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calhoun.util.CheckException
Could not parse geneReport for AnalysisRun calhoun.bean.AnalysisRun@82af08[id=42022,process=callGenes,version=158,name=CP_JHB3_FINAL_ANNOTATION,sequenceGroupVersion=<id 8208>,dataGroupVersion=<null>,dateInitiated=2007-08-13 11:12:11.0,dateCompleted=2007-08-13 12:13:27.0,userJob=<id 10080414>,commandLine=/seq/annotation/prod/calhoun/bin/calhoun runXmlCommand /seq/annotation/prod/jobs/10080/10080414/params.xml --userJobId=10080414 --userJobDbAlias=production,admissibleEvidence=true,featureTracks=<3 objects>,parentRun=<null>,childRuns=<0 objects>,notes=derived from CP_JHB3_CALLGENES_155 (/home/radon00/mdp/sand/annotation/external/devcalhoun geneCaller.callGenes CP_JHB3_SINEADS_MANUAL_1 CP_JHB3_CALLREFERENCEGENES_13 CP_JHB3_CALLGENES_151 CP_JHB3_VECTORBASE_DRAFT_1 CP_JHB3_TIGR_DRAFT_0 --cleanupNames=1 --averageIdentity=0.2 --discardInFrameStops=1 --dropBadIntrons=1 --maxIntronGuideline=30000 --queryCoverage=0.2 --minGeneLengthWithoutEvidence=50 --blastRun=CP_JHB3_BLAST_NR_1 --autocallAltSplices=1 --averageIdentityForNaming=0.3 --queryCoverageForNaming=0.3 --maxFeaturesPerJob=5000 --userJobId=10043002 --userJobDbAlias=production) [notes: None],publicFlag=false,geneReport=org.hibernate.lob.SerializableClob@23925c,statistics=<0 objects>,transients=<null>]
Stack Trace:
calhoun.util.Assert.fail(Assert.java:16) calhoun.util.Assert.isTrue(Assert.java:48) calhoun.util.Assert.a(Assert.java:12) calhoun.external.core.genereport.GeneReportParser.<init>(GeneReportParser.java:32) calhoun.external.page.ReleaseBasePage.getGeneReportParser(ReleaseBasePage.java:696) calhoun.external.page.ReleaseBasePage.getReleaseProperty(ReleaseBasePage.java:765) calhoun.external.page.ReleaseBasePage.getReleaseProperty(ReleaseBasePage.java:756) calhoun.external.core.release.GenomePropertyStats.activateExternalPage(GenomePropertyStats.java:57) calhoun.web.tapestry.SessionAwareExternalService.service(SessionAwareExternalService.java:127) $IEngineService_124cfdb84d6.service($IEngineService_124cfdb84d6.java) org.apache.tapestry.services.impl.EngineServiceOuterProxy.service(EngineServiceOuterProxy.java:66) org.apache.tapestry.engine.AbstractEngine.service(AbstractEngine.java:248) org.apache.tapestry.services.impl.InvokeEngineTerminator.service(InvokeEngineTerminator.java:60) $WebRequestServicer_124cfdb84a0.service($WebRequestServicer_124cfdb84a0.java) $WebRequestServicer_124cfdb849c.service($WebRequestServicer_124cfdb849c.java) org.apache.tapestry.services.impl.WebRequestServicerPipelineBridge.service(WebRequestServicerPipelineBridge.java:56) $ServletRequestServicer_124cfdb8482.service($ServletRequestServicer_124cfdb8482.java) org.apache.tapestry.request.DecodedRequestInjector.service(DecodedRequestInjector.java:55) $ServletRequestServicerFilter_124cfdb847e.service($ServletRequestServicerFilter_124cfdb847e.java) $ServletRequestServicer_124cfdb8484.service($ServletRequestServicer_124cfdb8484.java) org.apache.tapestry.multipart.MultipartDecoderFilter.service(MultipartDecoderFilter.java:52) $ServletRequestServicerFilter_124cfdb847c.service($ServletRequestServicerFilter_124cfdb847c.java) $ServletRequestServicer_124cfdb8484.service($ServletRequestServicer_124cfdb8484.java) org.apache.tapestry.services.impl.SetupRequestEncoding.service(SetupRequestEncoding.java:53) $ServletRequestServicerFilter_124cfdb8480.service($ServletRequestServicerFilter_124cfdb8480.java) $ServletRequestServicer_124cfdb8484.service($ServletRequestServicer_124cfdb8484.java) $ServletRequestServicer_124cfdb8476.service($ServletRequestServicer_124cfdb8476.java) org.apache.tapestry.ApplicationServlet.doService(ApplicationServlet.java:123) org.apache.tapestry.ApplicationServlet.doGet(ApplicationServlet.java:79) javax.servlet.http.HttpServlet.service(HttpServlet.java:690) javax.servlet.http.HttpServlet.service(HttpServlet.java:803) org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:269) org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:188) com.planetj.servlet.filter.compression.CompressingFilter.handleDoFilter(CompressingFilter.java:210) com.planetj.servlet.filter.compression.CompressingFilter.doFilter(CompressingFilter.java:200) org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:215) org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:188) calhoun.web.util.HttpRequestLoggingFilter.doFilter(HttpRequestLoggingFilter.java:51) org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:215) org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:188) org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:210) org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:174) org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127) org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:117) org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:542) org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:108) org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:151) org.apache.jk.server.JkCoyoteHandler.invoke(JkCoyoteHandler.java:200) org.apache.jk.common.HandlerRequest.invoke(HandlerRequest.java:283) org.apache.jk.common.ChannelSocket.invoke(ChannelSocket.java:773) org.apache.jk.common.ChannelSocket.processConnection(ChannelSocket.java:703) org.apache.jk.common.ChannelSocket$SocketConnection.runIt(ChannelSocket.java:895) org.apache.tomcat.util.threads.ThreadPool$ControlRunnable.run(ThreadPool.java:685) java.lang.Thread.run(Thread.java:619)

HttpServletRequest

Headers
authType	<NULL>
characterEncoding	UTF-8
contentLength	-1
contextPath	/annotation/genome
contentType	<NULL>
cookies	JSESSIONID=231D877DD3791A6D3664A3326B8C9027
locale	en_US
method	GET
pathInfo	<NULL>
pathTranslated	<NULL>
protocol	HTTP/1.1
queryString	<NULL>
requestURI	/annotation/genome/culex_pipiens.4/GenomePropertyStats.html
scheme	http
secure	false
serverName	www.broadinstitute.org
serverPort	80
servletPath	/culex_pipiens.4/GenomePropertyStats.html
userPrincipal	<NULL>
Cache-Control	no-cache
accept	text/xml,application/xhtml+xml,text/html;q=0.9,text/plain;q=0.8,image/png,/;q=0.5
accept-charset	ISO-8859-1,utf-8;q=0.7,*;q=0.7
accept-encoding	gzip
accept-language	en-us,en;q=0.5
connection	close
cookie	JSESSIONID=231D877DD3791A6D3664A3326B8C9027
host	www.broadinstitute.org
pragma	no-cache
user-agent	CCBot/1.0 (+http://www.commoncrawl.org/bot.html)
x-cc-id	ccc04-02
Attributes
com.planetj.servlet.filter.compression.AlreadyApplied	true
org.apache.tapestry.Infrastructure	<SingletonProxy for tapestry.Infrastructure(org.apache.tapestry.services.Infrastructure)>

HttpSession

Attributes
creationTime	Sat Nov 07 20:43:45 EST 2009
id	231D877DD3791A6D3664A3326B8C9027
lastAccessedTime	Sat Nov 07 20:45:06 EST 2009
maxInactiveInterval	1800
new	false
state:externalCalhoun:download-license	calhoun.external.core.bean.DownloadLicenseState@125453f
state:externalCalhoun:release-session-map	calhoun.external.core.bean.ReleaseSessionStateMap@1e5413a

HttpServlet

servletInfo
servletName	externalCalhoun

ServletContext

Attributes
serverInfo	Apache Tomcat/5.5.23
version	2.4
javax.servlet.context.tempdir	/local/usr/util/web/apache-tomcat-5.5.23.prod/work/www/localhost/annotation_genome
org.apache.catalina.WELCOME_FILES	[Ljava.lang.String;@1f6c2a9
org.apache.catalina.jsp_classpath	/web/www/javadocs/annotation/genome/WEB-INF/classes/:/web/www/javadocs/annotation/genome/WEB-INF/lib/LavaBeans-1.0b1.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/activation.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/antlr-2.7.6.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/asm.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/biojava-1.30-jdk14.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/bsf-2.3.0.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/calhounCommon-test.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/calhounCommon.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/castor-0.9.5.2-modified-xml.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/cglib-2.1_3.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commonWeb.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-beanutils.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-codec-1.2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-collections.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-digester-1.7.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-fileupload-1.1.1.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-httpclient.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-io-1.2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-lang-2.2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/commons-logging.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/dom4j.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/ehcache-1.2.3.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/hibernate3.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/hivemind-1.1-beta-2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/hivemind-lib-1.1-beta-2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/httpunit.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jakarta-oro-2.0.6.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jakarta-regexp-1.3.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jalign.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jasper-compiler.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jasper-runtime.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/javassist.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jcommon-1.0.6.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jfreechart-1.0.3.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/js-1.6R5.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jsc.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/json_simple.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jsr173_1.0_ri.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jta.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jtidy-4aug2000r7-dev.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/junit.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jython.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/jythonLib.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/log4j-1.2.14.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/lucene-core-2.0.0.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/lucene-highlighter-2.0.0.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/mailapi.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/nekohtml.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/ognl-2.6.3.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/ojdbc14.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/org.mortbay.jetty.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/pjl-comp-filter-1.4.2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/selenium-java-client-driver.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/smtp.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/stringtemplate.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/tapestry-4.0.2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/tapestry-annotations-4.0.2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/tapestry-contrib-4.0.2.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/tar.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/trace.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/wls_stax.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/xalan.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/xercesImpl.jar:/web/www/javadocs/annotation/genome/WEB-INF/lib/xml-apis.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/shared/classes/:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/classes/:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/i18n/tomcat-i18n-en.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/i18n/tomcat-i18n-es.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/i18n/tomcat-i18n-fr.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/i18n/tomcat-i18n-ja.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/commons-el.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/jasper-compiler-jdt.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/jasper-compiler.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/jasper-runtime.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/jsp-api.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/naming-factory-dbcp.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/naming-factory.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/naming-resources.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/common/lib/servlet-api.jar:/home/radon00/annot/:/local/usr/util/web/apache-tomcat-5.5.23.prod/bin/bootstrap.jar:/local/usr/util/web/apache-tomcat-5.5.23.prod/bin/commons-logging-api.jar:/seq/annotation/java/jdk1.6.0_02/jre/lib/ext/sunjce_provider.jar:/seq/annotation/java/jdk1.6.0_02/jre/lib/ext/sunpkcs11.jar:/seq/annotation/java/jdk1.6.0_02/jre/lib/ext/dnsns.jar:/seq/annotation/java/jdk1.6.0_02/jre/lib/ext/localedata.jar
org.apache.catalina.resources	org.apache.naming.resources.ProxyDirContext@c55164
org.apache.tapestry.Registry:externalCalhoun	org.apache.hivemind.impl.RegistryImpl@1ef8f5
Initialization Parameters
build-date	November 05, 2009 14:40

tapestry.request.EnginePool

Count by Key
total count	45
es_CO	2
ja	1
ja_JP	1
es_CR	1
en_GB	4
pt_BR	2
en	4
en_US	12
el_GR	1
es_ES	1
tr	2
pt_PT	2
it	2
es_AR	3
es_MX	2
zh_CN	4
sv	1

