li>
+<li><a href="help-doc.html">Help</a></li>
+</ul>
+</div>
+<div class="subNav">
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+<ul class="navList" id="allclasses_navbar_top">
+<li><a href="allclasses-noframe.html">All&nbsp;Classes</a></li>
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+  if(window==top) {
+    allClassesLink.style.display = "block";
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+  else {
+    allClassesLink.style.display = "none";
+  }
+  //-->
+</script>
+</div>
+<a name="skip.navbar.top">
+<!--   -->
+</a></div>
+<!-- ========= END OF TOP NAVBAR ========= -->
+<div class="contentContainer"><a href="#I:A">A</a>&nbsp;<a 
href="#I:B">B</a>&nbsp;<a href="#I:C">C</a>&nbsp;<a href="#I:D">D</a>&nbsp;<a 
href="#I:E">E</a>&nbsp;<a href="#I:G">G</a>&nbsp;<a href="#I:H">H</a>&nbsp;<a 
href="#I:I">I</a>&nbsp;<a href="#I:M">M</a>&nbsp;<a href="#I:O">O</a>&nbsp;<a 
href="#I:R">R</a>&nbsp;<a href="#I:S">S</a>&nbsp;<a href="#I:T">T</a>&nbsp;<a 
href="#I:U">U</a>&nbsp;<a href="#I:V">V</a>&nbsp;<a name="I:A">
+<!--   -->
+</a>
+<h2 class="title">A</h2>
+<dl>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/ArgumentsParsingException.html" 
title="class in org.apache.taverna.commandline.exceptions"><span 
class="typeNameLink">ArgumentsParsingException</span></a> - Exception in <a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/ArgumentsParsingException.html#ArgumentsParsingException-java.lang.String-">ArgumentsParsingException(String)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/ArgumentsParsingException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">ArgumentsParsingException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/ArgumentsParsingException.html#ArgumentsParsingException-java.lang.String-java.lang.Throwable-">ArgumentsParsingException(String,
 Throwable)</a></span> - Constructor for exception 
org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/ArgumentsParsingException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">ArgumentsParsingException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#askedForHelp--">askedForHelp()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#askedForHelp--">askedForHelp()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:B">
+<!--   -->
+</a>
+<h2 class="title">B</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/ErrorValueHandler.html#buildErrorValueString-org.apache.taverna.databundle.ErrorDocument-">buildErrorValueString(ErrorDocument)</a></span>
 - Static method in class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/ErrorValueHandler.html" title="class 
in org.apache.taverna.commandline.data">ErrorValueHandler</a></dt>
+<dd>
+<div class="block">Creates a string representation of the ErrorValue.</div>
+</dd>
+</dl>
+<a name="I:C">
+<!--   -->
+</a>
+<h2 class="title">C</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#checkForInvalid--">checkForInvalid()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/InputsHandler.html#checkProvidedInputs-java.util.Map-org.apache.taverna.commandline.options.CommandLineOptions-">checkProvidedInputs(Map&lt;String,
 InputWorkflowPort&gt;, CommandLineOptions)</a></span> - Method in class 
org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/InputsHandler.html" title="class in 
org.apache.taverna.commandline.data">InputsHandler</a></dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/CommandLineMasterPasswordException.html"
 title="class in org.apache.taverna.commandline.exceptions"><span 
class="typeNameLink">CommandLineMasterPasswordException</span></a> - Exception 
in <a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/CommandLineMasterPasswordException.html#CommandLineMasterPasswordException-java.lang.String-">CommandLineMasterPasswordException(String)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/CommandLineMasterPasswordException.html"
 title="class in 
org.apache.taverna.commandline.exceptions">CommandLineMasterPasswordException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/CommandLineMasterPasswordException.html#CommandLineMasterPasswordException-java.lang.String-java.lang.Throwable-">CommandLineMasterPasswordException(String,
 Throwable)</a></span> - Constructor for exception 
org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/CommandLineMasterPasswordException.html"
 title="class in 
org.apache.taverna.commandline.exceptions">CommandLineMasterPasswordException</a></dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html" 
title="class in org.apache.taverna.commandline"><span 
class="typeNameLink">CommandLineMasterPasswordProvider</span></a> - Class in <a 
href="org/apache/taverna/commandline/package-summary.html">org.apache.taverna.commandline</a></dt>
+<dd>
+<div class="block">An implementation of <a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager"><code>MasterPasswordProvider</code></a>
 that reads Credential Manager's
+ master password from stdin (pipe or terminal) is -cmpassword option is 
present in command
+ line arguments.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html#CommandLineMasterPasswordProvider-org.apache.taverna.commandline.options.CommandLineOptions-">CommandLineMasterPasswordProvider(CommandLineOptions)</a></span>
 - Constructor for class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html" 
title="class in 
org.apache.taverna.commandline">CommandLineMasterPasswordProvider</a></dt>
+<dd>&nbsp;</dd>
+<dt><a href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in org.apache.taverna.commandline.options"><span 
class="typeNameLink">CommandLineOptions</span></a> - Interface in <a 
href="org/apache/taverna/commandline/options/package-summary.html">org.apache.taverna.commandline.options</a></dt>
+<dd>&nbsp;</dd>
+<dt><a href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" 
title="class in org.apache.taverna.commandline"><span 
class="typeNameLink">CommandLineOptionsImpl</span></a> - Class in <a 
href="org/apache/taverna/commandline/package-summary.html">org.apache.taverna.commandline</a></dt>
+<dd>
+<div class="block">Handles the processing of command line arguments for 
enacting a workflow.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#CommandLineOptionsImpl-java.lang.String:A-">CommandLineOptionsImpl(String[])</a></span>
