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Merge branch 'master' of github.com:basespace/basespace-java-sdk

Conflicts:
	README.md
	javadoc/apidocs/allclasses-frame.html
	javadoc/apidocs/allclasses-noframe.html
	javadoc/apidocs/com/illumina/basespace/Analysis.html
	javadoc/apidocs/com/illumina/basespace/AuthenticationPipeline.html
	javadoc/apidocs/com/illumina/basespace/BaseSpaceConfiguration.html
	javadoc/apidocs/com/illumina/basespace/BaseSpaceEntity.html
	javadoc/apidocs/com/illumina/basespace/BaseSpaceSession.html
	javadoc/apidocs/com/illumina/basespace/BaseSpaceSessionEvent.html
	javadoc/apidocs/com/illumina/basespace/BaseSpaceSessionListener.html
	javadoc/apidocs/com/illumina/basespace/BaseSpaceSessionManager.html
	javadoc/apidocs/com/illumina/basespace/DownloadEvent.html
	javadoc/apidocs/com/illumina/basespace/DownloadListener.html
	javadoc/apidocs/com/illumina/basespace/FetchParams.html
	javadoc/apidocs/com/illumina/basespace/File.html
	javadoc/apidocs/com/illumina/basespace/ForbiddenResourceException.html
	javadoc/apidocs/com/illumina/basespace/Project.html
	javadoc/apidocs/com/illumina/basespace/Run.html
	javadoc/apidocs/com/illumina/basespace/Sample.html
	javadoc/apidocs/com/illumina/basespace/User.html
	javadoc/apidocs/com/illumina/basespace/class-use/Analysis.html
	javadoc/apidocs/com/illumina/basespace/class-use/AuthenticationPipeline.html
	javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceConfiguration.html
	javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceEntity.html
	javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceSession.html
	javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceSessionEvent.html
	javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceSessionListener.html
	javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceSessionManager.html
	javadoc/apidocs/com/illumina/basespace/class-use/DownloadEvent.html
	javadoc/apidocs/com/illumina/basespace/class-use/DownloadListener.html
	javadoc/apidocs/com/illumina/basespace/class-use/FetchParams.html
	javadoc/apidocs/com/illumina/basespace/class-use/File.html
	javadoc/apidocs/com/illumina/basespace/class-use/ForbiddenResourceException.html
	javadoc/apidocs/com/illumina/basespace/class-use/Project.html
	javadoc/apidocs/com/illumina/basespace/class-use/Run.html
	javadoc/apidocs/com/illumina/basespace/class-use/Sample.html
	javadoc/apidocs/com/illumina/basespace/class-use/User.html
	javadoc/apidocs/com/illumina/basespace/package-frame.html
	javadoc/apidocs/com/illumina/basespace/package-summary.html
	javadoc/apidocs/com/illumina/basespace/package-tree.html
	javadoc/apidocs/com/illumina/basespace/package-use.html
	javadoc/apidocs/com/illumina/basespace/test/BaseSpaceTest.html
	javadoc/apidocs/com/illumina/basespace/test/TestBaseSpaceConfiguration.html
	javadoc/apidocs/com/illumina/basespace/test/class-use/BaseSpaceTest.html
	javadoc/apidocs/com/illumina/basespace/test/class-use/TestBaseSpaceConfiguration.html
	javadoc/apidocs/com/illumina/basespace/test/package-frame.html
	javadoc/apidocs/com/illumina/basespace/test/package-summary.html
	javadoc/apidocs/com/illumina/basespace/test/package-tree.html
	javadoc/apidocs/com/illumina/basespace/test/package-use.html
	javadoc/apidocs/constant-values.html
	javadoc/apidocs/deprecated-list.html
	javadoc/apidocs/help-doc.html
	javadoc/apidocs/index-all.html
	javadoc/apidocs/index.html
	javadoc/apidocs/overview-frame.html
	javadoc/apidocs/overview-summary.html
	javadoc/apidocs/overview-tree.html
	javadoc/apidocs/serialized-form.html
	src/main/java/com/illumina/basespace/AccessDeniedException.java
