RMassBank 1.1.1
Michael Stravs, Emma Schymanski
| Snapshot Date: 2013-03-24 17:01:43 -0700 (Sun, 24 Mar 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/RMassBank | | Last Changed Rev: 74064 / Revision: 74774 | | Last Changed Date: 2013-03-08 02:48:57 -0800 (Fri, 08 Mar 2013) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | ERROR | skipped | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | [ ERROR ] | skipped | skipped |
| petty | Mac OS X Leopard (10.5.8) / i386 | ERROR | skipped | skipped |
* checking for file 'RMassBank/DESCRIPTION' ... OK
* preparing 'RMassBank':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* creating vignettes ... ERROR
Loading required package: rcdk
Loading required package: rJava
Loading required package: rcdklibs
Loading required package: fingerprint
Loading required package: png
Loading required package: iterators
Loading required package: yaml
Loading required package: mzR
Loading required package: Rcpp
msmsWorkflow: Step 1. Acquire all MSMS spectra from files
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msmsWorkflow: Step 2. First analysis pre recalibration
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msmsWorkflow: Step 3. Aggregate all spectra
msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
Loading required package: gplots
Loading required package: gtools
Loading required package: gdata
'.path.package' is deprecated.
Use 'path.package' instead.
See help("Deprecated")
gdata: read.xls support for 'XLS' (Excel 97-2004) files ENABLED.
gdata: read.xls support for 'XLSX' (Excel 2007+) files ENABLED.
Attaching package: 'gdata'
The following object is masked from 'package:stats':
nobs
The following object is masked from 'package:utils':
object.size
Loading required package: caTools
Loading required package: grid
Loading required package: KernSmooth
KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
Loading required package: MASS
Attaching package: 'gplots'
The following object is masked from 'package:stats':
lowess
msmsWorkflow: Done.
msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
msmsWorkflow: Done.
msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
msmsWorkflow: Done.
msmsWorkflow: Step 5. Reanalyze recalibrated spectra
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msmsWorkflow: Step 6. Aggregate recalibrated results
msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O
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msmsWorkflow: Step 8. Peak multiplicity filtering
msmsWorkflow: Done.
mbWorkflow: Step 1. Gather info from CTS
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
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Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
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</html>:36: parser error : AttValue: " or ' expected
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommen
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
<style type="text/css">@import url("/cts/css/font.css");</style>
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<div id="main">
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Chemical Translation Service
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<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
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</html>:36: parser error : attributes construct error
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommen
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
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</div>
<!-- testing for the browser and print an error message in case they use the internet explorer -->
<script type="text/javascript">
if (navigator.appName == 'Microsoft Internet Explorer') {
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommend that you use Firefox, Safari or Google Chrome for the best expirience! Right now you are using the Microsoft Internet Eplorer and we do not actively support or recommend it!</div></div>');
}
</script>
<div id="main">
<div class="page_header">
Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
</div>
</div>
</div>
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<!-- google anlytics, do not change -->
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</html>:36: parser error : Couldn't find end of Start Tag div line 36
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommen
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
<style type="text/css">@import url("/cts/css/font.css");</style>
<!--
<link rel="shortcut icon" href="/cts/images/favicon.ico" type="image/x-icon"/>
-->
<meta name="layout" content="main"/>
<script type="text/javascript" src="/cts/js/application.js"></script>
<script type="text/javascript" src="/cts/js/prototype/prototype.js"></script>
<meta name="layout" content="main"/>
</head>
<body class="BodyBackground">
<div id="spinner" class="spinner" style="display:none;">
<img src="/cts/images/spinner.gif" alt="Spinner"/>
</div>
<!-- testing for the browser and print an error message in case they use the internet explorer -->