 - Constructor for class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><a href="org/apache/taverna/commandline/CommandLineTool.html" title="class 
in org.apache.taverna.commandline"><span 
class="typeNameLink">CommandLineTool</span></a> - Class in <a 
href="org/apache/taverna/commandline/package-summary.html">org.apache.taverna.commandline</a></dt>
+<dd>
+<div class="block">A utility class that wraps the process of executing a 
workflow, allowing workflows to be easily
+ executed independently of the GUI.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#CommandLineTool--">CommandLineTool()</a></span>
 - Constructor for class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+<dt><a href="org/apache/taverna/commandline/CommandLineUtils.html" 
title="class in org.apache.taverna.commandline"><span 
class="typeNameLink">CommandLineUtils</span></a> - Class in <a 
href="org/apache/taverna/commandline/package-summary.html">org.apache.taverna.commandline</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineUtils.html#CommandLineUtils--">CommandLineUtils()</a></span>
 - Constructor for class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineUtils.html" title="class in 
org.apache.taverna.commandline">CommandLineUtils</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html#configureDatabase--">configureDatabase()</a></span>
 - Method in class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html" 
title="class in 
org.apache.taverna.commandline.data">DatabaseConfigurationHandler</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#CREDENTIAL_MANAGER_DIR_OPTION">CREDENTIAL_MANAGER_DIR_OPTION</a></span>
 - Static variable in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#CREDENTIAL_MANAGER_PASSWORD_OPTION">CREDENTIAL_MANAGER_PASSWORD_OPTION</a></span>
 - Static variable in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:D">
+<!--   -->
+</a>
+<h2 class="title">D</h2>
+<dl>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html"
 title="class in org.apache.taverna.commandline.exceptions"><span 
class="typeNameLink">DatabaseConfigurationException</span></a> - Exception in 
<a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html#DatabaseConfigurationException--">DatabaseConfigurationException()</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html"
 title="class in 
org.apache.taverna.commandline.exceptions">DatabaseConfigurationException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html#DatabaseConfigurationException-java.lang.String-">DatabaseConfigurationException(String)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html"
 title="class in 
org.apache.taverna.commandline.exceptions">DatabaseConfigurationException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html#DatabaseConfigurationException-java.lang.Throwable-">DatabaseConfigurationException(Throwable)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html"
 title="class in 
org.apache.taverna.commandline.exceptions">DatabaseConfigurationException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html#DatabaseConfigurationException-java.lang.String-java.lang.Throwable-">DatabaseConfigurationException(String,
 Throwable)</a></span> - Constructor for exception 
org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/DatabaseConfigurationException.html"
 title="class in 
org.apache.taverna.commandline.exceptions">DatabaseConfigurationException</a></dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html" 
title="class in org.apache.taverna.commandline.data"><span 
class="typeNameLink">DatabaseConfigurationHandler</span></a> - Class in <a 
href="org/apache/taverna/commandline/data/package-summary.html">org.apache.taverna.commandline.data</a></dt>
+<dd>
+<div class="block">Handles the initialisation and configuration of the data 
source according to
+ the command line arguments, or a properties file.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html#DatabaseConfigurationHandler-org.apache.taverna.commandline.options.CommandLineOptions-org.apache.taverna.configuration.database.DatabaseConfiguration-org.apache.taverna.configuration.database.DatabaseManager-">DatabaseConfigurationHandler(CommandLineOptions,
 DatabaseConfiguration, DatabaseManager)</a></span> - Constructor for class 
org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html" 
title="class in 
org.apache.taverna.commandline.data">DatabaseConfigurationHandler</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#displayHelp--">displayHelp()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#displayHelp-boolean-">displayHelp(boolean)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#displayHelp--">displayHelp()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#displayHelp-boolean-">displayHelp(boolean)</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:E">
+<!--   -->
+</a>
+<h2 class="title">E</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#error-java.lang.String-">error(String)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#error-java.lang.String-java.lang.Throwable-">error(String,
 Throwable)</a></span> - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#error-java.lang.Throwable-">error(Throwable)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+<dt><a href="org/apache/taverna/commandline/data/ErrorValueHandler.html" 
title="class in org.apache.taverna.commandline.data"><span 
class="typeNameLink">ErrorValueHandler</span></a> - Class in <a 
href="org/apache/taverna/commandline/data/package-summary.html">org.apache.taverna.commandline.data</a></dt>
+<dd>
+<div class="block">Handles ErrorValues and transforming them into String 
representations
+ that can be stored as a file, or within a Baclava document.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/ErrorValueHandler.html#ErrorValueHandler--">ErrorValueHandler()</a></span>
 - Constructor for class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/ErrorValueHandler.html" title="class 
in org.apache.taverna.commandline.data">ErrorValueHandler</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:G">
+<!--   -->
+</a>