tapestry.page.PagePool

Count by Key
total count	1010
MultiKey[release/GenomeDescriptions, el_GR, STANDARD]	1
MultiKey[release/SingleGenomeIndex, en_US, STANDARD]	2
MultiKey[release/Resources, en_US, STANDARD]	3
MultiKey[release/OrthologSearch, es_MX, STANDARD]	1
MultiKey[release/Blast, es_AR, TBDB]	1
MultiKey[release/DownloadResults, en_GB, TYPO3]	1
MultiKey[release/Home, es_MX, STANDARD]	1
MultiKey[release/AssemblyStats, zh_CN, STANDARD]	4
MultiKey[release/MultiDownloads, en_US, TBDB]	1
MultiKey[release/maps/ViewMap, en_US, NEUROSPORA]	1
MultiKey[release/Rfam, en_US, STANDARD]	3
MultiKey[release/SearchFeatures, en_US, TBDB]	4
MultiKey[release/TranscriptDetails, en_US, TBDB]	1
MultiKey[release/GeneFinding, ja_JP, STANDARD]	1
MultiKey[release/GenomeMap, en_US, STANDARD]	3
MultiKey[release/ToolsIndex, es_AR, TBDB]	1
MultiKey[release/GenomesIndex, en, TBDB]	1
MultiKey[release/OperonSearchResults, en_US, TBDB]	2
MultiKey[release/FeatureRedirect, en_US, NEUROSPORA]	1
MultiKey[release/GenomesIndex, ja, STANDARD]	1
MultiKey[release/Info, en, TYPO3]	1
MultiKey[release/Regions, en, STANDARD]	1
MultiKey[release/GeneFamilyTree, pt_BR, STANDARD]	1
MultiKey[release/Regions, ja_JP, NEUROSPORA]	1
MultiKey[release/ToolsIndex, en_US, NEUROSPORA]	3
MultiKey[release/maps/Index, en_US, TBDB]	2
MultiKey[release/News, tr, STANDARD]	1
MultiKey[release/Home, pt_BR, STANDARD]	1
MultiKey[release/Pfam, en_US, TBDB]	2
MultiKey[release/GeneStatsSummary, en_US, STANDARD]	3
MultiKey[release/Regions, pt_PT, STANDARD]	1
MultiKey[release/Blast, en_US, NEUROSPORA]	3
MultiKey[release/OrthologSearch, pt_BR, STANDARD]	1
MultiKey[release/GenomeStats, pt_PT, STANDARD]	1
MultiKey[release/Resources, pt_BR, STANDARD]	1
MultiKey[release/CategorySearchResults, en_US, TBDB]	1
MultiKey[release/News, en_US, TYPO3]	1
MultiKey[release/Rfam, pt_BR, STANDARD]	1
MultiKey[release/maps/Index, el_GR, STANDARD]	1
MultiKey[release/ToolsIndex, es_ES, STANDARD]	1
MultiKey[release/GeneStatsSummary, es_MX, STANDARD]	1
MultiKey[release/FeatureDetails, es_AR, TBDB]	1
MultiKey[release/GenomeStats, en, STANDARD]	1
MultiKey[release/Downloads, en_GB, TYPO3]	1
MultiKey[release/Links, el_GR, STANDARD]	1
MultiKey[release/GenomeMap, pt_BR, STANDARD]	1
MultiKey[release/Pfam, el_GR, STANDARD]	1
MultiKey[release/GeneIndex, en_GB, TYPO3]	1
MultiKey[release/News, es_CR, STANDARD]	1
MultiKey[release/PolymorphismDetails, en_US, STANDARD]	2
MultiKey[release/FeatureSearch, en_GB, TYPO3]	2
MultiKey[release/News, es_CO, STANDARD]	1
MultiKey[release/GenomeStats, ja_JP, NEUROSPORA]	1
MultiKey[release/Blast, es_ES, STANDARD]	1
MultiKey[release/Faq, en_US, TRANSITIONAL]	1
MultiKey[release/GeneFamilyTree, en_US, STANDARD]	1
MultiKey[release/GenomesIndex, zh_CN, STANDARD]	4
MultiKey[release/BlastOutput, en_US, TYPO3]	1
MultiKey[release/GenomeDescriptions, en_US, TBDB]	2
MultiKey[release/GenomeMap, es_MX, STANDARD]	1
MultiKey[release/FeatureDetails, en_US, NEUROSPORA]	1
MultiKey[release/Rfam, es_MX, STANDARD]	1
MultiKey[release/GeneStatsSummary, pt_BR, STANDARD]	1
MultiKey[release/Home, en_US, STANDARD]	3
MultiKey[release/TranscriptDetails, el_GR, STANDARD]	1
MultiKey[release/AnnotationEditReviewPage, es_AR, TBDB]	2
MultiKey[global/Login, en_US, TRANSITIONAL]	1
MultiKey[release/FeatureRegionHelp, en_US, TRANSITIONAL]	1
MultiKey[release/AssemblyStats, ja, STANDARD]	1
MultiKey[release/OrthologSearch, en_US, STANDARD]	2
MultiKey[release/MultiHome, ja_JP, STANDARD]	1
MultiKey[release/Fallback, en_US, TYPO3]	1
MultiKey[release/CAHome, en_US, STANDARD]	2
MultiKey[release/Resources, es_MX, STANDARD]	1
MultiKey[release/AssemblyStats, en, TBDB]	1
MultiKey[release/ToolsIndex, es_CR, STANDARD]	1
MultiKey[release/Blast, en_US, TYPO3]	1
MultiKey[release/Links, es_MX, STANDARD]	1
MultiKey[release/ToolsIndex, es_CO, STANDARD]	1
MultiKey[release/Pfam, es_MX, STANDARD]	1
MultiKey[release/AlleleDetails, en_US, NEUROSPORA]	1
MultiKey[release/Contact, ja_JP, STANDARD]	1
MultiKey[release/FeatureSearchResults, pt_PT, STANDARD]	1
MultiKey[release/Info, ja_JP, STANDARD]	1
MultiKey[release/Blast, es_CR, STANDARD]	1
MultiKey[release/Blast, es_CO, STANDARD]	1
MultiKey[release/News, es_ES, STANDARD]	1
MultiKey[release/GenomeStats, en_US, TRANSITIONAL]	1
MultiKey[release/PolymorphismDetails, en_US, TBDB]	2
MultiKey[release/GenomeStats, ja, STANDARD]	1
MultiKey[release/ReseqStrainInfo, en, TBDB]	1
MultiKey[release/Info, zh_CN, TYPO3]	1
MultiKey[release/maps/Index, es_MX, STANDARD]	1
MultiKey[release/Regions, zh_CN, STANDARD]	4
MultiKey[release/GeneStatsSummary, el_GR, STANDARD]	1
MultiKey[release/FeatureSearchResults, en, STANDARD]	1
MultiKey[release/GeneConfidence, en_US, NEUROSPORA]	1
MultiKey[release/GenomeStats, en, TBDB]	1
MultiKey[release/GeneIndex, ja_JP, STANDARD]	1
MultiKey[release/AssemblyStats, pt_PT, STANDARD]	1
MultiKey[release/FeatureRegionHelp, pt_PT, STANDARD]	1
MultiKey[release/maps/Index, pt_BR, STANDARD]	1
MultiKey[release/FeatureRedirect, en_US, TYPO3]	1
MultiKey[release/Downloads, ja_JP, STANDARD]	1
MultiKey[release/Rfam, el_GR, STANDARD]	1
MultiKey[release/GenomeDescriptions, en_US, STANDARD]	3
MultiKey[release/FeatureSearch, ja_JP, STANDARD]	1
MultiKey[release/GeneFamilyTree, en_US, TBDB]	1
MultiKey[release/Resources, el_GR, STANDARD]	1
MultiKey[release/Home, en, TRANSITIONAL]	1
MultiKey[release/AssemblyStats, en, STANDARD]	1
MultiKey[release/PhenotypeImage, en_US, NEUROSPORA]	1
MultiKey[release/OrthologSearch, en_US, TBDB]	2
MultiKey[release/Pfam, pt_BR, STANDARD]	1
MultiKey[global/CalhounException, en_US, TRANSITIONAL]	6
MultiKey[release/GenomeMap, el_GR, STANDARD]	1
MultiKey[release/Links, pt_BR, STANDARD]	1
MultiKey[release/AssemblyStats, ja_JP, NEUROSPORA]	1
MultiKey[release/GeneLocus, en_US, TBDB]	2
MultiKey[release/Fallback, en_US, NEUROSPORA]	1
MultiKey[release/MultiDownloads, en_US, STANDARD]	1
MultiKey[release/Rfam, en_US, TBDB]	2
MultiKey[release/GlobalSearch, en_US, TBDB]	6
MultiKey[release/GenomesIndex, pt_PT, STANDARD]	1
MultiKey[release/GenomesIndex, ja_JP, NEUROSPORA]	1
MultiKey[release/OrthologSearch, el_GR, STANDARD]	1
MultiKey[release/GenomeDescriptions, es_MX, STANDARD]	1
MultiKey[release/FeatureDetails, en_US, TYPO3]	1
MultiKey[release/GenomesIndex, en, STANDARD]	1
MultiKey[release/BlastOutput, en_US, NEUROSPORA]	1
MultiKey[release/argo/JWSSequenceRange, en_US, TBDB]	1
MultiKey[release/TranscriptDetails, en_US, STANDARD]	1
MultiKey[release/Home, el_GR, STANDARD]	1
MultiKey[release/GenomeMap, en_US, TBDB]	2
MultiKey[release/Regions, ja, STANDARD]	1
MultiKey[release/Blast, tr, STANDARD]	1
MultiKey[release/maps/Index, en_US, STANDARD]	3
MultiKey[release/Regions, en_US, TRANSITIONAL]	1
MultiKey[release/FeatureDensity, en_US, TBDB]	4
MultiKey[release/GenomeStats, zh_CN, STANDARD]	4
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MultiKey[release/Dotplot, en_US, TBDB]	2
MultiKey[release/Faq, en_US, TYPO3]	1
MultiKey[release/ToolsIndex, ja_JP, NEUROSPORA]	1
MultiKey[release/Regions, en_US, NEUROSPORA]	3
MultiKey[release/MultiDownloads, en_GB, TYPO3]	1
MultiKey[release/ArgoMap, en_US, STANDARD]	1
MultiKey[release/ToolsIndex, pt_PT, STANDARD]	1
MultiKey[release/GeneStatsSummary, ja_JP, STANDARD]	1
MultiKey[release/Blast, en, STANDARD]	1
MultiKey[release/News, en_US, TRANSITIONAL]	1
MultiKey[release/GenomeStats, es_ES, STANDARD]	1
MultiKey[release/MultiHome, pt_BR, STANDARD]	1
MultiKey[release/DownloadResults, en_US, TBDB]	1
MultiKey[release/News, ja, STANDARD]	1
MultiKey[release/OrthologHelp, en_US, STANDARD]	1
MultiKey[release/Info, el_GR, STANDARD]	1
MultiKey[release/Blast, ja_JP, NEUROSPORA]	1
MultiKey[release/Circular, en_US, TBDB]	2
MultiKey[release/MultiHome, es_MX, STANDARD]	1
MultiKey[release/FeatureSearch, el_GR, STANDARD]	1
MultiKey[release/Resources, ja_JP, STANDARD]	1
MultiKey[release/CASearchAnnotations, en_US, STANDARD]	1
MultiKey[release/argo/JnlpFile, en_US, NEUROSPORA]	1
MultiKey[release/AssemblyStats, en_US, TYPO3]	1
MultiKey[release/Home, ja, TYPO3]	1
MultiKey[release/FeatureRegionHelp, en_US, TYPO3]	1
MultiKey[release/FeatureRedirect, pt_PT, STANDARD]	1
MultiKey[release/Fallback, en_US, TRANSITIONAL]	1
MultiKey[release/Rfam, ja_JP, STANDARD]	1
MultiKey[release/Downloads, el_GR, STANDARD]	1
MultiKey[release/GenomesIndex, tr, STANDARD]	1
MultiKey[release/GeneIndex, el_GR, STANDARD]	1
MultiKey[release/Phenotypes, en_US, STANDARD]	1
MultiKey[release/Regions, es_AR, TBDB]	1
MultiKey[release/Chromomap, es_MX, STANDARD]	1
MultiKey[release/AssemblyStats, es_CR, STANDARD]	1
MultiKey[release/FeatureRedirect, en, STANDARD]	1
MultiKey[release/GeneFinding, en_US, STANDARD]	3
MultiKey[release/AssemblyStats, es_CO, STANDARD]	1
MultiKey[release/GenomeStats, es_AR, TBDB]	1
MultiKey[release/AssemblyStats, tr, STANDARD]	1
MultiKey[release/FeatureSearch, en_US, TBDB]	2
MultiKey[release/Circular, el_GR, STANDARD]	1
MultiKey[release/BlastOutput, zh_CN, STANDARD]	1
MultiKey[release/ReseqStrainInfo, es_AR, TBDB]	1
MultiKey[release/GeneIndex, en_US, TBDB]	2
MultiKey[release/GeneFinding, es_MX, STANDARD]	1
MultiKey[release/GenomesIndex, en_US, TYPO3]	1
MultiKey[release/Chromomap, en_US, STANDARD]	3
MultiKey[release/Downloads, en_US, TBDB]	2
MultiKey[release/Home, ja_JP, STANDARD]	1
MultiKey[release/FeatureDetails, pt_PT, STANDARD]	1
MultiKey[release/GeneDetails, en_US, STANDARD]	4
MultiKey[release/Fallback, zh_CN, STANDARD]	1
MultiKey[release/Home, zh_CN, TYPO3]	1
MultiKey[release/GenomesIndex, es_CR, STANDARD]	1
MultiKey[release/OrthologHelp, pt_BR, STANDARD]	1
MultiKey[release/GenomesIndex, es_CO, STANDARD]	1
MultiKey[release/MultiHome, en_US, STANDARD]	3
MultiKey[release/Contact, en_US, TBDB]	2
MultiKey[release/News, zh_CN, STANDARD]	4
MultiKey[release/Dotplot, el_GR, STANDARD]	1
MultiKey[release/Regions, es_ES, STANDARD]	1
MultiKey[release/GeneFinding, pt_BR, STANDARD]	1
MultiKey[release/Assembly, el_GR, STANDARD]	1
MultiKey[release/Info, en_US, TBDB]	2
MultiKey[release/DownloadResults, el_GR, STANDARD]	1
MultiKey[release/FeatureMap, en_US, TBDB]	1
MultiKey[release/GenomeStats, en_US, NEUROSPORA]	3
MultiKey[release/DotplotHelp, en_US, STANDARD]	1
MultiKey[release/Downloads, en_US, STANDARD]	3
MultiKey[release/Chromomap, en_US, TBDB]	2
MultiKey[release/Dotplot, pt_BR, STANDARD]	1
MultiKey[release/GeneIndex, en_US, STANDARD]	3
MultiKey[release/FeatureSearch, en_US, STANDARD]	3
MultiKey[release/GenomeDescriptions, ja_JP, STANDARD]	1
MultiKey[release/FeatureSearchResults, es_AR, TBDB]	1
MultiKey[release/GenomesIndex, es_ES, STANDARD]	1
MultiKey[release/DownloadResults, pt_BR, STANDARD]	1
MultiKey[release/MultiHome, en_US, TBDB]	2
MultiKey[release/Circular, es_MX, STANDARD]	1
MultiKey[release/argo/Features, en_US, STANDARD]	1
MultiKey[release/GeneDetails, en_US, TBDB]	2
MultiKey[release/AssemblyStats, en_US, NEUROSPORA]	3
MultiKey[release/Assembly, pt_BR, STANDARD]	1
MultiKey[release/GeneFinding, el_GR, STANDARD]	1
MultiKey[release/AssemblyStats, es_AR, TBDB]	1
MultiKey[release/GenomeStats, tr, STANDARD]	1
MultiKey[release/Regions, es_CO, STANDARD]	1
MultiKey[global/Home, en_US, TRANSITIONAL]	1
MultiKey[release/Assembly, es_MX, STANDARD]	1
MultiKey[release/Home, en_GB, TYPO3]	1
MultiKey[release/Regions, es_CR, STANDARD]	1
MultiKey[global/CalhounException, it, TRANSITIONAL]	1
MultiKey[release/Circular, pt_BR, STANDARD]	1
MultiKey[release/Comments, en_US, STANDARD]	1
MultiKey[release/Contact, en_US, STANDARD]	3
MultiKey[release/Blast, zh_CN, STANDARD]	4
MultiKey[release/FeatureMap, en_US, STANDARD]	2
MultiKey[release/FeatureSearchResults, en_US, NEUROSPORA]	1
MultiKey[release/JsonSequences, en_US, TBDB]	1
MultiKey[release/Info, en_US, STANDARD]	3
MultiKey[release/Regions, en_US, TYPO3]	1
MultiKey[release/Faq, en_US, NEUROSPORA]	1
MultiKey[release/CredentialRequest, en_US, NEUROSPORA]	1
MultiKey[release/Dotplot, es_MX, STANDARD]	1
MultiKey[release/ToolsIndex, zh_CN, STANDARD]	4
MultiKey[release/maps/Index, ja_JP, STANDARD]	1
MultiKey[release/Dotplot, en_US, STANDARD]	3
MultiKey[release/ToolsIndex, ja, STANDARD]	1
MultiKey[release/GeneIndex, pt_BR, STANDARD]	1
MultiKey[release/GenomeStats, en_US, TYPO3]	1
MultiKey[release/JsonAlignments, en_US, TBDB]	6
MultiKey[release/Downloads, pt_BR, STANDARD]	1
MultiKey[release/Info, es_MX, STANDARD]	1
MultiKey[release/ToolsIndex, en, TBDB]	1
MultiKey[release/GenomesIndex, es_AR, TBDB]	1
MultiKey[release/News, pt_PT, STANDARD]	1
MultiKey[release/FeatureSearch, pt_BR, STANDARD]	1
MultiKey[release/Blast, en_US, TRANSITIONAL]	1
MultiKey[release/Regions, tr, STANDARD]	1
MultiKey[release/Blast, ja, STANDARD]	1
MultiKey[release/Contact, es_MX, STANDARD]	1
MultiKey[release/GenomeStats, es_CR, STANDARD]	1
MultiKey[release/GenomeStats, es_CO, STANDARD]	1
MultiKey[contrib:SimpleTableColumnPage, en_US, STANDARD]	59
MultiKey[release/DownloadResults, en_US, STANDARD]	1
MultiKey[release/FeatureSearchResults, es_ES, STANDARD]	1
MultiKey[release/News, ja_JP, NEUROSPORA]	1
MultiKey[release/OrthologHelp, en_US, TBDB]	1
MultiKey[release/Links, ja_JP, STANDARD]	1
MultiKey[release/Pfam, ja_JP, STANDARD]	1
MultiKey[release/Assembly, en_US, STANDARD]	3
MultiKey[release/Blast, en, TBDB]	1
MultiKey[release/ArgoMap, en_US, TBDB]	1
MultiKey[release/News, en, STANDARD]	1
MultiKey[release/BlastOutput, pt_PT, STANDARD]	1
MultiKey[release/Home, en, TYPO3]	1
MultiKey[release/Chromomap, el_GR, STANDARD]	1
MultiKey[release/SearchOntologyFlat, en_US, TBDB]	1
MultiKey[release/Circular, en_US, STANDARD]	3
MultiKey[release/Contact, pt_BR, STANDARD]	1
MultiKey[release/Info, pt_BR, STANDARD]	1
MultiKey[release/GenomesIndex, en_US, NEUROSPORA]	3
MultiKey[release/FeatureSearch, es_MX, STANDARD]	1
MultiKey[release/MultiHome, el_GR, STANDARD]	1
MultiKey[release/GeneIndex, es_MX, STANDARD]	1
MultiKey[release/AssemblyStats, es_ES, STANDARD]	1
MultiKey[release/GeneFinding, en_US, TBDB]	2
MultiKey[release/argo/Tracks, en_US, STANDARD]	1
MultiKey[release/GeneDetails, el_GR, STANDARD]	1
MultiKey[release/Downloads, es_MX, STANDARD]	1