	src/main/java/com/illumina/basespace/AuthCodeListener.java
	src/main/java/com/illumina/basespace/AuthenticationPipeline.java
	src/main/java/com/illumina/basespace/BaseSpaceConfiguration.java
	src/main/java/com/illumina/basespace/BaseSpaceConnectionException.java
	src/main/java/com/illumina/basespace/BaseSpaceSession.java
	src/main/java/com/illumina/basespace/BaseSpaceSessionManager.java
	src/main/java/com/illumina/basespace/Content.java
	src/main/java/com/illumina/basespace/CoverageMetaData.java
	src/main/java/com/illumina/basespace/DefaultBaseSpaceSession.java
	src/main/java/com/illumina/basespace/DownloadEvent.java
	src/main/java/com/illumina/basespace/HttpServer.java
	src/main/java/com/illumina/basespace/test/BaseSpaceTest.java
	src/main/java/com/illumina/basespace/test/TestBaseSpaceConfiguration.java
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1 parent 2bdd40c commit d2bea699fb0ff875325b8fc22adbbca50c352938 kingbd committed Dec 13, 2012
Showing with 26,201 additions and 10,879 deletions.
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  29. +371 −0 javadoc/apidocs/com/illumina/basespace/Reference.html
  30. +295 −0 javadoc/apidocs/com/illumina/basespace/ResponseStatus.html
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  32. +573 −227 javadoc/apidocs/com/illumina/basespace/Sample.html
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  43. +161 −0 javadoc/apidocs/com/illumina/basespace/class-use/AppSession.html
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  45. +115 −0 javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceConnectionException.html
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  47. +161 −0 javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceException.html
  48. +128 −183 javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceSession.html
  49. +126 −167 javadoc/apidocs/com/illumina/basespace/class-use/BaseSpaceSessionManager.html
  50. +115 −0 javadoc/apidocs/com/illumina/basespace/class-use/BasicResponse.html
  51. +153 −0 javadoc/apidocs/com/illumina/basespace/class-use/Content.html
  52. +143 −0 javadoc/apidocs/com/illumina/basespace/class-use/CoverageMetaData.html
  53. +146 −0 javadoc/apidocs/com/illumina/basespace/class-use/CoverageRecord.html
  54. +140 −183 javadoc/apidocs/com/illumina/basespace/class-use/DownloadEvent.html
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  58. +169 −0 javadoc/apidocs/com/illumina/basespace/class-use/ExtendedFileInfo.html
  59. +176 −213 javadoc/apidocs/com/illumina/basespace/class-use/FetchParams.html
  60. +235 −235 javadoc/apidocs/com/illumina/basespace/class-use/File.html
  61. +157 −0 javadoc/apidocs/com/illumina/basespace/class-use/FileFetchParams.html
  62. +115 −0 javadoc/apidocs/com/illumina/basespace/class-use/FileMetaData.html
  63. +158 −207 javadoc/apidocs/com/illumina/basespace/class-use/ForbiddenResourceException.html
  64. +153 −0 javadoc/apidocs/com/illumina/basespace/class-use/ItemListMetaData.html
  65. +167 −210 javadoc/apidocs/com/illumina/basespace/class-use/Project.html
  66. +161 −0 javadoc/apidocs/com/illumina/basespace/class-use/Reference.html
  67. +153 −0 javadoc/apidocs/com/illumina/basespace/class-use/ResponseStatus.html
  68. +167 −184 javadoc/apidocs/com/illumina/basespace/class-use/Run.html
  69. +167 −201 javadoc/apidocs/com/illumina/basespace/class-use/Sample.html
  70. +115 −0 javadoc/apidocs/com/illumina/basespace/class-use/UnauthorizedException.html
  71. +169 −217 javadoc/apidocs/com/illumina/basespace/class-use/User.html