+<h2 class="title">G</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getArgs--">getArgs()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getArgs--">getArgs()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getCredentialManagerDir--">getCredentialManagerDir()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getCredentialManagerDir--">getCredentialManagerDir()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getDatabasePort--">getDatabasePort()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getDatabasePort--">getDatabasePort()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getDatabaseProperties--">getDatabaseProperties()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getDatabaseProperties--">getDatabaseProperties()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html#getDBConfig--">getDBConfig()</a></span>
 - Method in class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html" 
title="class in 
org.apache.taverna.commandline.data">DatabaseConfigurationHandler</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getInputBundle--">getInputBundle()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getInputBundle--">getInputBundle()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>
+<div class="block">Return the path for a data bundle which should be used for 
+ input values.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getInputFiles--">getInputFiles()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>
+<div class="block">Returns an array that alternates between a portname and 
path to a file
+ containing the input values.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getInputFiles--">getInputFiles()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>
+<div class="block">Returns an array that alternates between a portname and 
path to a file
+ containing the input values.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getInputValues--">getInputValues()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getInputValues--">getInputValues()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>
+<div class="block">Returns an array that alternates between a portname and an
+ input values.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getLogFile--">getLogFile()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getLogFile--">getLogFile()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html#getMasterPassword-boolean-">getMasterPassword(boolean)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html" 
title="class in 
org.apache.taverna.commandline">CommandLineMasterPasswordProvider</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/InputMismatchException.html#getMessage--">getMessage()</a></span>
 - Method in exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/InputMismatchException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">InputMismatchException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getOptions--">getOptions()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getOutputDirectory--">getOutputDirectory()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getOutputDirectory--">getOutputDirectory()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html#getProviderPriority--">getProviderPriority()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html" 
title="class in 
org.apache.taverna.commandline">CommandLineMasterPasswordProvider</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getSaveResultsToBundle--">getSaveResultsToBundle()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getSaveResultsToBundle--">getSaveResultsToBundle()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getStartDatabase--">getStartDatabase()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getStartDatabase--">getStartDatabase()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getStartDatabaseOnly--">getStartDatabaseOnly()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getStartDatabaseOnly--">getStartDatabaseOnly()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#getWorkflow--">getWorkflow()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#getWorkflow--">getWorkflow()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:H">
+<!--   -->
+</a>
+<h2 class="title">H</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#hasDelimiterFor-java.lang.String-">hasDelimiterFor(String)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#hasDelimiterFor-java.lang.String-">hasDelimiterFor(String)</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#hasInputBundle--">hasInputBundle()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#hasInputBundle--">hasInputBundle()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#hasInputFiles--">hasInputFiles()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#hasInputFiles--">hasInputFiles()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#hasInputValues--">hasInputValues()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#hasInputValues--">hasInputValues()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#hasLogFile--">hasLogFile()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#hasLogFile--">hasLogFile()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#hasOption-java.lang.String-">hasOption(String)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#hasOption-java.lang.String-">hasOption(String)</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#hasSaveResultsToBundle--">hasSaveResultsToBundle()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#hasSaveResultsToBundle--">hasSaveResultsToBundle()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:I">
+<!--   -->
+</a>
+<h2 class="title">I</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#inputDelimiter-java.lang.String-">inputDelimiter(String)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#inputDelimiter-java.lang.String-">inputDelimiter(String)</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/InputMismatchException.html" 
title="class in org.apache.taverna.commandline.exceptions"><span 
class="typeNameLink">InputMismatchException</span></a> - Exception in <a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/InputMismatchException.html#InputMismatchException-java.lang.String-java.util.Set-java.util.Set-">InputMismatchException(String,
 Set&lt;String&gt;, Set&lt;String&gt;)</a></span> - Constructor for exception 