tapestry.parse.SpecificationSource

page specification count	1
page specifications	classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnPage.page
component specification count	49
component specifications	classpath:/org/apache/tapestry/link/GenericLink.jwc
	classpath:/org/apache/tapestry/link/ExternalLink.jwc
	classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnFormComponent.jwc
	classpath:/org/apache/tapestry/form/TextArea.jwc
	context:/WEB-INF/CalhounTablePages.jwc
	classpath:/org/apache/tapestry/components/Else.jwc
	classpath:/org/apache/tapestry/components/InvokeListener.jwc
	classpath:/org/apache/tapestry/valid/FieldLabel.jwc
	classpath:/org/apache/tapestry/link/DirectLink.jwc
	classpath:/org/apache/tapestry/form/PropertySelection.jwc
	classpath:/org/apache/tapestry/components/RenderBody.jwc
	classpath:/org/apache/tapestry/form/TextField.jwc
	classpath:/org/apache/tapestry/components/If.jwc
	classpath:/org/apache/tapestry/form/Radio.jwc
	classpath:/org/apache/tapestry/components/Foreach.jwc
	classpath:/org/apache/tapestry/html/Image.jwc
	classpath:/org/apache/tapestry/form/ImageSubmit.jwc
	classpath:/org/apache/tapestry/form/Option.jwc
	classpath:/org/apache/tapestry/contrib/table/components/TableRows.jwc
	classpath:/org/apache/tapestry/contrib/components/Otherwise.jwc
	classpath:/org/apache/tapestry/form/Checkbox.jwc
	classpath:/org/apache/tapestry/form/Form.jwc
	classpath:/org/apache/tapestry/html/Script.jwc
	classpath:/org/apache/tapestry/components/Insert.jwc
	classpath:/org/apache/tapestry/html/Body.jwc
	context:/WEB-INF/CalhounTableFormPages.jwc
	classpath:/org/apache/tapestry/components/Block.jwc
	classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnComponent.jwc
	classpath:/org/apache/tapestry/form/Submit.jwc
	classpath:/org/apache/tapestry/contrib/table/components/TableView.jwc
	classpath:/org/apache/tapestry/contrib/components/Choose.jwc
	classpath:/org/apache/tapestry/contrib/table/components/TableColumns.jwc
	classpath:/org/apache/tapestry/components/RenderBlock.jwc
	classpath:/org/apache/tapestry/form/Select.jwc
	classpath:/org/apache/tapestry/components/Any.jwc
	classpath:/org/apache/tapestry/components/For.jwc
	classpath:/org/apache/tapestry/html/Describe.jwc
	classpath:/org/apache/tapestry/form/DatePicker.jwc
	classpath:/org/apache/tapestry/html/Shell.jwc
	classpath:/org/apache/tapestry/contrib/table/components/TableValues.jwc
	classpath:/org/apache/tapestry/form/LinkSubmit.jwc
	classpath:/org/apache/tapestry/contrib/components/When.jwc
	classpath:/org/apache/tapestry/components/Delegator.jwc
	classpath:/org/apache/tapestry/form/Hidden.jwc
	classpath:/org/apache/tapestry/form/RadioGroup.jwc
	classpath:/org/apache/tapestry/html/ExceptionDisplay.jwc
	classpath:/org/apache/tapestry/html/RequestDisplay.jwc
	context:/WEB-INF/ObjectTextArea.jwc
	context:/WEB-INF/CalhounTable.jwc