  72. +179 −0 javadoc/apidocs/com/illumina/basespace/class-use/VariantFetchParams.ReturnFormat.html
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  76. +153 −0 javadoc/apidocs/com/illumina/basespace/class-use/VariantRecord.SampleFormat.html
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  84. +202 −210 javadoc/apidocs/help-doc.html
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  86. +21 −30 javadoc/apidocs/index.html
  87. +191 −170 javadoc/apidocs/overview-tree.html
  88. +0 −1 javadoc/apidocs/package-list
  89. BIN javadoc/apidocs/resources/background.gif
  90. BIN javadoc/apidocs/resources/tab.gif
  91. BIN javadoc/apidocs/resources/titlebar.gif
  92. BIN javadoc/apidocs/resources/titlebar_end.gif
  93. +780 −539 javadoc/apidocs/serialized-form.html
  94. +8 −6 src/main/java/com/illumina/basespace/{AuthTokenListener.java → AccessDeniedException.java}
  95. +30 −7 src/main/java/com/illumina/basespace/{AuthToken.java → AccessToken.java}
  96. +72 −0 src/main/java/com/illumina/basespace/AppResult.java
  97. +49 −0 src/main/java/com/illumina/basespace/AppSession.java
  98. +0 −30 src/main/java/com/illumina/basespace/AuthCodeListener.java
  99. +103 −0 src/main/java/com/illumina/basespace/AuthVerificationCode.java
  100. +0 −165 src/main/java/com/illumina/basespace/AuthenticationPipeline.java
  101. +24 −13 src/main/java/com/illumina/basespace/BaseSpaceConfiguration.java
  102. +20 −12 ...n/java/com/illumina/basespace/{BaseSpaceSessionListener.java → BaseSpaceConnectionException.java}
  103. +50 −2 src/main/java/com/illumina/basespace/BaseSpaceEntity.java
  104. +13 −12 src/main/java/com/illumina/basespace/{AuthCodeEvent.java → BaseSpaceException.java}
  105. +128 −16 src/main/java/com/illumina/basespace/BaseSpaceSession.java
  106. +0 −51 src/main/java/com/illumina/basespace/BaseSpaceSessionEvent.java
  107. +130 −59 src/main/java/com/illumina/basespace/BaseSpaceSessionManager.java
  108. +46 −0 src/main/java/com/illumina/basespace/BaseSpaceURLConnectionFactory.java
  109. +2 −0 src/main/java/com/illumina/basespace/BaseSpaceUtilities.java
  110. +45 −0 src/main/java/com/illumina/basespace/BasicResponse.java
  111. +14 −19 src/main/java/com/illumina/basespace/{AuthTokenEvent.java → Content.java}
  112. +17 −26 src/main/java/com/illumina/basespace/{Analysis.java → CoverageMetaData.java}
  113. +89 −0 src/main/java/com/illumina/basespace/CoverageRecord.java
  114. +2 −4 src/main/java/com/illumina/basespace/DateDeserializer.java
  115. +857 −359 src/main/java/com/illumina/basespace/DefaultBaseSpaceSession.java
  116. +855 −0 src/main/java/com/illumina/basespace/DefaultBaseSpaceSession.java.orig
  117. +22 −5 src/main/java/com/illumina/basespace/DownloadEvent.java
  118. +3 −5 src/main/java/com/illumina/basespace/{AuthorizationStatus.java → DownloadProgressListener.java}
  119. +73 −0 src/main/java/com/illumina/basespace/ExtendedFileInfo.java
  120. +23 −3 src/main/java/com/illumina/basespace/FetchParams.java
  121. +63 −1 src/main/java/com/illumina/basespace/File.java
  122. +70 −0 src/main/java/com/illumina/basespace/FileFetchParams.java
  123. +100 −0 src/main/java/com/illumina/basespace/FileMetaData.java
  124. +2 −2 src/main/java/com/illumina/basespace/ForbiddenResourceException.java
  125. +0 −217 src/main/java/com/illumina/basespace/HttpServer.java
  126. +107 −0 src/main/java/com/illumina/basespace/ItemListMetaData.java
  127. +34 −9 src/main/java/com/illumina/basespace/Project.java
  128. +78 −0 src/main/java/com/illumina/basespace/Reference.java
  129. +46 −0 src/main/java/com/illumina/basespace/ResponseStatus.java