org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/InputMismatchException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">InputMismatchException</a></dt>
+<dd>&nbsp;</dd>
+<dt><a href="org/apache/taverna/commandline/data/InputsHandler.html" 
title="class in org.apache.taverna.commandline.data"><span 
class="typeNameLink">InputsHandler</span></a> - Class in <a 
href="org/apache/taverna/commandline/data/package-summary.html">org.apache.taverna.commandline.data</a></dt>
+<dd>
+<div class="block">Handles the reading, or processing, or input values 
according to arguments provided to the
+ commandline.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/InputsHandler.html#InputsHandler--">InputsHandler()</a></span>
 - Constructor for class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/InputsHandler.html" title="class in 
org.apache.taverna.commandline.data">InputsHandler</a></dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/InvalidOptionException.html" 
title="class in org.apache.taverna.commandline.exceptions"><span 
class="typeNameLink">InvalidOptionException</span></a> - Exception in <a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/InvalidOptionException.html#InvalidOptionException-java.lang.String-">InvalidOptionException(String)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/InvalidOptionException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">InvalidOptionException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#isClientServer--">isClientServer()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#isClientServer--">isClientServer()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#isEmbedded--">isEmbedded()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#isEmbedded--">isEmbedded()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#isInMemory--">isInMemory()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#isInMemory--">isInMemory()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#isProvenanceEnabled--">isProvenanceEnabled()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#isProvenanceEnabled--">isProvenanceEnabled()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:M">
+<!--   -->
+</a>
+<h2 class="title">M</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/TavernaCommandLine.html#main-java.lang.String:A-">main(String[])</a></span>
 - Static method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/TavernaCommandLine.html" title="class in 
org.apache.taverna.commandline">TavernaCommandLine</a></dt>
+<dd>
+<div class="block">Starts the Taverna Command-line Tool.</div>
+</dd>
+</dl>
+<a name="I:O">
+<!--   -->
+</a>
+<h2 class="title">O</h2>
+<dl>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html" 
title="class in org.apache.taverna.commandline.exceptions"><span 
class="typeNameLink">OpenDataflowException</span></a> - Exception in <a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html#OpenDataflowException--">OpenDataflowException()</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">OpenDataflowException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html#OpenDataflowException-java.lang.String-">OpenDataflowException(String)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">OpenDataflowException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html#OpenDataflowException-java.lang.Throwable-">OpenDataflowException(Throwable)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">OpenDataflowException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html#OpenDataflowException-java.lang.String-java.lang.Throwable-">OpenDataflowException(String,
 Throwable)</a></span> - Constructor for exception 
org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/OpenDataflowException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">OpenDataflowException</a></dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/package-summary.html">org.apache.taverna.commandline</a>
 - package org.apache.taverna.commandline</dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/data/package-summary.html">org.apache.taverna.commandline.data</a>
 - package org.apache.taverna.commandline.data</dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a>
 - package org.apache.taverna.commandline.exceptions</dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/options/package-summary.html">org.apache.taverna.commandline.options</a>
 - package org.apache.taverna.commandline.options</dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html#overrideDefaults--">overrideDefaults()</a></span>
 - Method in class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html" 
title="class in 
org.apache.taverna.commandline.data">DatabaseConfigurationHandler</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:R">
+<!--   -->
+</a>
+<h2 class="title">R</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html#readConfigirationFromFile-java.lang.String-">readConfigirationFromFile(String)</a></span>
 - Method in class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html" 
title="class in 
org.apache.taverna.commandline.data">DatabaseConfigurationHandler</a></dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/ReadInputException.html" 
title="class in org.apache.taverna.commandline.exceptions"><span 
class="typeNameLink">ReadInputException</span></a> - Exception in <a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/ReadInputException.html#ReadInputException-java.lang.String-">ReadInputException(String)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/ReadInputException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">ReadInputException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/ReadInputException.html#ReadInputException-java.lang.String-java.lang.Throwable-">ReadInputException(String,
 Throwable)</a></span> - Constructor for exception 
org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/ReadInputException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">ReadInputException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/InputsHandler.html#registerInputs-java.util.Map-org.apache.taverna.commandline.options.CommandLineOptions-">registerInputs(Map&lt;String,
 InputWorkflowPort&gt;, CommandLineOptions)</a></span> - Method in class 
org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/InputsHandler.html" title="class in 