tapestry.enhance.ComponentConstructorFactory

enhanced class count	220
enhanced classes	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/TraSHList.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.JsonCall pageSpecification=false specificationLocation=context:/WEB-INF/JsonCall.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FrameSelector pageSpecification=false specificationLocation=context:/WEB-INF/FrameSelector.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/MultiDownloads.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.AjaxCaller pageSpecification=false specificationLocation=context:/WEB-INF/AjaxCaller.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneDetails.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.inserted.SimpleTableColumnComponent pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnComponent.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.ElseBean pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/Else.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.TablePages pageSpecification=false specificationLocation=context:/WEB-INF/CalhounTablePages.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/FeatureSearchResults.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneLocus.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.StatsMapTable pageSpecification=false specificationLocation=context:/WEB-INF/StatsMapTable.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/ReseqStrainInfo.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.Insert pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/Insert.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/BlastOutput.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.html.ExceptionDisplay pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/html/ExceptionDisplay.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.link.DirectLink pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/link/DirectLink.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.ObjectTextArea pageSpecification=false specificationLocation=context:/WEB-INF/ObjectTextArea.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Resources.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.GeneLink pageSpecification=false specificationLocation=context:/WEB-INF/GeneLink.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.RadioGroup pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/RadioGroup.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.Table pageSpecification=false specificationLocation=context:/WEB-INF/CalhounTable.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.components.When pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/components/Otherwise.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/CASearchAnnotations.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/DownloadResults.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.Foreach pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/Foreach.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.GeneDetailsRow pageSpecification=false specificationLocation=context:/WEB-INF/GeneDetailsRow.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.PubLink pageSpecification=false specificationLocation=context:/WEB-INF/PubLink.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/ProteinStructureViewer.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.AssemblyFeatureCounts pageSpecification=false specificationLocation=context:/WEB-INF/AssemblyFeatureCounts.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneIndex.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.JavaScriptInitialization pageSpecification=false specificationLocation=context:/WEB-INF/JavaScriptInitialization.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.PolymorphicSiteDisplay pageSpecification=false specificationLocation=context:/WEB-INF/PolymorphicSiteDisplay.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.web.component.DirectUrlGenerator pageSpecification=false specificationLocation=context:/WEB-INF/DirectUrlGenerator.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FeatureLink pageSpecification=false specificationLocation=context:/WEB-INF/FeatureLink.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/SingleGenomeIndex.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.IfBean pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/If.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Blast.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.UserAdminForm pageSpecification=false specificationLocation=context:/WEB-INF/UserAdminForm.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.StatisticsTable pageSpecification=false specificationLocation=context:/WEB-INF/StatisticsTable.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.Toolbar pageSpecification=false specificationLocation=context:/WEB-INF/Toolbar.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.TableRows pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/table/components/TableRows.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/AnnotationEditReviewPage.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/JsonChromomapAlignments.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.web.component.ContextStylesheet pageSpecification=false specificationLocation=context:/WEB-INF/ContextStylesheet.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.TranscriptImage pageSpecification=false specificationLocation=context:/WEB-INF/TranscriptImage.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.LinkSubmit pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/LinkSubmit.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.SaveIcon pageSpecification=false specificationLocation=context:/WEB-INF/SaveIcon.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.PropertySelection pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/PropertySelection.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.valid.FieldLabel pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/valid/FieldLabel.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.GeneTextField pageSpecification=false specificationLocation=context:/WEB-INF/GeneTextField.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.ContextImageInput pageSpecification=false specificationLocation=context:/WEB-INF/ContextImageInput.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.NewWindowIcon pageSpecification=false specificationLocation=context:/WEB-INF/NewWindowIcon.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.TermLink pageSpecification=false specificationLocation=context:/WEB-INF/TermLink.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/TextSearchHelp.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.Submit pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/Submit.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.DatePicker pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/DatePicker.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.CALink pageSpecification=false specificationLocation=context:/WEB-INF/CALink.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Faq.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.GeneLocus pageSpecification=false specificationLocation=context:/WEB-INF/GeneLocus.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Chromomap.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/FeatureDensity.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/CAHome.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.AnnotationEditForm pageSpecification=false specificationLocation=context:/WEB-INF/AnnotationEditForm.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/AlleleDetails.page allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/global/Home.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.Hidden pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/Hidden.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/FeatureSearch.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.TextArea pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/TextArea.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.InvokeListener pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/InvokeListener.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.HelpWindow pageSpecification=false specificationLocation=context:/WEB-INF/HelpWindow.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.html.Image pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/html/Image.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/PhenotypeImage.page allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/JsonAlignments.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/FeatureRedirect.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.InsertReleaseProperty pageSpecification=false specificationLocation=context:/WEB-INF/InsertReleaseProperty.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.link.GenericLink pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/link/GenericLink.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.ResourceMenu pageSpecification=false specificationLocation=context:/WEB-INF/ResourceMenu.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.Any pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/Any.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.ImageSubmit pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/ImageSubmit.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/ArgoMap.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.ForBean pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/For.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/UserAdmin.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.ContextImage pageSpecification=false specificationLocation=context:/WEB-INF/ContextImage.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/QueryCounts.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/global/CalhounException.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/OperonSearchResults.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.html.Body pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/html/Body.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.html.Script pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/html/Script.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/FeatureDetails.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FormatTabDelimitedFile pageSpecification=false specificationLocation=context:/WEB-INF/FormatTabDelimitedFile.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneDetailsByBioSequence.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.SequenceDisplay pageSpecification=false specificationLocation=context:/WEB-INF/SequenceDisplay.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.TranscriptDisplay pageSpecification=false specificationLocation=context:/WEB-INF/TranscriptDisplay.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.CollapsibleTableSection pageSpecification=false specificationLocation=context:/WEB-INF/CollapsibleTableSection.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Pfam.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/OrthologHelp.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Fallback.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GenomesIndex.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.html.Describe pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/html/Describe.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.NavMenu pageSpecification=false specificationLocation=context:/WEB-INF/NavMenu.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Assembly.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.EditIcon pageSpecification=false specificationLocation=context:/WEB-INF/EditIcon.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/CredentialRequest.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FeatureWiki pageSpecification=false specificationLocation=context:/WEB-INF/FeatureWiki.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.html.Shell pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/html/Shell.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/JsonSequences.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/CategorySearchResults.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.SearchParameterEditor pageSpecification=false specificationLocation=context:/WEB-INF/SearchParameterEditor.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/OrthologSearch.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/FeatureMap.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FeatureBrowserControls pageSpecification=false specificationLocation=context:/WEB-INF/FeatureBrowserControls.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/argo/Sequence.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.Typo3 pageSpecification=false specificationLocation=context:/WEB-INF/Typo3.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.RegionActionForm pageSpecification=false specificationLocation=context:/WEB-INF/RegionActionForm.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/AssemblyStats.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FeatureOverlapLinks pageSpecification=false specificationLocation=context:/WEB-INF/FeatureOverlapLinks.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.DynamicDownloadLink pageSpecification=false specificationLocation=context:/WEB-INF/DynamicDownloadLink.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.IfResourceEnabled pageSpecification=false specificationLocation=context:/WEB-INF/IfResourceEnabled.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/JsonChromomapAssemblies.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.IfPageEnabled pageSpecification=false specificationLocation=context:/WEB-INF/IfPageEnabled.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.RenderBlock pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/RenderBlock.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.ReleaseAssetImage pageSpecification=false specificationLocation=context:/WEB-INF/ReleaseAssetImage.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.Option pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/Option.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/JsonTracks.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.web.component.ContextScript pageSpecification=false specificationLocation=context:/WEB-INF/ContextScript.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.ReleaseAssetLink pageSpecification=false specificationLocation=context:/WEB-INF/ReleaseAssetLink.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.SearchParameterGroup pageSpecification=false specificationLocation=context:/WEB-INF/SearchParameterGroup.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.TableColumns pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/table/components/TableColumns.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GlobalSearch.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.CommonStylesheets pageSpecification=false specificationLocation=context:/WEB-INF/CommonStylesheets.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.DateRangeSelector pageSpecification=false specificationLocation=context:/WEB-INF/DateRangeSelector.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Circular.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.web.component.InsertJson pageSpecification=false specificationLocation=context:/WEB-INF/InsertJson.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GenomePropertyStats.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneStatsSummary.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.SearchForm pageSpecification=false specificationLocation=context:/WEB-INF/SearchForm.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.Substitute pageSpecification=false specificationLocation=context:/WEB-INF/Substitute.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Phenotypes.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.Typo3 pageSpecification=false specificationLocation=context:/WEB-INF/Typo3.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneConfidence.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnPage.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.DownloadEntry pageSpecification=false specificationLocation=context:/WEB-INF/DownloadEntry.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.RenderBody pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/RenderBody.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.StaticExonTable pageSpecification=false specificationLocation=context:/WEB-INF/StaticExonTable.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.BindingExternalLink pageSpecification=false specificationLocation=context:/WEB-INF/BindingExternalLink.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FeatureDisplayOptionsWithHelp pageSpecification=false specificationLocation=context:/WEB-INF/FeatureDisplayOptionsWithHelp.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneFinding.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/argo/JnlpFile.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.StatsTableLegend pageSpecification=false specificationLocation=context:/WEB-INF/StatsTableLegend.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneStatsDetail.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.ConditionalWrapper pageSpecification=false specificationLocation=context:/WEB-INF/ConditionalWrapper.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Info.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.components.When pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/components/When.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FeatureLinks pageSpecification=false specificationLocation=context:/WEB-INF/FeatureLinks.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.Swatch pageSpecification=false specificationLocation=context:/WEB-INF/Swatch.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/SearchFeatures.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/global/Login.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/MultiHome.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.DeleteIcon pageSpecification=false specificationLocation=context:/WEB-INF/DeleteIcon.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/argo/Tracks.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Comments.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.TableView pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/table/components/TableView.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.DisplayValidationError pageSpecification=false specificationLocation=context:/WEB-INF/DisplayValidationError.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/SearchOntologyFlat.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.link.ExternalLink pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/link/ExternalLink.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Dotplot.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/TranscriptDetails.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.InsertWithLinks pageSpecification=false specificationLocation=context:/WEB-INF/InsertWithLinks.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.Checkbox pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/Checkbox.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.IfPagePermitted pageSpecification=false specificationLocation=context:/WEB-INF/IfPagePermitted.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.TextField pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/TextField.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/AnnotationSearch.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.TableHeaderBlock pageSpecification=false specificationLocation=context:/WEB-INF/TableHeaderBlock.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.components.Choose pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/components/Choose.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/FeatureRegionHelp.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FeatureActionForm pageSpecification=false specificationLocation=context:/WEB-INF/FeatureActionForm.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/DotplotHelp.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.AlignmentDisplay pageSpecification=false specificationLocation=context:/WEB-INF/AlignmentDisplay.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.SearchResultsTable pageSpecification=false specificationLocation=context:/WEB-INF/SearchResultsTable.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/RetrieveGenes.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Contact.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Regions.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Rfam.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.Border pageSpecification=false specificationLocation=context:/WEB-INF/Border.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.TableValues pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/table/components/TableValues.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.html.RequestDisplay pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/html/RequestDisplay.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=calhoun.external.component.UndeleteIcon pageSpecification=false specificationLocation=context:/WEB-INF/UndeleteIcon.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.AssemblyRegionSelection pageSpecification=false specificationLocation=context:/WEB-INF/AssemblyRegionSelection.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GenomeStats.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.AnnotationEditReviewForm pageSpecification=false specificationLocation=context:/WEB-INF/AnnotationEditReviewForm.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.Radio pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/Radio.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.HelpComponent pageSpecification=false specificationLocation=context:/WEB-INF/HelpComponent.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.Delegator pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/Delegator.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.components.Block pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/components/Block.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.inserted.SimpleTableColumnFormComponent pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnFormComponent.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.HotSpotImage pageSpecification=false specificationLocation=context:/WEB-INF/HotSpotImage.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/maps/ViewMap.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/PolymorphismDetails.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/News.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Links.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/argo/JWSSequenceRange.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.CommonStylesheets pageSpecification=false specificationLocation=context:/WEB-INF/CommonStylesheets.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Downloads.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=org.apache.tapestry.contrib.table.components.TableFormPages pageSpecification=false specificationLocation=context:/WEB-INF/CalhounTableFormPages.jwc allowBody=false allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Sitemap.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GenomeDescriptions.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.Navigation pageSpecification=false specificationLocation=context:/WEB-INF/Navigation.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/ToolsIndex.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/argo/Features.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.AnnotationSummary pageSpecification=false specificationLocation=context:/WEB-INF/AnnotationSummary.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.FeatureDisplayOptions pageSpecification=false specificationLocation=context:/WEB-INF/FeatureDisplayOptions.jwc allowBody=false allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.Form pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/Form.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/maps/Index.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=calhoun.external.component.Breadcrumbs pageSpecification=false specificationLocation=context:/WEB-INF/Breadcrumbs.jwc allowBody=true allowInformalParameter=false]
	ComponentSpecification[componentClassName=org.apache.tapestry.form.Select pageSpecification=false specificationLocation=classpath:/org/apache/tapestry/form/Select.jwc allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GenomeMap.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/GeneFamilyTree.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/OrthologSearchResults.page allowBody=true allowInformalParameter=true]
	ComponentSpecification[componentClassName=null pageSpecification=true specificationLocation=context:/WEB-INF/release/Home.page allowBody=true allowInformalParameter=true]

tapestry.parse.TemplateSource

Parsed template token counts
parsed templates	12
total template tokens	285
total template characters	1488
context:/WEB-INF/CalhounTable.html	35
context:/WEB-INF/CalhounTablePages.html	44
classpath:/org/apache/tapestry/contrib/table/components/TableColumns.html	10
classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnFormComponent.html	24
classpath:/org/apache/tapestry/html/ExceptionDisplay.html	36
context:/WEB-INF/CalhounTableFormPages.html	52
classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnPage.html	7
classpath:/org/apache/tapestry/contrib/table/components/inserted/SimpleTableColumnComponent.html	24
classpath:/org/apache/tapestry/html/RequestDisplay.html	23
classpath:/org/apache/tapestry/contrib/table/components/TableValues.html	10
classpath:/org/apache/tapestry/contrib/table/components/TableView.html	8
classpath:/org/apache/tapestry/contrib/table/components/TableRows.html	12