  130. +24 −1 src/main/java/com/illumina/basespace/Run.java
  131. +147 −0 src/main/java/com/illumina/basespace/Sample.java
  132. +0 −40 src/main/java/com/illumina/basespace/SessionEvent.java
  133. +15 −0 src/main/java/com/illumina/basespace/UnauthorizedException.java
  134. +98 −0 src/main/java/com/illumina/basespace/VariantFetchParams.java
  135. +305 −0 src/main/java/com/illumina/basespace/VariantRecord.java
  136. +0 −87 src/main/java/com/illumina/basespace/test/BaseSpaceTest.java
  137. +0 −60 src/main/java/com/illumina/basespace/test/TestBaseSpaceConfiguration.java
@@ -1,72 +1,54 @@
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-<!--NewPage-->
-<HTML>
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-All Classes (BaseSpace Software Development Kit for Java 1.0-SNAPSHOT API)
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-<B>All Classes</B></FONT>
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-<TABLE BORDER="0" WIDTH="100%" SUMMARY="">
-<TR>
-<TD NOWRAP><FONT CLASS="FrameItemFont"><A HREF="com/illumina/basespace/Analysis.html" title="class in com.illumina.basespace" target="classFrame">Analysis</A>
-<BR>
-<A HREF="com/illumina/basespace/AuthenticationPipeline.html" title="class in com.illumina.basespace" target="classFrame">AuthenticationPipeline</A>
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-<A HREF="com/illumina/basespace/AuthorizationStatus.html" title="enum in com.illumina.basespace" target="classFrame">AuthorizationStatus</A>
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-<A HREF="com/illumina/basespace/BaseSpaceConfiguration.html" title="interface in com.illumina.basespace" target="classFrame"><I>BaseSpaceConfiguration</I></A>
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-<BR>
-<A HREF="com/illumina/basespace/DownloadEvent.html" title="class in com.illumina.basespace" target="classFrame">DownloadEvent</A>
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-<BR>
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-<BR>
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-<BR>
-<A HREF="com/illumina/basespace/ForbiddenResourceException.html" title="class in com.illumina.basespace" target="classFrame">ForbiddenResourceException</A>
-<BR>
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-<BR>
-<A HREF="com/illumina/basespace/Run.html" title="class in com.illumina.basespace" target="classFrame">Run</A>
-<BR>
-<A HREF="com/illumina/basespace/Sample.html" title="class in com.illumina.basespace" target="classFrame">Sample</A>
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-<BR>
-</FONT></TD>
-</TR>
-</TABLE>
-
-</BODY>
-</HTML>
+<!-- NewPage -->
+<html lang="en">
+<head>
+<!-- Generated by javadoc (version 1.7.0_09) on Thu Dec 13 11:03:01 PST 2012 -->
+<meta http-equiv="Content-Type" content="text/html" charset="UTF-8">
+<title>All Classes (BaseSpace Software Development Kit for Java 1.0-SNAPSHOT API)</title>
+<meta name="date" content="2012-12-13">
+<link rel="stylesheet" type="text/css" href="stylesheet.css" title="Style">
+</head>
+<body>
+<h1 class="bar">All Classes</h1>
+<div class="indexContainer">
+<ul>
+<li><a href="com/illumina/basespace/AccessDeniedException.html" title="class in com.illumina.basespace" target="classFrame">AccessDeniedException</a></li>
+<li><a href="com/illumina/basespace/AppResult.html" title="class in com.illumina.basespace" target="classFrame">AppResult</a></li>
+<li><a href="com/illumina/basespace/AppSession.html" title="class in com.illumina.basespace" target="classFrame">AppSession</a></li>