org.apache.taverna.commandline.data">InputsHandler</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#run--">run()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:S">
+<!--   -->
+</a>
+<h2 class="title">S</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineUtils.html#safeIsSameFile-java.nio.file.Path-java.nio.file.Path-">safeIsSameFile(Path,
 Path)</a></span> - Static method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineUtils.html" title="class in 
org.apache.taverna.commandline">CommandLineUtils</a></dt>
+<dd>&nbsp;</dd>
+<dt><a 
href="org/apache/taverna/commandline/exceptions/SaveResultsException.html" 
title="class in org.apache.taverna.commandline.exceptions"><span 
class="typeNameLink">SaveResultsException</span></a> - Exception in <a 
href="org/apache/taverna/commandline/exceptions/package-summary.html">org.apache.taverna.commandline.exceptions</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/SaveResultsException.html#SaveResultsException-java.lang.String-">SaveResultsException(String)</a></span>
 - Constructor for exception org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/SaveResultsException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">SaveResultsException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/exceptions/SaveResultsException.html#SaveResultsException-java.lang.String-java.lang.Throwable-">SaveResultsException(String,
 Throwable)</a></span> - Constructor for exception 
org.apache.taverna.commandline.exceptions.<a 
href="org/apache/taverna/commandline/exceptions/SaveResultsException.html" 
title="class in 
org.apache.taverna.commandline.exceptions">SaveResultsException</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/SaveResultsHandler.html#saveResultsForPort-java.lang.String-java.nio.file.Path-">saveResultsForPort(String,
 Path)</a></span> - Method in class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/SaveResultsHandler.html" title="class 
in org.apache.taverna.commandline.data">SaveResultsHandler</a></dt>
+<dd>
+<div class="block">Given the Data on an output port, saves the data on a disk 
in the
+ output directory.</div>
+</dd>
+<dt><a href="org/apache/taverna/commandline/data/SaveResultsHandler.html" 
title="class in org.apache.taverna.commandline.data"><span 
class="typeNameLink">SaveResultsHandler</span></a> - Class in <a 
href="org/apache/taverna/commandline/data/package-summary.html">org.apache.taverna.commandline.data</a></dt>
+<dd>
+<div class="block">Handles all recording of results as they are received by 
the <code>CommandLineResultListener</code> or
+ when the workflow enactment has completed.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/SaveResultsHandler.html#SaveResultsHandler-java.io.File-">SaveResultsHandler(File)</a></span>
 - Constructor for class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/SaveResultsHandler.html" title="class 
in org.apache.taverna.commandline.data">SaveResultsHandler</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html#saveResultsToDirectory--">saveResultsToDirectory()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineOptionsImpl.html" title="class 
in org.apache.taverna.commandline">CommandLineOptionsImpl</a></dt>
+<dd>
+<div class="block">Save the results to a directory if -outputdir has been 
explicitly defined,
+ or if -bundlec has not been defined.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html#saveResultsToDirectory--">saveResultsToDirectory()</a></span>
 - Method in interface org.apache.taverna.commandline.options.<a 
href="org/apache/taverna/commandline/options/CommandLineOptions.html" 
title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a></dt>
+<dd>
+<div class="block">Save the results to a directory if -outputdir has been 
explicitly defined,
+ or if -outputdoc has not been defined.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#setCommandLineOptions-org.apache.taverna.commandline.options.CommandLineOptions-">setCommandLineOptions(CommandLineOptions)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#setCredentialManager-org.apache.taverna.security.credentialmanager.CredentialManager-">setCredentialManager(CredentialManager)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#setDatabaseConfiguration-org.apache.taverna.configuration.database.DatabaseConfiguration-">setDatabaseConfiguration(DatabaseConfiguration)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>
+<div class="block">Sets the databaseConfiguration.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#setDatabaseManager-org.apache.taverna.configuration.database.DatabaseManager-">setDatabaseManager(DatabaseManager)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>
+<div class="block">Sets the databaseManager.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html#setMasterPassword-java.lang.String-">setMasterPassword(String)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html" 
title="class in 
org.apache.taverna.commandline">CommandLineMasterPasswordProvider</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#setRunService-org.apache.taverna.platform.run.api.RunService-">setRunService(RunService)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#setupAndExecute--">setupAndExecute()</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#setWorkflowBundleIO-org.apache.taverna.scufl2.api.io.WorkflowBundleIO-">setWorkflowBundleIO(WorkflowBundleIO)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:T">
+<!--   -->
+</a>
+<h2 class="title">T</h2>
+<dl>
+<dt><a href="org/apache/taverna/commandline/TavernaCommandLine.html" 
title="class in org.apache.taverna.commandline"><span 
class="typeNameLink">TavernaCommandLine</span></a> - Class in <a 
href="org/apache/taverna/commandline/package-summary.html">org.apache.taverna.commandline</a></dt>
+<dd>
+<div class="block">Main entry point for starting the Taverna Command-line 
Tool.</div>
+</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/TavernaCommandLine.html#TavernaCommandLine--">TavernaCommandLine()</a></span>
 - Constructor for class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/TavernaCommandLine.html" title="class in 
org.apache.taverna.commandline">TavernaCommandLine</a></dt>