tapestry.ognl.ExpressionCache

cached expression count	1232
cached expressions	release.allAssemblies
	blastParameters.gapped
	previousGene
	@org.apache.commons.lang.StringUtils@join(addedSynonyms, ', ')
	mapResource.label
	rowCount
	'description'.equals(editMode.editTextField)
	currentHit
	helpImage
	currentAssembly.id
	canMapCurrentAssembly
	firstPageContext
	currentFaq.question
	userInstitution
	currentInfo
	expandIcon
	comment
	curImage
	currentSilo.label
	pImg.comments
	pageFooter
	feature.findXrefBySource('tbdbOperonPage').externalDbUrl
	showDetailsIcon
	pdbXrefIdMap.size > 1
	statsList
	curObservation
	mailSent
	currentAnnotationEdit.Id
	listedAnnotation
	beans.buttonRenderer
	allLevels.size
	0
	7
	nothingChecked
	currentInVitro == null ? '' : currentInVitro
	components.outline2.index > (categories.size()-1)/2
	levelIndex
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/tstrBallStick.jpg\',\'displayTypeHelp5\')'
	currentTopic.anchor
	contentWrapperId!=null
	getStatsMap(components.assemblyLoop2.value)['exonGCPercent']
	resources.citation
	geneDownloadTypes.size()+1-components.dlHeadersGene.index
	'Your Institution Here'
	pdbXrefs
	headerDelegate
	components.assemblyLoop.value.id
	!(resources.overrideLegend.equals(''))
	allLevels.size + 1
	contentWrapperId
	currentGene
	statsMap.containsKey('numBpCompared') and statsMap['numBpCompared']!='0'
	blastParameters.program == null
	columnClass
	current.name
	emptyImage
	'javascript:toggleDisplay(\''+currentHit.hitId+'\',false)'
	'YourEmail@YourInstitution.org'
	components.changedTranscripts.value.id
	listeners.doOverlappingFeatures
	numberTranslator
	currentXref.source.description
	'editPubmedAbstract' + currentAnnotationEdit.Id
	resources.genomeDescriptionText
	currentHeader
	validationDelegate.hasErrors
	components.termHelpLoop.value.name
	'release/FeatureRedirect'
	currentTranscript
	blastParameters.sequences.size > 1
	page.title == 'Global Search'
	components.observations.value.value.size()
	exception
	tableColumnRenderer
	xrefs
	listeners.doSearch
	asmLevelsJSArray
	currentGeneName
	getNestedComponent('$Border.navigation.typo3QuickSearch')
	currentCurationFlag.description
	currentTypeIndex
	isOperon
	height
	valueRendererOverrides
	description
	ajaxListeners.getUpdateRange
	components.changedTranscripts.value.productName neq null ? components.changedTranscripts.value.productName : '[unnamed product]'
	getHmmerHit().family.id
	getFastaSequences({gene}, @calhoun.bean.SequenceGeneratorType@RAW)
	listeners.doSearch
	percentIdentity
	listeners.collapseSection
	'editTerm' + currentAnnotationEdit.Id
	blastParameters.evalue
	listeners.gotoRawOutput
	currentAssemblyIndex
	currentPropertyLink
	{ currentAllele.id, gene.id }
	queryTypes.asList()
	getDbUrl()
	urlRewriter.rewriteUrl('${url.stanford}/cgi-bin/repository/repository.pl')
	'evidenceCode' + currentAnnotationEdit.Id
	matrixModel
	{help.text, help.min, false}
	canSeePrivate()
	resources.multiHomeTopImage
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/fstrAmino.jpg\',\'displayTypeHelp1\')'
	page.getFilteredXrefs({'TB_IN_VIVO_TRASH'},null)
	newsIcon
	activeSites
	curAspectId != 'None'
	beans.evenOdd.next
	currentXref.imageURL
	pubmedUrl
	searchBean.queryDescription != null
	'>'+proteinHeader+'\n'+formattedProteinSequence
	gappedModel
	featureActionNames
	exon
	listeners.displayOntologyDetails
	components.annotPublication.value
	localRuler
	hasAnnotation
	nameChanged
	'http:[^\\s]+'
	fileSize
	listeners.doLocalCDSBlast
	components.header
	observationMap.entrySet()
	initialChromomapState
	name
	geneCitationMap.keySet()
	seqTargetAsFrameSegment
	newSymbol
	locus
	drawingStartAtBase
	currentHsp
	addedPublications.length
	currentStatKey
	listeners.gotoChromomap
	blastDatabases.get(selectedDatabaseIndex).description
	changedTranscripts
	tracks
	@calhoun.external.core.release.OrthologSearch@EXCLUDE
	listeners.incrementSiloIndex
	searchParameter.updatesParameters
	image.height
	rulerClickPoint
	broadLogo
	gene.length
	listeners.columnSelected
	createdDateString
	categories
	'release/GeneDetails'
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/tstrWire.jpg\',\'displayTypeHelp5\')'
	currentNews.headline
	alignmentTabData
	downloadParameter != null
	'oldValue' + currentAnnotationEdit.Id
	currentFaq
	page.headerDelegate
	mapRenderer
	genes
	resources.pageEnabledDotplot.enabled ? listeners.showHitsOnDotplot : null
	tableClass
	trackRole
	currentDisplayProperty
	initialDotplotState
	currentNews.content
	curOptionLabel
	canEditCurAnnotation() and not isEditingAnnotation()
	header!=null
	participant.firstName
	theUrl == null
	textSearchField
	components.citation.value.term.id
	@org.apache.commons.lang.WordUtils@capitalize(curObservationType)
	currentLinkDescription
	element
	{sequenceValidator}
	listeners.doFeatureMap
	prepopulatedText
	searchReferenceId
	currentInfo.formattedReferenceString
	geneFamilyId != null
	currentAnnotationEdit.value
	category
	currentXref.label
	components.databases.index
	currentIndex==0
	page.encodedSelfURL.contains('genome.tbdb.org')
	annotation.status == 'promoted'
	statsMap
	hasPromotedCitations
	'pubmedYear' + currentAnnotationEdit.id
	formObj
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/tstrWire.jpg\',viewLine, \'displayTypeHelp5\')'
	(functionalCitations.size() > 0)\|\|(inclusiveOperons.size() > 0)
	{featureId}
	linkCategories
	pdbXrefModel
	urlRewriter.rewriteUrl('${url.stanford}/expressionConnection.shtml')
	page.getFilteredXrefs({'TARGET'},null).size() > 0
	ontologies
	curPhenotype
	{frameSegment.frame.globalId,frameSegment.start,frameSegment.stop,selectedRoleString,params.blastScore,params.blastRank}
	listeners.acceptLicense
	getFilteredXrefs({'tbdb_corr_catalog'},null)
	currentStatistic.glossaryEntry.description
	{blastParameters,selectedQueryIndex}
	blastParameters.sequences.size > 1 ? 'margin-left:0.25in' : ''
	selectedQueryIndex
	displayCounts
	inclusiveOperons
	hasUncategorizedCitations(gene)
	currentLinkCategory
	currentCategoryFaqs
	(getAssemblyStatistic(currentAssembly,'geneCount')!=null)&&(!(getAssemblyStatistic(currentAssembly,'geneCount').getValue().startsWith('0')))
	currentAllele
	currentXref.imageURL==null
	currentTranscript.curationFlags
	links
	components.countBlock
	getStatsMap(components.assemblyLoop1.value)['cdsPercentCov']
	userComments
	geneTextQuery
	operonBrowserUrl
	listeners.gotoGenomeMap
	allele.phenotypes
	targetColumn
	blastParameters.numAlignments
	warning
	gene.sequence.linkageGroup.name
	locus+(geneVersion != null?'.'+geneVersion:'')
	family.scoreCutoff
	currentFaq.anchor
	listeners.doArgo
	{help.excludeList, help.includeList, false}
	type
	'summary-'+currentHit.hitId
	isEditingNewComment() and listedAnnotation.id eq annotation.id
	'radio' + components.asmLoop.index
	statsAssemblies
	resources.assemblyNews
	request
	getAnnotatedAssemblyIds()
	showResults
	currentTarget.id
	exon.stop
	@org.apache.commons.lang.StringUtils@join(removedSynonyms, ', ')
	components.linkBlock.getParameter('targetId')
	mapResource.unplacedMarkers.equals('')
	pageContentOverride
	release.primaryAssembly.organismFullName
	currentDisplayProperty.label
	@org.apache.commons.lang.WordUtils@capitalize(curRow.key)
	resources.newsItems
	currentAnnotationEdit.oldValue
	feature.transcripts
	argoApplet.buildURL()
	components.sourceTranscripts.index != 0
	'noBorder'
	getProteinLength(gene)
	'BlastX'.equals(trackRole.name)
	currentFeatureLink
	blastDatabases.size()>1
	params.frameSegment.start
	countMap[currentAssemblyId]
	{ transcript.evidenceFeature.id }
	plasmidStatsHeadingList
	'geneId' + currentAnnotationEdit.id
	dotplotListener != null
	currentTrackUri
	listeners.gotoRfamSite
	editorType=='boolean'
	footerBlock!=null
	release.formattedFullName
	hasActiveSites
	canAdminUsers() \|\| (page.userLoggedIn && participant.userName.equals(page.userInfo.userName))
	page.userInfo.userName == null \|\| page.userInfo.userName == 'tbdbPublicUser'
	addedPublications neq null and addedPublications.length eq 1
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/tstrSpace.jpg\',\'displayTypeHelp5\')'
	getValue(currentColumn,currentRow)
	buildLocationString(gene)
	pendingCitationsUrl
	currentRow.familyId
	'release/FeatureDetails'
	parameterId
	searchParameterGroup.showTextFields
	sortImage
	systemPropertiesRenderer
	pImg.title
	exon.strand
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/fstrAmino.jpg\',viewAmino, \'displayTypeHelp1\')'
	columnMap[curColName].visible
	tableModel
	! last
	getSummaryCount(currentAssembly.id,selectedQueryIndex)
	'GeneFinding.html#' + anchorsByFaq[currentFaq]
	'single'
	(showDeleted \|\| showPrivate) && existsPrivate() ? cssClass : 'pheno'
	sequenceRuler
	params
	linkageGroupIndex
	listeners.doLocalProteinBlast
	isAutocalledGene() && isCsvOrFastaFormat() && type == 'feature'
	components.targetCell
	synonymsChanged
	selectedAssemblies
	currentRowIndex
	annotation != null and additionalTranscripts.size() > 0
	canDeleteAnnotations()
	comment.user.userName
	orthoSearchService
	components.annotPublication.index>0
	'javascript:toggleDisplayAllForQuery(\''+selectedQuerySequence.header+'\', false)'
	hasPendingCitations
	inclusiveOperons.size() > 0
	listeners.doPrevWindow
	isInForm
	showNormalPages
	page.canEditCurAnnotation() and not editMode.isEditing()
	searchBean
	symbolChanged
	geneCount
	components.citationLoop.value.term.name
	currentCategoryAnchor
	isEditingNewAnnotation()
	'inTuberculist' + currentAnnotationEdit.id
	family.description
	href
	showTextFields
	isPolymorphicSite
	page.currentXref.externalDbUrl
	columnHeaderPairs
	transcript.curationFlags.size() > 0
	getStatsMap(components.assemblyLoop2.value)['interGeneGCPercent']
	{getRangeValidator(false)}
	'pubmedTitle' + currentAnnotationEdit.Id
	validationDelegate
	components.ontologyLoop.value.description
	resources.infoLinks
	resources.licenseText.value.length()>0
	page.getFilteredXrefs({'TBSGC'},null).size() > 0
	{featureId,currentOverlappingTrackRole.toString()}
	featureId
	feature.findXrefBySource('EXPRN_SCOPE') neq null
	releaseDirectory
	propertyName.equals(editMode.editTextField)
	licenseState.acceptedLicense
	components.types.value
	operonSearchService
	displayAssemblies.{id}
	sequenceTranslator
	page.getFilteredXrefs({'TBGOOG'},null).size() > 0
	page.getFilteredXrefs({'TB_IN_VITRO_TRASH'},null).size() > 0
	currentHit.hsps
	page.breadcrumbPages
	genomeStatsKeysList
	gene.locus
	'editField(\'' + currentAnnotationEdit.Id + '\');displayAbstractEDIT(\'' + currentAnnotationEdit.Id + '\');'
	allele.identifier
	listeners.doSequence
	!columnMap[curColName].isAllowedFor(format) \|\| columnMap[curColName].isRequiredFor(format)
	buildUrl(components.tracksLink)
	changedTranscripts neq null
	comment.text
	currentDownloadType.filenameSuffix
	ajaxListeners.pollStatus
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/sstrRocket.jpg\', \'displayTypeHelp4\')'
	accession
	components.assemblyLoop.value.organismShortName
	currentTextId
	resources.mapList
	canEditStats
	currentSilo
	resources.multiHomeImage
	exception.message
	getAssemblyStatistic(currentAssembly,'sequencedBy').getValue()
	components.ontologyLoop.value.name
	'Page '+currentPage+' of '+pageCount
	currentOverlappingTrackRole
	titleBarBlock != null
	rowHeaderPairs
	columnSelectedParameters
	!columnMap[curColName].optionMap[curOptionLabel].isAllowedFor(format)
	@org.apache.commons.lang.StringUtils@join(gene.transcripts.{productName neq null ? productName : '[unnamed product]'}.iterator(), ',')
	't'+currentIndex
	roleMap
	fwdPageContext
	feature.stop
	currentAllele.identifier
	@org.apache.commons.lang.StringUtils@join(annotationGene.transcripts.{productName neq null ? productName : '[unnamed product]'}.iterator(), ',')
	frameSegment.start
	urlRewriter.rewriteUrl('${url.stanford}/tbdbPages/login.shtml?resume='+page.encodedSelfURL)
	geneCitationMap.get(curAspectId)
	currentAnnotationEdit.getJournalArticle().getArticleAuthors()
	defaultTopBar
	currentInVivo == null ? '' : currentInVivo
	hasBlastHistory
	gene.id
	feature.findXrefBySource('EXPRN_SCOPE').externalDbUrl
	resources.mapIndexText
	faqsByCategory[currentCategory]
	filterModel
	listedAnnotation.status.equals('curated') ? 'Curated' : ''
	curPhenotype.viability
	'hider'+helpId
	url
	annotationGene.synonymCommaList
	removedSynonyms neq null
	hitLength
	currentCategory.value
	assets.image
	featureSearchService