+<li><a href="com/illumina/basespace/BaseSpaceConfiguration.html" title="interface in com.illumina.basespace" target="classFrame"><i>BaseSpaceConfiguration</i></a></li>
+<li><a href="com/illumina/basespace/BaseSpaceConnectionException.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceConnectionException</a></li>
+<li><a href="com/illumina/basespace/BaseSpaceEntity.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceEntity</a></li>
+<li><a href="com/illumina/basespace/BaseSpaceException.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceException</a></li>
+<li><a href="com/illumina/basespace/BaseSpaceSession.html" title="interface in com.illumina.basespace" target="classFrame"><i>BaseSpaceSession</i></a></li>
+<li><a href="com/illumina/basespace/BaseSpaceSessionManager.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceSessionManager</a></li>
+<li><a href="com/illumina/basespace/BasicResponse.html" title="class in com.illumina.basespace" target="classFrame">BasicResponse</a></li>
+<li><a href="com/illumina/basespace/Content.html" title="class in com.illumina.basespace" target="classFrame">Content</a></li>
+<li><a href="com/illumina/basespace/CoverageMetaData.html" title="class in com.illumina.basespace" target="classFrame">CoverageMetaData</a></li>
+<li><a href="com/illumina/basespace/CoverageRecord.html" title="class in com.illumina.basespace" target="classFrame">CoverageRecord</a></li>
+<li><a href="com/illumina/basespace/DownloadEvent.html" title="class in com.illumina.basespace" target="classFrame">DownloadEvent</a></li>
+<li><a href="com/illumina/basespace/DownloadListener.html" title="interface in com.illumina.basespace" target="classFrame"><i>DownloadListener</i></a></li>
+<li><a href="com/illumina/basespace/DownloadProgressListener.html" title="interface in com.illumina.basespace" target="classFrame"><i>DownloadProgressListener</i></a></li>
+<li><a href="com/illumina/basespace/ExtendedFileInfo.html" title="class in com.illumina.basespace" target="classFrame">ExtendedFileInfo</a></li>
+<li><a href="com/illumina/basespace/FetchParams.html" title="class in com.illumina.basespace" target="classFrame">FetchParams</a></li>
+<li><a href="com/illumina/basespace/File.html" title="class in com.illumina.basespace" target="classFrame">File</a></li>
+<li><a href="com/illumina/basespace/FileFetchParams.html" title="class in com.illumina.basespace" target="classFrame">FileFetchParams</a></li>
+<li><a href="com/illumina/basespace/FileMetaData.html" title="class in com.illumina.basespace" target="classFrame">FileMetaData</a></li>
+<li><a href="com/illumina/basespace/ForbiddenResourceException.html" title="class in com.illumina.basespace" target="classFrame">ForbiddenResourceException</a></li>
+<li><a href="com/illumina/basespace/ItemListMetaData.html" title="class in com.illumina.basespace" target="classFrame">ItemListMetaData</a></li>
+<li><a href="com/illumina/basespace/Project.html" title="class in com.illumina.basespace" target="classFrame">Project</a></li>
+<li><a href="com/illumina/basespace/Reference.html" title="class in com.illumina.basespace" target="classFrame">Reference</a></li>
+<li><a href="com/illumina/basespace/ResponseStatus.html" title="class in com.illumina.basespace" target="classFrame">ResponseStatus</a></li>
+<li><a href="com/illumina/basespace/Run.html" title="class in com.illumina.basespace" target="classFrame">Run</a></li>
+<li><a href="com/illumina/basespace/Sample.html" title="class in com.illumina.basespace" target="classFrame">Sample</a></li>