+<dd>&nbsp;</dd>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html#testDatabaseConnection--">testDatabaseConnection()</a></span>
 - Method in class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html" 
title="class in 
org.apache.taverna.commandline.data">DatabaseConfigurationHandler</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:U">
+<!--   -->
+</a>
+<h2 class="title">U</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html#useOptions--">useOptions()</a></span>
 - Method in class org.apache.taverna.commandline.data.<a 
href="org/apache/taverna/commandline/data/DatabaseConfigurationHandler.html" 
title="class in 
org.apache.taverna.commandline.data">DatabaseConfigurationHandler</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a name="I:V">
+<!--   -->
+</a>
+<h2 class="title">V</h2>
+<dl>
+<dt><span class="memberNameLink"><a 
href="org/apache/taverna/commandline/CommandLineTool.html#validateWorkflowBundle-org.apache.taverna.scufl2.api.container.WorkflowBundle-">validateWorkflowBundle(WorkflowBundle)</a></span>
 - Method in class org.apache.taverna.commandline.<a 
href="org/apache/taverna/commandline/CommandLineTool.html" title="class in 
org.apache.taverna.commandline">CommandLineTool</a></dt>
+<dd>&nbsp;</dd>
+</dl>
+<a href="#I:A">A</a>&nbsp;<a href="#I:B">B</a>&nbsp;<a 
href="#I:C">C</a>&nbsp;<a href="#I:D">D</a>&nbsp;<a href="#I:E">E</a>&nbsp;<a 
href="#I:G">G</a>&nbsp;<a href="#I:H">H</a>&nbsp;<a href="#I:I">I</a>&nbsp;<a 
href="#I:M">M</a>&nbsp;<a href="#I:O">O</a>&nbsp;<a href="#I:R">R</a>&nbsp;<a 
href="#I:S">S</a>&nbsp;<a href="#I:T">T</a>&nbsp;<a href="#I:U">U</a>&nbsp;<a 
href="#I:V">V</a>&nbsp;</div>
+<!-- ======= START OF BOTTOM NAVBAR ====== -->
+<div class="bottomNav"><a name="navbar.bottom">
+<!--   -->
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+<div class="skipNav"><a href="#skip.navbar.bottom" title="Skip navigation 
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+<!--   -->
+</a>
+<ul class="navList" title="Navigation">
+<li><a href="overview-summary.html">Overview</a></li>
+<li>Package</li>
+<li>Class</li>
+<li>Use</li>
+<li><a href="overview-tree.html">Tree</a></li>
+<li><a href="deprecated-list.html">Deprecated</a></li>
+<li class="navBarCell1Rev">Index</li>
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+<div>
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+  allClassesLink = document.getElementById("allclasses_navbar_bottom");
+  if(window==top) {
+    allClassesLink.style.display = "block";
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+<a name="skip.navbar.bottom">
+<!--   -->
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+<!-- ======== END OF BOTTOM NAVBAR ======= -->
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+</body>
+</html>

Added: 
incubator/taverna/site/trunk/content/javadoc/taverna-commandline/index.html
URL: 
http://svn.apache.org/viewvc/incubator/taverna/site/trunk/content/javadoc/taverna-commandline/index.html?rev=1750821&view=auto
==============================================================================
--- incubator/taverna/site/trunk/content/javadoc/taverna-commandline/index.html 
(added)
+++ incubator/taverna/site/trunk/content/javadoc/taverna-commandline/index.html 
Thu Jun 30 15:58:50 2016
@@ -0,0 +1,75 @@
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+<!-- Generated by javadoc (1.8.0_91) on Thu Jun 30 16:50:23 BST 2016 -->
+<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
+<title>Apache Taverna Command-line Tool 3.1.0-incubating API</title>
+<script type="text/javascript">
+    targetPage = "" + window.location.search;
+    if (targetPage != "" && targetPage != "undefined")
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+        targetPage = "undefined";
+    function validURL(url) {
+        try {
+            url = decodeURIComponent(url);
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+        catch (error) {
+            return false;
+        }
+        var pos = url.indexOf(".html");
+        if (pos == -1 || pos != url.length - 5)
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+        var allowNumber = false;
+        var allowSep = false;
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+                    ch.charCodeAt(0) > 127) {
+                allowNumber = true;
+                allowSep = true;
+            } else if ('0' <= ch && ch <= '9'
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+                if (!allowNumber)
+                     return false;
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+                if (!allowSep)
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+                allowNumber = false;
+                allowSep = false;
+                if (ch == '.')
+                     seenDot = true;
+                if (ch == '/' && seenDot)
+                     return false;
+            } else {
+                return false;
+            }
+        }
+        return true;
+    }
+    function loadFrames() {
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+             top.classFrame.location = top.targetPage;
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+</script>
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+<frameset cols="20%,80%" title="Documentation frame" onload="top.loadFrames()">
+<frameset rows="30%,70%" title="Left frames" onload="top.loadFrames()">
+<frame src="overview-frame.html" name="packageListFrame" title="All Packages">
+<frame src="allclasses-frame.html" name="packageFrame" title="All classes and 
interfaces (except non-static nested types)">
+</frameset>
+<frame src="overview-summary.html" name="classFrame" title="Package, class and 
interface descriptions" scrolling="yes">
+<noframes>
+<noscript>
+<div>JavaScript is disabled on your browser.</div>
+</noscript>
+<h2>Frame Alert</h2>
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this message, you are using a non-frame-capable web client. Link to <a 
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+</frameset>
+</html>

Added: 
incubator/taverna/site/trunk/content/javadoc/taverna-commandline/org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html
URL: 
http://svn.apache.org/viewvc/incubator/taverna/site/trunk/content/javadoc/taverna-commandline/org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html?rev=1750821&view=auto