	transcript.id
	buildLocationString(annotationGene)
	displayPage
	columnMap.asList()
	curObservationType
	feature.findXrefBySource('EXPRN_CNX') neq null
	'geneLocus' + currentAnnotationEdit.id
	currentColumn
	editorType=='date'
	family.library
	transcript.evidenceFeature != null
	submitListener
	'select'+label
	components.numGenesBlock
	exception.stackTrace
	{ currentAllele.id, currentGene.id }
	'Your Name Here'
	canCurateListedAnnotation() and not isEditing and not (state.annotation != null and state.annotation.id eq listedAnnotation.id)
	currentInfo.formattedCorrespondenceString
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/tstrStick.jpg\',\'displayTypeHelp5\')'
	objectExportDescriptor != null
	jsonTranscriptStructure
	isEnzymeCode(current.assignedId)
	searchBean.queryDescription
	'pubmedAbstract' + currentAnnotationEdit.Id
	'javascript:help_show('+components.ontologyLoop.index+');'
	{searchBean,'ortholog'}
	topLevelBlock != null
	resources.fundingAgency.value.equals('NIAID')
	resources.adhocMapDownloads
	displayName
	alignmentInfo
	bestHsp.length
	'detail-'+currentHit.hitId
	currentAnnotationEdit
	participant.lastName
	renderBody
	'pubmedId' + currentAnnotationEdit.Id
	mapAssetResource
	form.name
	currentXref
	columnSpan > 2 ? columnSpan : 2
	'#'+currentCategoryAnchor
	'pubmedAuthors' + currentAnnotationEdit.Id
	displayProperties
	columnMap[curColName].optionMap[curOptionLabel].label
	cluster.genes.size()+cluster.masterGenes.size()
	searchState
	!hasAnnotation && !isAnnotation
	columnHeaderPairs[currentColumn][0]
	currentAdhocAsset.description
	page.requestCycle.listenerParameters
	segments
	new java.lang.Double(averageIdentity*100).intValue()
	linkageGroupModel
	resultString
	bestHsp.bitScore
	hotSpotUrlSource
	currentAnnotationEdit.getJournalArticle().getExpressionId()
	curObservation.ontologyTerm.measurable && curObservation.measurements.size() > 0
	valueClass
	page.getFilteredXrefs({'TARGET'},null)
	'javascript:toggleOptions(\'' + curColName + '\', this.checked)'
	getFilteredXrefs({'tbdb_scatterplot'},null)
	submitAction
	currentCurationFlag
	uncategorizedCitations(annotation.annotationGene)
	start
	bestHsp.evalue
	nextGene.id
	{help.includeList, help.excludeList, true}
	currentRow.familyName
	listeners.displayGenes
	hierarchyMap
	currentPageTitle
	getStatsMap(components.assemblyLoop1.value)['interGeneLengthMean']
	returnURL
	components.regionActionForm.id
	!(isLoggedOn())
	(assemblyStatsHeadingList+','+plasmidStatsHeadingList)
	pfamEntriesForLetter
	annotationEditSource
	showLabels
	annotationGene != null
	validator
	currentFaq.releasePropertyName
	block
	allLevels
	listeners.expandSection
	warning != null
	components.featureActionForm.id
	initialSortOrder
	displayTopBar
	exceptions
	currentOverlappingTrackRole.displayName
	firstTranscriptStart
	currentLink.shortLabel.replaceAll(' ',' ')
	page.getFilteredXrefs({'2DPAGE'},null)
	jsonAssemblyStructure
	columnMap[curColName].optionMap.asList()
	defaultTableSessionStateManager
	assemblyHasChromosomes
	getStatistic(currentStatKey)!=null
	feature.findXrefBySource('tbdb_scatterplot').externalDbUrl
	components.mapList.index
	adapterFactory.getRenderableAdaptor(property.value)
	canSeePhenotype() && showPhenotype()
	currentAssemblyId
	showRange
	countMap.keySet()
	'javascript:setAll(1)'
	jsonString
	transcript.evidenceFeature.name !=null
	components.transcripts.value
	observations
	'.zip'
	exception.exceptionClassName
	{ alleleId, geneId }
	@org.apache.commons.lang.StringUtils@join(addedTerms.{ term.name }.iterator(), ', ')
	'javascript:toggleDisplay(\''+currentHit.hitId+'\',true)'
	currentTargetGeneDescription
	validationDelegate.firstError
	currentAnnotationEdit.getJournalArticle().getArticleJournal()
	geneDownloadTypes.size() > 0
	referencedOntology
	hasVisibleParameters
	frameSegment.stop
	allowGeneSearch
	getAssemblyStatistic(currentAssembly,'sequencedBy').getValue().contains('Broad')
	genomeStatsHeaderList
	tableRow
	resources.infoTopics
	'tr'
	startFileUrl
	annotation != null or canEditAnnotations()
	silosByCategory.entrySet()
	controller != null and controller.state.failureMessage != null
	'Your comments here.'
	referencedOntologies.get(referencedOntology)
	'annotationProperty' + currentAnnotationEdit.Id
	lowercaseTranslator
	currentGene != null
	curObservation.ontologyTerm.searchName
	components.publication.value
	getFastaSequences(gene.transcripts, @calhoun.bean.SequenceGeneratorType@CDS)
	citation.pubMedId neq null
	format
	family.name
	transcript.length
	userName
	epitopes
	fileDate
	drawingStopAtBase
	params.frameSegment
	password
	parameters
	annotCitationMap.keySet()
	page.getFilteredXrefs({'TB_IN_VITRO_TRASH'},null)
	listeners.doGeneSearch
	{'$id'}
	cssClass
	'javascript:deselect(' + levelIndex + ')'
	components.alleleLinkBlock
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/3Dcomposition.jpg\',viewCompo, \'displayTypeHelp6\')'
	listeners.gotoRegion
	columnMap[curColName].optionMap[curOptionLabel].visible
	'toggleDisplay(\''+currentHit.hitId+'\',showDetail);'
	searchService
	reportStatusRenderer
	tableIndex
	feature.findXrefBySource('tbdb_scatterplot') neq null
	trackRoleOverlaps.asList()
	operon.name
	listeners.searchGenes
	xrefs.size()>0
	transcripts.iterator().next().name
	searchParameterGroup.showRange
	trackRoleOverlaps.size() > 0
	@calhoun.external.core.release.OrthologSearch@INCLUDE
	lastPageContext
	citationsChanged
	components.searchForm.searchBean.getParameter(@calhoun.external.search.OrthologSearchService@ASM_COUNT_FIELD).value
	resources.viewMapText
	currentAnnotationEdit.inTuberculist && !isGeneDetailsPage()
	selectionModel
	gene.geneVersion != null
	@calhoun.bean.Aspect@fromName(curAspectId).displayName
	gene.name
	userRequestedID
	transcript.exons
	trackRoleOverlaps.get(currentOverlappingTrackRole)
	canSeeCurrentComment()
	citation.publication
	transcript.start
	listeners.handleSequenceRulerClick
	getFilteredXrefs({'EXPRN_SCOPE'},null)
	'inline-help'+helpId
	assemblyStatsKeyList
	assemblyStatsHeadingList
	currentTargetSequenceDescription
	pImg.comments != null
	argoCookie
	curPhenotype.name neq curPhenotype.conditions.toString()
	currentFeature.family.id
	baseUrl
	functionalCitations
	600
	genomeCount
	{cluster.genes.{id}}
	!condBack
	promotedCitationsUrl
	referencedOntologies.size() > 0
	blastParameters.numDescriptions
	currentAnnotationEdit.getJournalArticle().getArticleTitle()
	components.annotCitation.value
	request.getSession(false) != null
	currentIndex
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/tstrSpace.jpg\',viewSpace, \'displayTypeHelp5\')'
	curRow.value.entrySet()
	oldName
	resources.overrideLegend
	page.components.ajaxCall
	{frameSegment.frame.globalId,frameSegment.start,frameSegment.stop}
	{annotation.sourceGene.id, annotation.id}
	pageSize
	image
	downloadTypesForSequence.size()+1-components.dlHeadersAssembly.index
	isSorted
	components.targetRef
	startPageParams
	(all!=null&&isEnzymeCode(all[0].assignedId))
	help.getHierarchyNameString(help.exampleFrameSegment)
	getAssemblyStatistic(currentAssembly,'sequencedBy')!=null
	useSingleOption()
	header
	featureAction
	selectionStart
	400
	@java.lang.String@format('%10.1f',{score}.toArray())
	bestHsp.numIdentities
	currentAdhocAsset.filename
	separator
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/sstrCartoon.jpg\',viewCartoon, \'displayTypeHelp3\')'
	mapListener
	'basic'
	'global/argo/Bootstrap'
	featureRole.displayName
	summaryColumnPairs
	displayPageContext
	sequence.group.narrow()[0].organismShortName + ': ' +(#seqName = sequence.group.narrow()[0].sequenceLevel.toString(), #seqName == 'Genome' ? '' : #seqName +' '+sequence.groupOrder+': ') + start+'-'+stop+' '+strand
	listenerParams
	components.nameRendererBlock
	page.releasePage && page.allowResourceEditing
	getStatsMap(components.assemblyLoop2.value)['cdsGCPercent']
	regionActionNames
	nextGene != null
	{'AutocalledGene',help.exampleFrameSegment, #{'Text Search':'kinase'}}
	headerBlock!=null
	current
	tableColumn
	pdbLinkURL
	blastDatabases
	listeners.gotoPfamSite
	curRow
	getGeneCount(components.assemblyLoop.value,components.termLoop.value)
	'text'+label
	page.includeGoogleTracking
	imageAsset
	useLocusLink
	countsByAssembly
	selectedQuerySequence.header
	buildUrl(components.featuresLink)
	geneDownloadTypes
	canEditAnnotations() and not isEditingComment()
	currentNews.date
	dnaSequences
	currentGene.id
	resequencingEnabled
	components.genes.value
	tableRowsIterator
	validatorMap
	page.getFilteredXrefs({'TB_EPITOPES'},null)
	exon.length
	components.bioSourceLinkBlock
	currentAnnotationEdit.getJournalArticle() != null
	components.ontologyLoop.index == 0
	querySeq.gi
	property.name
	insertStringAt(curSegment.retrieveRawSequence(), '\n', 100)
	tuberculistIcon
	annotation eq null
	maxExpected
	allele.phenotypes.size() > 0
	page.currentXref.label
	getStatsMap(components.assemblyLoop2.value)['intronGCPercent']
	rfamEntries
	'explain('+ explain +');'
	''
	editable
	gene.id
	components.citationLoop.value.term.assignedId
	currentDownloadType
	urlRewriter.rewriteUrl('${url.stanford}/geneExpressionScope.shtml')
	{assemblySearchBean,'feature'}
	getAssemblyStatistic(currentAssembly,'assemblyQuality').getValue().equals('Finished')
	assemblySearchBean
	currentNews
	pageHeader != null
	components.publication.index>0
	currentAnnotationEdit.getJournalArticle().getArticleYear()
	resources.projectDescription
	page.release.featureTrackRoles
	components.clusterBlock
	components.mapList.value.label
	isMultiple
	{featureId,featureTrackRole.toString()}
	transcript
	isOperon()
	headerBlock
	addedPublications neq null and addedPublications.length gt 1
	release.formattedShortName
	userEmail
	canEditCurAnnotation() and not editMode.isEditing()
	canViewCollaboratorDownloads()
	resources.fundingAgency.value.equals("NIAID")
	uncategorizedCitations(gene)
	{'Feature Type','Name','Text Search'}
	{feature.id, getFeatureTrackRole()}
	currentPropertyValue neq null and !currentPropertyValue.equals('')
	feature.findXrefBySource('tbdb_corr_catalog') neq null
	'JsonArray'+levelIndex
	jsonFeaturesStructure
	all
	editorType=='region'
	hasUncategorizedCitations(gene) or ( annotation neq null and hasUncategorizedCitations(annotation.annotationGene) )
	page.getFilteredXrefs({'TB_IN_VIVO_TRASH'},null).size() > 0
	condCurrent
	{curRow.key, components.observations.value.key}
	lastTranscriptStop
	'usemap'
	compressionSuffix
	annotationGene.name
	resources.capAboutProject
	altLabel
	canCurateAnnotationEdit() && !isGeneDetailsPage()
	page.getFilteredXrefs({'2DPAGE'},null).size() > 0
	message
	resultsFilter
	help.includeListNames
	state.editMode.comment != null and comment.id eq state.editMode.comment.id
	asmDestiny[curAssembly]
	currentTopic.answer
	annotation != null
	components.genes.value.getName()
	currentAnnotationEdit.Id + 'E'
	currentLabel
	{ curImage.id }
	score
	regionAction
	selectedDatabaseIndex
	displayAssemblies
	participant.email neq null
	collapseIcon
	currentAdhocAsset
	!showIntrons
	annotationGene.description
	getStatsMap(components.assemblyLoop1.value)['geneCount']
	curColName + '_g' + optionIndex
	params.selectedTracks[trackRole]
	inclusiveOperons != null
	{gene.id}
	params.blastScore
	gene
	hasPolymorphisms
	searchParameter.value
	!resources.multiHomeTopImage.enabled
	image != null
	participant
	components.citation.value.evidenceCodeEnum
	components.assemblyLoop1.value.organismShortName
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/3Dcharge.jpg\',\'displayTypeHelp8\')'
	curPhenotype.name
	currentInfo.formattedTargetString
	mapResource.rejectedMarkers.equals('')
	collaborators
	geneHistory
	evalueModel
	curColName
	jnlpParameters
	currentAssembly
	transcript.splicedLength
	searchParameter.label
	currentPropertyValue
	startPageName
	showUncuratedOnly
	dotplotListener
	listeners.goToProteinStructure
	currentAnnotationEdit.getJournalArticle().getArticleId()
	observationTypes
	{@calhoun.external.search.OrthologSearchService@TEXT_SEARCH_FIELD}
	geneFamilyId
	pageResource.content
	page.browserTitle
	backPageContext
	selectedBlastResults.hits.size() > 0
	currentCategory
	components.peptide.value
	components.citation.value
	{'AutocalledGene',help.firstAssembly, #{'Text Search':'+histidine -kinase'}}
	'Faq.html#' + anchorsByFaq[currentFaq]
	src
	components.annotCitation.value.term.name
	null
	'GenomeDescriptions.html#'+currentAssembly.id