+<li><a href="com/illumina/basespace/UnauthorizedException.html" title="class in com.illumina.basespace" target="classFrame">UnauthorizedException</a></li>
+<li><a href="com/illumina/basespace/User.html" title="class in com.illumina.basespace" target="classFrame">User</a></li>
+<li><a href="com/illumina/basespace/VariantFetchParams.html" title="class in com.illumina.basespace" target="classFrame">VariantFetchParams</a></li>
+<li><a href="com/illumina/basespace/VariantFetchParams.ReturnFormat.html" title="enum in com.illumina.basespace" target="classFrame">VariantFetchParams.ReturnFormat</a></li>
+<li><a href="com/illumina/basespace/VariantRecord.html" title="class in com.illumina.basespace" target="classFrame">VariantRecord</a></li>
+<li><a href="com/illumina/basespace/VariantRecord.AdditionalInfo.html" title="class in com.illumina.basespace" target="classFrame">VariantRecord.AdditionalInfo</a></li>
+<li><a href="com/illumina/basespace/VariantRecord.GenotypeInfo.html" title="class in com.illumina.basespace" target="classFrame">VariantRecord.GenotypeInfo</a></li>
+<li><a href="com/illumina/basespace/VariantRecord.SampleFormat.html" title="class in com.illumina.basespace" target="classFrame">VariantRecord.SampleFormat</a></li>
+</ul>
+</div>
+</body>
+</html>
@@ -0,0 +1,128 @@
+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
+<<<<<<< HEAD
+<!--NewPage-->
+<HTML>
+<HEAD>
+<!-- Generated by javadoc (build 1.6.0_31) on Thu May 31 13:40:50 PDT 2012 -->
+<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
+<TITLE>
+All Classes (BaseSpace Software Development Kit for Java 1.0-SNAPSHOT API)
+</TITLE>
+
+<META NAME="date" CONTENT="2012-05-31">
+
+<LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
+
+
+</HEAD>
+
+<BODY BGCOLOR="white">
+<FONT size="+1" CLASS="FrameHeadingFont">
+<B>All Classes</B></FONT>
+<BR>
+
+<TABLE BORDER="0" WIDTH="100%" SUMMARY="">
+<TR>
+<TD NOWRAP><FONT CLASS="FrameItemFont"><A HREF="com/illumina/basespace/Analysis.html" title="class in com.illumina.basespace" target="classFrame">Analysis</A>
+<BR>
+<A HREF="com/illumina/basespace/AuthenticationPipeline.html" title="class in com.illumina.basespace" target="classFrame">AuthenticationPipeline</A>
+<BR>
+<A HREF="com/illumina/basespace/AuthorizationStatus.html" title="enum in com.illumina.basespace" target="classFrame">AuthorizationStatus</A>
+<BR>
+<A HREF="com/illumina/basespace/BaseSpaceConfiguration.html" title="interface in com.illumina.basespace" target="classFrame"><I>BaseSpaceConfiguration</I></A>
+<BR>
+<A HREF="com/illumina/basespace/BaseSpaceEntity.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceEntity</A>
+<BR>
+<A HREF="com/illumina/basespace/BaseSpaceSession.html" title="interface in com.illumina.basespace" target="classFrame"><I>BaseSpaceSession</I></A>
+<BR>
+<A HREF="com/illumina/basespace/BaseSpaceSessionEvent.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceSessionEvent</A>
+<BR>
+<A HREF="com/illumina/basespace/BaseSpaceSessionListener.html" title="interface in com.illumina.basespace" target="classFrame"><I>BaseSpaceSessionListener</I></A>
+<BR>
+<A HREF="com/illumina/basespace/BaseSpaceSessionManager.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceSessionManager</A>
+<BR>
+<A HREF="com/illumina/basespace/test/BaseSpaceTest.html" title="class in com.illumina.basespace.test" target="classFrame">BaseSpaceTest</A>
+<BR>
+<A HREF="com/illumina/basespace/DownloadEvent.html" title="class in com.illumina.basespace" target="classFrame">DownloadEvent</A>
+<BR>
+<A HREF="com/illumina/basespace/DownloadListener.html" title="interface in com.illumina.basespace" target="classFrame"><I>DownloadListener</I></A>