==============================================================================
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incubator/taverna/site/trunk/content/javadoc/taverna-commandline/org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html
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+++ 
incubator/taverna/site/trunk/content/javadoc/taverna-commandline/org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html
 Thu Jun 30 15:58:50 2016
@@ -0,0 +1,339 @@
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+<!-- NewPage -->
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+<!-- Generated by javadoc (1.8.0_91) on Thu Jun 30 16:50:23 BST 2016 -->
+<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
+<title>CommandLineMasterPasswordProvider (Apache Taverna Command-line Tool 
3.1.0-incubating API)</title>
+<meta name="date" content="2016-06-30">
+<link rel="stylesheet" type="text/css" href="../../../../stylesheet.css" 
title="Style">
+<script type="text/javascript" src="../../../../script.js"></script>
+</head>
+<body>
+<script type="text/javascript"><!--
+    try {
+        if (location.href.indexOf('is-external=true') == -1) {
+            parent.document.title="CommandLineMasterPasswordProvider (Apache 
Taverna Command-line Tool 3.1.0-incubating API)";
+        }
+    }
+    catch(err) {
+    }
+//-->
+var methods = {"i0":10,"i1":10,"i2":10};
+var tabs = {65535:["t0","All Methods"],2:["t2","Instance 
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+var rowColor = "rowColor";
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+var activeTableTab = "activeTableTab";
+</script>
+<noscript>
+<div>JavaScript is disabled on your browser.</div>
+</noscript>
+<!-- ========= START OF TOP NAVBAR ======= -->
+<div class="topNav"><a name="navbar.top">
+<!--   -->
+</a>
+<div class="skipNav"><a href="#skip.navbar.top" title="Skip navigation 
links">Skip navigation links</a></div>
+<a name="navbar.top.firstrow">
+<!--   -->
+</a>
+<ul class="navList" title="Navigation">
+<li><a href="../../../../overview-summary.html">Overview</a></li>
+<li><a href="package-summary.html">Package</a></li>
+<li class="navBarCell1Rev">Class</li>
+<li><a href="class-use/CommandLineMasterPasswordProvider.html">Use</a></li>
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+<li><a href="../../../../deprecated-list.html">Deprecated</a></li>
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+<!-- ======== START OF CLASS DATA ======== -->
+<div class="header">
+<div class="subTitle">org.apache.taverna.commandline</div>
+<h2 title="Class CommandLineMasterPasswordProvider" class="title">Class 
CommandLineMasterPasswordProvider</h2>
+</div>
+<div class="contentContainer">
+<ul class="inheritance">
+<li><a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true";
 title="class or interface in java.lang">java.lang.Object</a></li>
+<li>
+<ul class="inheritance">
+<li>org.apache.taverna.commandline.CommandLineMasterPasswordProvider</li>
+</ul>
+</li>
+</ul>
+<div class="description">
+<ul class="blockList">
+<li class="blockList">
+<dl>
+<dt>All Implemented Interfaces:</dt>
+<dd><a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">MasterPasswordProvider</a></dd>
+</dl>
+<hr>
+<br>
+<pre>public class <span 
class="typeNameLabel">CommandLineMasterPasswordProvider</span>
+extends <a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true";
 title="class or interface in java.lang">Object</a>
+implements <a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">MasterPasswordProvider</a></pre>
+<div class="block">An implementation of <a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager"><code>MasterPasswordProvider</code></a>
 that reads Credential Manager's
+ master password from stdin (pipe or terminal) is -cmpassword option is 
present in command
+ line arguments. Otherwise it tries to read it from a special file 
password.txt in a special
+ directory specified by -cmdir option, if present.</div>
+<dl>
+<dt><span class="simpleTagLabel">Author:</span></dt>
+<dd>Alex Nenadic</dd>
+</dl>
+</li>
+</ul>
+</div>
+<div class="summary">
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+<li class="blockList">
+<!-- ======== NESTED CLASS SUMMARY ======== -->
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+<h3>Nested Class Summary</h3>
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+<li class="blockList"><a 
name="nested.classes.inherited.from.class.org.apache.taverna.security.credentialmanager.MasterPasswordProvider">
+<!--   -->
+</a>
+<h3>Nested classes/interfaces inherited from 
interface&nbsp;org.apache.taverna.security.credentialmanager.<a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">MasterPasswordProvider</a></h3>
+<code><a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.ProviderComparator.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">MasterPasswordProvider.ProviderComparator</a></code></li>
+</ul>
+</li>
+</ul>
+<!-- ======== CONSTRUCTOR SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.summary">
+<!--   -->
+</a>
+<h3>Constructor Summary</h3>
+<table class="memberSummary" border="0" cellpadding="3" cellspacing="0" 
summary="Constructor Summary table, listing constructors, and an explanation">
+<caption><span>Constructors</span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colOne" scope="col">Constructor and Description</th>
+</tr>
+<tr class="altColor">
+<td class="colOne"><code><span class="memberNameLink"><a 
href="../../../../org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html#CommandLineMasterPasswordProvider-org.apache.taverna.commandline.options.CommandLineOptions-">CommandLineMasterPasswordProvider</a></span>(<a
 
href="../../../../org/apache/taverna/commandline/options/CommandLineOptions.html"
 title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a>&nbsp;commandLineOptions)</code>&nbsp;</td>
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+<h3>Method Summary</h3>
+<table class="memberSummary" border="0" cellpadding="3" cellspacing="0" 
summary="Method Summary table, listing methods, and an explanation">
+<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span 