	feature.findXrefBySource('PDB_ACCESSION') neq null
	getHtmlFragmentFromClasspath('tbdbMenuPublic.html')
	sequences
	true
	genes.size
	getTransient('textMatchFields')
	visibleAlleles.size() > 0
	{@calhoun.external.search.OrthologSearchService@UNAMBIGUOUS_FIELD}
	globalSearchUrl
	gene.sequence.linkageGroup!=null
	canEditComment()
	hideDetailsIcon
	'title' + levelIndex
	buildDate
	selectedHits
	searchParameterGroup.showLabels
	listeners.selectAssembly
	useHmmrLink
	currentLocus
	last
	''+components.ontologyLoop.index
	page.listeners.gotoLogin
	components.termHeaderLoop.value.name
	annotation.id
	{ operon.id }
	feature.findXrefBySource('tbdb_corr_catalog').externalDbUrl
	currentLink.longLabel
	level
	observationMap.entrySet()
	optionIndex
	{components.assemblyLoop.value.id,components.termLoop.value.id}
	isEditingAnnotation()
	components.alleles.index > 0
	thumbnailMap.size() > 0
	currentCategoryLinks
	isGeneDetailsPage()
	isCurrentFaqOK
	getFastaSequences(gene.transcripts, @calhoun.bean.SequenceGeneratorType@TRANSLATE)
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/3Dcomposition.jpg\',\'displayTypeHelp6\')'
	(genomeStatsKeysList+','+assemblyStatsKeyList+','+plasmidStatsKeyList)
	collapsed
	curImage.title
	selectionStop
	listeners.doBlast
	pageContentOverride == null
	@calhoun.web.util.JsonUtil@toJsonString(@calhoun.external.page.RegionSearchPage@buildRegionHash(getCurRegions(levelIndex).values()))
	curAssembly.organismShortName
	activator
	components.familyBlock
	hitTextSearchLimit
	pageList
	page.getFilteredXrefs({'TB_EPITOPES'},null).size() > 0
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/tstrStick.jpg\',viewStick, \'displayTypeHelp5\')'
	resources.capCuration
	message!=null
	page.releasePage && displayNavigation
	components.sourceTranscripts.index == 0
	'javascript:toggleDisplayAllForQuery(\''+selectedQuerySequence.header+'\', true)'
	{currentDownloadType}
	'>'+cdsHeader+'\n'+formattedCds
	id
	{currentAssembly.id}
	isGene
	activeCommunityAnnotations.{id}
	totalCount
	alignmentInfo.size() > 0
	listener
	currentAssembly.organismShortName
	searchBean.getParameter(currentLabel)
	supercontigDiagram
	gene.transcripts
	resources.pageEnabledChromomap.enabled ? listeners.showHitsOnChromomap : null
	'<h1>'+title+'</h1>'
	#{ 'form': components.downloadForm }
	feature.findXrefBySource('EXPRN_CNX').externalDbUrl
	{ currentFeature.id }
	trackRole.displayName
	annotation != null ? gene.transcripts.size()*2 : gene.transcripts.size()
	request.getSession(false)
	resources.externalLinks
	curAssembly
	'http://www.ncbi.nlm.nih.gov/sites/entrez?db=PubMed&cmd=search&term=' + citation.pubMedId
	levelIndex==0 ? 'regions-expandingbox' : 'regions-box'
	(showDeleted \|\| showPrivate) && existsPrivate()
	-1
	columnRendererOverrides
	otherFileMap
	currentPage
	confidenceAssemblies.size() > 0
	editorType=='number'
	transcript.productName ? transcript.productName : '[unnamed product]'
	searchParameter.label=='Text Search'
	strand
	currentTopic.question
	getFilteredXrefs({'TbExpression'},null).size() > 0
	components.operons.value
	thumbnailImage
	{required}
	not isEditingAnnotation() and annotation neq null
	getTransient('textScore')
	gene.locus
	annotationGene.symbol
	nextGene
	curSegment
	listeners.showIntrons
	columnSorted
	pageHeader
	40
	headingList
	'javascript:multiOptions(\'BL\',\'Local BLAST with Protein Sequence\|'+localProteinBlastURL+'\',\'Local BLAST with Coding Sequence\|'+localCDSBlastURL+'\',\'NCBI BLAST with Protein Sequence\|javascript:document.forms.ncbi_blast_protein.submit()\',\'NCBI BLAST with Coding Sequence\|javascript:document.forms.ncbi_blast_cds.submit()\');'
	getStatsMap(components.assemblyLoop1.value)['exonCount']
	previousGene.id
	getTerms(components.ontologyLoop.value)
	!release.isMultiAssemblyRelease()
	currentTranscript.curationFlags.size()> 0
	transcript.evidenceFeature.name
	components.changedTranscripts.index neq 0
	columnMap[curColName].optionMap.size() > 1
	tableColumnIterator
	templateTag
	observations.size() == 0 && curObservationType neq @calhoun.bean.PhenoOntologyTerm@PHYSIOLOGY_TYPE
	{'Locus','Submitter\'s Last Name','Status','Created after', 'Created before'}
	30
	listener!=null
	currentPdbXrefId
	'pubmedIsoAbbrev' + currentAnnotationEdit.id
	image.width
	components.assemblyLoop2.value.organismShortName
	queryTypes[components.types.value]
	resources.adhocSupplementaryDownloads
	currentLink.url
	jmolHome
	!condFwd
	getStatsMap(components.assemblyLoop2.value)['geneGCPercent']
	currentPdbXref
	indicatorImage
	help.min
	editorType=='string'
	'http://bioinfo.townsend.yale.edu/embed/embed_public_results.jsp?gene=' + gene.locus
	frameSegment
	currentTopic
	currentTargetType=='transcript'
	@calhoun.external.util.WebUtils@toMultiLine(transcript.translate(), 100)
	help.text
	exon.start
	currentDownloadType.dataExists(release,currentAssembly)
	exception.properties
	cluster.id
	queryStatusId
	hasEpitopes
	jsonChromomapAlignments
	columnModel
	!collapsed
	currentEditTranscript!=null
	listedAnnotation.user.userName
	!page.userLoggedIn
	genomeMapState
	state.editMode
	featureMapImage
	'inTuberculist' + currentAnnotationEdit
	jsonAlignments
	transcriptsChanged
	transcriptMode
	components.annotCitation.value.term.id
	'Info.html#t'+currentIndex
	bestHsp.numPositives
	treeData
	userName
	userPhone
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/3Dcharge.jpg\',viewChar, \'displayTypeHelp8\')'
	columnMap[curColName].checked
	currentAnnotationEdit.ontologyTerm != null
	components.observations.value.key
	index
	curPhenotype.username
	labels
	width
	currentTrack
	gene.symbol
	currentFeatureLinkLabel
	urlRewriter.rewriteUrl('${url.stanford}/publication.shtml?q=*&perpage=100')
	feature.findXrefBySource('tbdbOperonPage') neq null
	currentLink
	help.getHierarchyNameString(help.firstAssembly)
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/tstrBallStick.jpg\',viewBallStick, \'displayTypeHelp5\')'
	'javascript:help_hide('+helpId+');'
	page.formattedTitle
	oldSymbol
	transcript.stop
	current.assignedId
	blastParameters.filter
	strandModel
	components.databases.value.description
	curAssemblyId
	{null}
	@org.apache.commons.lang.StringUtils@join(gene.synonyms.iterator(), ',')
	annotCitationMap.get(curAspectId)
	curObservationType eq @calhoun.bean.PhenoOntologyTerm@PHYSIOLOGY_TYPE
	(!(locked)&&canEditGlossary)
	participant.organization
	renderBody
	hasUncategorizedCitations(gene)
	jnlpUrl
	rowHeader
	currentAnnotationEdit.getJournalArticle().getArticleAbstract()
	components.citation.value.term.name
	page.newElementId()
	initialSortColumn
	'query' + (selectedQueryIndex - -1)
	className
	page.getFilteredXrefs({'TBLIST'},null)
	mailError
	newName
	imageClass
	googleChartURL
	getCollaboratorEmailNamePart()
	resources.licenseText.value
	jsonPolymorphismsStructure
	addedTerms neq null
	searchParameter.model.entryLength
	familyDescription
	geneFamily.description
	page.getFilteredXrefs({'TBGOOG'},null)
	resources.adhocUnplacedReadsDownloads
	trace
	blastParameters.matrix
	tableModel.pageCount > 1
	{getRangeValidator(true)}
	listeners.retrieveAlignment
	listeners.apply
	getStatsMap(components.assemblyLoop2.value)['scaffoldGCPercent']
	blastParameters.program
	tableValueRenderer
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/sstrRocket.jpg\',viewRocket, \'displayTypeHelp4\')'
	{ transcript.id }
	previousGene != null
	polymorphisms
	gene.curationFlags.size()>0
	((!(locked))&&canEditStats)
	currentCategory.key
	downloadIcon
	asmDestiny.keySet()
	rowHeaderPairs[currentRow][0]
	traSHKeys
	(assemblyStatsKeyList+','+plasmidStatsKeyList)
	hasAnnotation && !isAnnotation
	annotations
	getFilteredXrefs({'EXPRN_CNX'},null)
	currentAnnotationEdit.inTuberculist
	currentPropertyLink==null
	current.id
	globalFrameId
	page.currentXref
	annotationGene
	blastXRankSelectionModel
	false
	displayingSequence
	pageFooter != null
	currentTargetType=='seq'
	listeners.updateParameters
	getRangeTranslator(false)
	components.annotCitation.value.evidenceCodeEnum
	page.listeners.framesByText
	listeners.gotoDotplot
	synonymCommaList
	blastParameters.sequences
	referencedOntologies.keySet()
	page.userInfo.userName
	help.excludeListNames
	params.blastRank
	retrieveAlignmentParams
	columnMap[curColName].optionMap[curOptionLabel].checked
	mapResource.unplacedMarkers
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/fstrRainbow.jpg\',\'displayTypeHelp2\')'
	currentAnnotationEdit.Id + 'V'
	selectedRegion
	'td'+levelIndex
	queryTypes[blastParameters.program]
	addedSynonyms neq null
	fieldSize
	container
	getCollaboratorEmailAddressPart()
	transcript.translate().length()
	customHeaderBlock.block
	'editTerm' + currentAnnotationEdit.id
	!isGeneDetailsPage()
	components.featureLinkBlock
	! isLicenseNecessary()
	curStyle
	listeners.doNextWindow
	page.releasePage
	currentLink.targetPage
	familyName
	selectedAssemblyId == null \|\| selectedAssemblyId == currentAssembly.id
	currentFaq.answer
	pubmedUrl!=null
	new calhoun.web.util.OrderedMapSelectionModel(components.searchForm.searchBean.getParameter(@calhoun.external.search.OrthologSearchService@ASM_COUNT_FIELD).model.map)
	newElementId()
	sequenceUri
	canEditCurAnnotation() and not isEditing
	current.nReferencesAsString
	gene.name
	title
	currentAnnotationEdit.property
	trackRoleColor
	visibleAlleles
	objectId
	geneId
	'javascript:checkColumn(\'' + curColName + '\', this.checked)'
	length
	editorType=='map'
	currentXref.externalDbUrl
	querySeq.description
	'handleDisplayTypeSelect(\'' + jmolHome + '/images/fstrRainbow.jpg\',viewRainbow, \'displayTypeHelp2\')'
	rewriteUrl(currentSilo.navigationUrl)
	isEst
	isHmmerHit && currentDisplayProperty.label == 'Family Name'
	annotations.size() > 0
	'javascript:setAll(0)'
	@calhoun.external.core.release.OrthologSearch@DONT_CARE
	curAspectId
	fileImage
	components.tableHeaderBlock
	components.outline1.index <= (categories.size()-1)/2
	currentRow.geneCount
	listedAnnotation.comments
	hasAnnotation?2:1
	'handleDisplayTypeMouseOver(\'' + jmolHome + '/images/sstrCartoon.jpg\',\'displayTypeHelp3\')'
	"outputtable"
	'javascript:setAll(2)'
	altText
	confidenceAssemblies
	getStatistic(currentStatKey).getFormattedValue()
	formatModel
	'expressionId' + currentAnnotationEdit.Id
	page.getFilteredXrefs({'TBLIST'},null).size() > 0
	family.accession
	listeners.changePage
	selectedAssemblyId
	gene.geneVersion
	components.linkBlock
	'annotationValue' + currentAnnotationEdit.Id
	hasOtherFiles
	''+queryStart+'-'+queryStop
	downloadTypesForSequence
	validators
	new org.apache.tapestry.valid.ValidationDelegate()
	symbol
	getAssemblyStatistic(currentAssembly,'assemblyQuality').getValue().equals('Draft')
	searchField
	property
	plasmidStatsKeyList
	page.getFilteredXrefs({'TBSGC'},null)
	geneHistory!=null
	frameSegment.strand
	{searchBean,'operon'}
	thumbnailMap.keySet()
	{'BlastX',help.exampleFrameSegment, #{'Min Score':1000}}
	params.frameSegment.stop
	getRangeTranslator(true)
	stop
	currentGene.alleles.size() > 0 && visibleAlleles.size() == 0
	feature.start
	propertyValue
	valueMap[label]
	components.termHelpLoop.value.definition
	'#'+mapName
	(#seqName = sequence.group.narrow()[0].sequenceLevel.toString(), #seqName == 'Genome' ? '' : #seqName +' '+sequence.groupOrder+': ') + start+'-'+stop+' '+strand
	summaryRowPairs
	showTextField
	'release/argo/JnlpFile'
	currentLink.label
	imageId
	(genomeStatsHeaderList+','+assemblyStatsHeadingList+','+plasmidStatsHeadingList)
	{'AutocalledGene',help.firstAssembly, #{'Text Search':'symbol:cyc*'}}
	thumbnailImage != null
	feature.name
	name == null ? type+' tRNA' : name
	#{ 'form': components.editForm }
	allele.alleleType
	feature.findXrefBySource('tbdbOperonPage') != null
	(locked&&statsExistForAssembly)
	getStatistic(currentStatKey).statisticFeatures!=null&&getStatistic(currentStatKey).statisticFeatures.size()>0
	currentURL
	canEditCurAnnotation()
	anchorsByFaq[currentFaq]
	'explain('+ explain +',\''+ theUrl +'\');'
	listeners.doFeatureAction
	defaultFormat
	currentRow
	page.releasePage && page.allowResourceEditing && !page.isProductionServer
	currentGene.locus
	gene
	context
	buildUrl(components.sequenceLink)
	filename
	annotation neq null and listedAnnotation eq annotation ? 'active-annotation' : ''
	resources.organismList
	currentAnnotationEdit.evidenceCode
	page.allowsLogin
	toolOptionsImage
	resources.displayTable.equals('Y')
	canEditGlossary