+<BR>
+<A HREF="com/illumina/basespace/FetchParams.html" title="class in com.illumina.basespace" target="classFrame">FetchParams</A>
+<BR>
+<A HREF="com/illumina/basespace/File.html" title="class in com.illumina.basespace" target="classFrame">File</A>
+<BR>
+<A HREF="com/illumina/basespace/ForbiddenResourceException.html" title="class in com.illumina.basespace" target="classFrame">ForbiddenResourceException</A>
+<BR>
+<A HREF="com/illumina/basespace/Project.html" title="class in com.illumina.basespace" target="classFrame">Project</A>
+<BR>
+<A HREF="com/illumina/basespace/Run.html" title="class in com.illumina.basespace" target="classFrame">Run</A>
+<BR>
+<A HREF="com/illumina/basespace/Sample.html" title="class in com.illumina.basespace" target="classFrame">Sample</A>
+<BR>
+<A HREF="com/illumina/basespace/SessionEvent.html" title="class in com.illumina.basespace" target="classFrame">SessionEvent</A>
+<BR>
+<A HREF="com/illumina/basespace/test/TestBaseSpaceConfiguration.html" title="class in com.illumina.basespace.test" target="classFrame">TestBaseSpaceConfiguration</A>
+<BR>
+<A HREF="com/illumina/basespace/User.html" title="class in com.illumina.basespace" target="classFrame">User</A>
+<BR>
+</FONT></TD>
+</TR>
+</TABLE>
+
+</BODY>
+</HTML>
+=======
+<!-- NewPage -->
+<html lang="en">
+<head>
+<!-- Generated by javadoc (version 1.7.0_09) on Tue Nov 27 13:14:12 PST 2012 -->
+<meta http-equiv="Content-Type" content="text/html" charset="UTF-8">
+<title>All Classes (BaseSpace Software Development Kit for Java 1.0-SNAPSHOT API)</title>
+<meta name="date" content="2012-11-27">
+<link rel="stylesheet" type="text/css" href="stylesheet.css" title="Style">
+</head>
+<body>
+<h1 class="bar">All Classes</h1>
+<div class="indexContainer">
+<ul>
+<li><a href="com/illumina/basespace/AccessDeniedException.html" title="class in com.illumina.basespace" target="classFrame">AccessDeniedException</a></li>
+<li><a href="com/illumina/basespace/AppResult.html" title="class in com.illumina.basespace" target="classFrame">AppResult</a></li>
+<li><a href="com/illumina/basespace/AppSession.html" title="class in com.illumina.basespace" target="classFrame">AppSession</a></li>
+<li><a href="com/illumina/basespace/BaseSpaceConfiguration.html" title="interface in com.illumina.basespace" target="classFrame"><i>BaseSpaceConfiguration</i></a></li>
+<li><a href="com/illumina/basespace/BaseSpaceConnectionException.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceConnectionException</a></li>
+<li><a href="com/illumina/basespace/BaseSpaceEntity.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceEntity</a></li>
+<li><a href="com/illumina/basespace/BaseSpaceException.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceException</a></li>
+<li><a href="com/illumina/basespace/BaseSpaceSession.html" title="interface in com.illumina.basespace" target="classFrame"><i>BaseSpaceSession</i></a></li>
+<li><a href="com/illumina/basespace/BaseSpaceSessionManager.html" title="class in com.illumina.basespace" target="classFrame">BaseSpaceSessionManager</a></li>
+<li><a href="com/illumina/basespace/BasicResponse.html" title="class in com.illumina.basespace" target="classFrame">BasicResponse</a></li>
+<li><a href="com/illumina/basespace/Content.html" title="class in com.illumina.basespace" target="classFrame">Content</a></li>
+<li><a href="com/illumina/basespace/CoverageMetaData.html" title="class in com.illumina.basespace" target="classFrame">CoverageMetaData</a></li>