class="tabEnd">&nbsp;</span></span><span id="t2" class="tableTab"><span><a 
href="javascript:show(2);">Instance Methods</a></span><span 
class="tabEnd">&nbsp;</span></span><span id="t4" class="tableTab"><span><a 
href="javascript:show(8);">Concrete Methods</a></span><span 
class="tabEnd">&nbsp;</span></span></caption>
+<tr>
+<th class="colFirst" scope="col">Modifier and Type</th>
+<th class="colLast" scope="col">Method and Description</th>
+</tr>
+<tr id="i0" class="altColor">
+<td class="colFirst"><code><a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/String.html?is-external=true";
 title="class or interface in java.lang">String</a></code></td>
+<td class="colLast"><code><span class="memberNameLink"><a 
href="../../../../org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html#getMasterPassword-boolean-">getMasterPassword</a></span>(boolean&nbsp;firstTime)</code>&nbsp;</td>
+</tr>
+<tr id="i1" class="rowColor">
+<td class="colFirst"><code>int</code></td>
+<td class="colLast"><code><span class="memberNameLink"><a 
href="../../../../org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html#getProviderPriority--">getProviderPriority</a></span>()</code>&nbsp;</td>
+</tr>
+<tr id="i2" class="altColor">
+<td class="colFirst"><code>void</code></td>
+<td class="colLast"><code><span class="memberNameLink"><a 
href="../../../../org/apache/taverna/commandline/CommandLineMasterPasswordProvider.html#setMasterPassword-java.lang.String-">setMasterPassword</a></span>(<a
 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/String.html?is-external=true";
 title="class or interface in 
java.lang">String</a>&nbsp;masterPassword)</code>&nbsp;</td>
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+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Object">
+<!--   -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.<a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true";
 title="class or interface in java.lang">Object</a></h3>
+<code><a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#clone--";
 title="class or interface in java.lang">clone</a>, <a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#equals-java.lang.Object-";
 title="class or interface in java.lang">equals</a>, <a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#finalize--";
 title="class or interface in java.lang">finalize</a>, <a 
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 title="class or interface in java.lang">hashCode</a>, <a 
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 title="class or interface in java.lang">notify</a>, <a 
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java.lang">notifyAll</a>, <a 
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 title="class or interface in java.lang">toString</a>, <a 
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 title="class or interface in java.lang">wait</a>, <a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#wait-long-";
 title="class or interface in java.lang">wait</a>, <a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#wait-long-int-";
 title="class or interface in java.lang">wait</a></code></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+<div class="details">
+<ul class="blockList">
+<li class="blockList">
+<!-- ========= CONSTRUCTOR DETAIL ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.detail">
+<!--   -->
+</a>
+<h3>Constructor Detail</h3>
+<a 
name="CommandLineMasterPasswordProvider-org.apache.taverna.commandline.options.CommandLineOptions-">
+<!--   -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>CommandLineMasterPasswordProvider</h4>
+<pre>public&nbsp;CommandLineMasterPasswordProvider(<a 
href="../../../../org/apache/taverna/commandline/options/CommandLineOptions.html"
 title="interface in 
org.apache.taverna.commandline.options">CommandLineOptions</a>&nbsp;commandLineOptions)</pre>
+</li>
+</ul>
+</li>
+</ul>
+<!-- ============ METHOD DETAIL ========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.detail">
+<!--   -->
+</a>
+<h3>Method Detail</h3>
+<a name="getMasterPassword-boolean-">
+<!--   -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getMasterPassword</h4>
+<pre>public&nbsp;<a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/String.html?is-external=true";
 title="class or interface in 
java.lang">String</a>&nbsp;getMasterPassword(boolean&nbsp;firstTime)</pre>
+<dl>
+<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
+<dd><code><a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true#getMasterPassword-boolean-";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">getMasterPassword</a></code>&nbsp;in
 interface&nbsp;<code><a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">MasterPasswordProvider</a></code></dd>
+</dl>
+</li>
+</ul>
+<a name="setMasterPassword-java.lang.String-">
+<!--   -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>setMasterPassword</h4>
+<pre>public&nbsp;void&nbsp;setMasterPassword(<a 
href="http://docs.oracle.com/javase/7/docs/api/java/lang/String.html?is-external=true";
 title="class or interface in java.lang">String</a>&nbsp;masterPassword)</pre>
+<dl>
+<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
+<dd><code><a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true#setMasterPassword-java.lang.String-";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">setMasterPassword</a></code>&nbsp;in
 interface&nbsp;<code><a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">MasterPasswordProvider</a></code></dd>
+</dl>
+</li>
+</ul>
+<a name="getProviderPriority--">
+<!--   -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>getProviderPriority</h4>
+<pre>public&nbsp;int&nbsp;getProviderPriority()</pre>
+<dl>
+<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
+<dd><code><a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true#getProviderPriority--";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">getProviderPriority</a></code>&nbsp;in
 interface&nbsp;<code><a 
href="https://taverna.incubator.apache.org/javadoc/taverna-engine/org/apache/taverna/security/credentialmanager/MasterPasswordProvider.html?is-external=true";
 title="class or interface in 
org.apache.taverna.security.credentialmanager">MasterPasswordProvider</a></code></dd>
+</dl>
+</li>
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