tapestry.asset.ResourceDigestSource

resource count	4
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org/apache/tapestry/form/Form.js	557f2081d45a7528f898e7e384717596
/org/apache/tapestry/form/Form.js	557f2081d45a7528f898e7e384717596
/org/apache/tapestry/contrib/table/components/inserted/arrow-down.gif	ab00df32feea5108c392adfef7f4c6ab

tapestry.script.ScriptSource

parsed script count	2
parsed scripts	context:/WEB-INF/release/DownloadResults.script
	context:/WEB-INF/release/GeneDetails.script

JVM System Properties

broad.servlet.logDir	/usr/util/web/apache-tomcat-5.5.23.prod/logs
calhoun.typo3.enable	true
catalina.base	/usr/util/web/apache-tomcat-5.5.23.prod
catalina.home	/usr/util/web/apache-tomcat-5.5.23.prod
catalina.useNaming	true
common.loader	${catalina.home}/common/classes,${catalina.home}/common/i18n/.jar,${catalina.home}/common/endorsed/.jar,${catalina.home}/common/lib/*.jar
file.encoding	ANSI_X3.4-1968
file.encoding.pkg	sun.io
file.separator	/
hibernate.bytecode.use_reflection_optimizer	true
java.awt.graphicsenv	sun.awt.X11GraphicsEnvironment
java.awt.headless	true
java.awt.printerjob	sun.print.PSPrinterJob
java.class.path	/usr/util/web/apache-tomcat-5.5.23.prod/bin/bootstrap.jar
	/usr/util/web/apache-tomcat-5.5.23.prod/bin/commons-logging-api.jar
java.class.version	50.0
java.endorsed.dirs	/usr/util/web/apache-tomcat-5.5.23.prod/common/endorsed
java.ext.dirs	/seq/annotation/java/jdk1.6.0_02/jre/lib/ext:/usr/java/packages/lib/ext
java.home	/seq/annotation/java/jdk1.6.0_02/jre
java.io.tmpdir	/usr/util/web/apache-tomcat-5.5.23.prod/temp
java.library.path	/seq/annotation/java/jdk1.6.0_02/jre/lib/i386/server
	/seq/annotation/java/jdk1.6.0_02/jre/lib/i386
	/seq/annotation/java/jdk1.6.0_02/jre/../lib/i386
	/util/lib
	/util/oracle/lib
	/usr/java/packages/lib/i386
	/lib
	/usr/lib
java.naming.factory.initial	org.apache.naming.java.javaURLContextFactory
java.naming.factory.url.pkgs	org.apache.naming
java.runtime.name	Java(TM) SE Runtime Environment
java.runtime.version	1.6.0_02-b05
java.specification.name	Java Platform API Specification
java.specification.vendor	Sun Microsystems Inc.
java.specification.version	1.6
java.util.logging.config.file	/usr/util/web/apache-tomcat-5.5.23.prod/conf/logging.properties
java.util.logging.manager	org.apache.juli.ClassLoaderLogManager
java.vendor	Sun Microsystems Inc.
java.vendor.url	http://java.sun.com/
java.vendor.url.bug	http://java.sun.com/cgi-bin/bugreport.cgi
java.version	1.6.0_02
java.vm.info	mixed mode
java.vm.name	Java HotSpot(TM) Server VM
java.vm.specification.name	Java Virtual Machine Specification
java.vm.specification.vendor	Sun Microsystems Inc.
java.vm.specification.version	1.0
java.vm.vendor	Sun Microsystems Inc.
java.vm.version	1.6.0_02-b05
line.separator
log4j.configuration	file:///seq/annotation/prod/log/prod.log4j.properties
os.arch	i386
os.name	Linux
os.version	2.6.8-24.25-smp
package.access	sun.,org.apache.catalina.,org.apache.coyote.,org.apache.tomcat.,org.apache.jasper.,sun.beans.
package.definition	sun.,java.,org.apache.catalina.,org.apache.coyote.,org.apache.tomcat.,org.apache.jasper.
path.separator	:
server.loader	${catalina.home}/server/classes,${catalina.home}/server/lib/*.jar
shared.loader	${catalina.base}/shared/classes,${catalina.base}/shared/lib/*.jar
sun.arch.data.model	32
sun.boot.class.path	/seq/annotation/java/jdk1.6.0_02/jre/lib/resources.jar
	/seq/annotation/java/jdk1.6.0_02/jre/lib/rt.jar
	/seq/annotation/java/jdk1.6.0_02/jre/lib/sunrsasign.jar
	/seq/annotation/java/jdk1.6.0_02/jre/lib/jsse.jar
	/seq/annotation/java/jdk1.6.0_02/jre/lib/jce.jar
	/seq/annotation/java/jdk1.6.0_02/jre/lib/charsets.jar
	/seq/annotation/java/jdk1.6.0_02/jre/classes
sun.boot.library.path	/seq/annotation/java/jdk1.6.0_02/jre/lib/i386
sun.cpu.endian	little
sun.cpu.isalist
sun.io.unicode.encoding	UnicodeLittle
sun.java.launcher	SUN_STANDARD
sun.jnu.encoding	ANSI_X3.4-1968
sun.management.compiler	HotSpot Server Compiler
sun.os.patch.level	unknown
tomcat.util.buf.StringCache.byte.enabled	true
user.country	US
user.dir	/home/radon00/annot
user.home	/home/radon00/annot
user.language	en
user.name	annot
user.timezone	America/New_York