+<li><a href="com/illumina/basespace/CoverageRecord.html" title="class in com.illumina.basespace" target="classFrame">CoverageRecord</a></li>
+<li><a href="com/illumina/basespace/DownloadEvent.html" title="class in com.illumina.basespace" target="classFrame">DownloadEvent</a></li>
+<li><a href="com/illumina/basespace/DownloadListener.html" title="interface in com.illumina.basespace" target="classFrame"><i>DownloadListener</i></a></li>
+<li><a href="com/illumina/basespace/DownloadProgressListener.html" title="interface in com.illumina.basespace" target="classFrame"><i>DownloadProgressListener</i></a></li>
+<li><a href="com/illumina/basespace/ExtendedFileInfo.html" title="class in com.illumina.basespace" target="classFrame">ExtendedFileInfo</a></li>
+<li><a href="com/illumina/basespace/FetchParams.html" title="class in com.illumina.basespace" target="classFrame">FetchParams</a></li>
+<li><a href="com/illumina/basespace/File.html" title="class in com.illumina.basespace" target="classFrame">File</a></li>
+<li><a href="com/illumina/basespace/FileFetchParams.html" title="class in com.illumina.basespace" target="classFrame">FileFetchParams</a></li>
+<li><a href="com/illumina/basespace/FileMetaData.html" title="class in com.illumina.basespace" target="classFrame">FileMetaData</a></li>
+<li><a href="com/illumina/basespace/ForbiddenResourceException.html" title="class in com.illumina.basespace" target="classFrame">ForbiddenResourceException</a></li>
+<li><a href="com/illumina/basespace/ItemListMetaData.html" title="class in com.illumina.basespace" target="classFrame">ItemListMetaData</a></li>
+<li><a href="com/illumina/basespace/Project.html" title="class in com.illumina.basespace" target="classFrame">Project</a></li>
+<li><a href="com/illumina/basespace/Reference.html" title="class in com.illumina.basespace" target="classFrame">Reference</a></li>
+<li><a href="com/illumina/basespace/ResponseStatus.html" title="class in com.illumina.basespace" target="classFrame">ResponseStatus</a></li>
+<li><a href="com/illumina/basespace/Run.html" title="class in com.illumina.basespace" target="classFrame">Run</a></li>
+<li><a href="com/illumina/basespace/Sample.html" title="class in com.illumina.basespace" target="classFrame">Sample</a></li>
+<li><a href="com/illumina/basespace/UnauthorizedException.html" title="class in com.illumina.basespace" target="classFrame">UnauthorizedException</a></li>
+<li><a href="com/illumina/basespace/User.html" title="class in com.illumina.basespace" target="classFrame">User</a></li>
+<li><a href="com/illumina/basespace/VariantFetchParams.html" title="class in com.illumina.basespace" target="classFrame">VariantFetchParams</a></li>
+<li><a href="com/illumina/basespace/VariantFetchParams.ReturnFormat.html" title="enum in com.illumina.basespace" target="classFrame">VariantFetchParams.ReturnFormat</a></li>
+<li><a href="com/illumina/basespace/VariantRecord.html" title="class in com.illumina.basespace" target="classFrame">VariantRecord</a></li>
+<li><a href="com/illumina/basespace/VariantRecord.AdditionalInfo.html" title="class in com.illumina.basespace" target="classFrame">VariantRecord.AdditionalInfo</a></li>
+<li><a href="com/illumina/basespace/VariantRecord.GenotypeInfo.html" title="class in com.illumina.basespace" target="classFrame">VariantRecord.GenotypeInfo</a></li>
+<li><a href="com/illumina/basespace/VariantRecord.SampleFormat.html" title="class in com.illumina.basespace" target="classFrame">VariantRecord.SampleFormat</a></li>
+</ul>
+</div>
+</body>
+</html>
+>>>>>>> 02f66e73e2ae09813843255f33862813e03300bf
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