<script type="text/javascript">
if (navigator.appName == 'Microsoft Internet Explorer') {
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommend that you use Firefox, Safari or Google Chrome for the best expirience! Right now you are using the Microsoft Internet Eplorer and we do not actively support or recommend it!</div></div>');
}
</script>
<div id="main">
<div class="page_header">
Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
</div>
</div>
</div>
<div id="footer">
<!--
<style type="text/css">@import url("/cts/css/WebGUIStandards.css");</style>
<style type="text/css">@import url("/cts/css/FooterLayout.css");</style>
<div id="copy" align="center" valign="middle">
<div class="LabelFooter" align="center" valign="middle" style="padding:5px;">
<a class="Footer" href="http://binbase.fiehnlab.ucdavis.edu:8080/jira/secure/Dashboard.jspa">Report a problem</a>
| <a class="Footer" href="http://binbase.fiehnlab.ucdavis.edu:8080/jira/secure/Dashboard.jspa">Request a feature</a>
| <a class="Footer" href="http://binbase.fiehnlab.ucdavis.edu:8080/jira/secure/Administrators.jspa">Contact administrators</a>
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Powered by a free Atlassian <a class="Footer" href='http://www.atlassian.com/software/jira'>JIRA</a> open source license
</div>
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<!-- google anlytics, do not change -->
<script type="text/javascript">
var gaJsHost = (("https:" == document.location.protocol) ? "https://ssl." : "http://www.");
document.write(unescape("%3Cscript src='" + gaJsHost + "google-analytics.com/ga.js' type='text/javascript'%3E%3C/script%3E"));
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</div>
</body>
</html>:36: parser error : AttValue: " or ' expected
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommen
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
<style type="text/css">@import url("/cts/css/font.css");</style>
<!--
<link rel="shortcut icon" href="/cts/images/favicon.ico" type="image/x-icon"/>
-->
<meta name="layout" content="main"/>
<script type="text/javascript" src="/cts/js/application.js"></script>
<script type="text/javascript" src="/cts/js/prototype/prototype.js"></script>
<meta name="layout" content="main"/>
</head>
<body class="BodyBackground">
<div id="spinner" class="spinner" style="display:none;">
<img src="/cts/images/spinner.gif" alt="Spinner"/>
</div>
<!-- testing for the browser and print an error message in case they use the internet explorer -->
<script type="text/javascript">
if (navigator.appName == 'Microsoft Internet Explorer') {
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommend that you use Firefox, Safari or Google Chrome for the best expirience! Right now you are using the Microsoft Internet Eplorer and we do not actively support or recommend it!</div></div>');
}
</script>
<div id="main">
<div class="page_header">
Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
</div>
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<div class="LabelFooter" align="center" valign="middle" style="padding:5px;">
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</html>:36: parser error : attributes construct error
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommen
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
<style type="text/css">@import url("/cts/css/font.css");</style>
<!--
<link rel="shortcut icon" href="/cts/images/favicon.ico" type="image/x-icon"/>
-->
<meta name="layout" content="main"/>
<script type="text/javascript" src="/cts/js/application.js"></script>
<script type="text/javascript" src="/cts/js/prototype/prototype.js"></script>
<meta name="layout" content="main"/>
</head>
<body class="BodyBackground">
<div id="spinner" class="spinner" style="display:none;">
<img src="/cts/images/spinner.gif" alt="Spinner"/>
</div>
<!-- testing for the browser and print an error message in case they use the internet explorer -->
<script type="text/javascript">
if (navigator.appName == 'Microsoft Internet Explorer') {
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommend that you use Firefox, Safari or Google Chrome for the best expirience! Right now you are using the Microsoft Internet Eplorer and we do not actively support or recommend it!</div></div>');
}
</script>
<div id="main">
<div class="page_header">
Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
</div>
</div>
</div>
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<!-- google anlytics, do not change -->
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</body>
</html>:36: parser error : Couldn't find end of Start Tag div line 36
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommen
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
<style type="text/css">@import url("/cts/css/font.css");</style>
<!--
<link rel="shortcut icon" href="/cts/images/favicon.ico" type="image/x-icon"/>
-->
<meta name="layout" content="main"/>
<script type="text/javascript" src="/cts/js/application.js"></script>
<script type="text/javascript" src="/cts/js/prototype/prototype.js"></script>
<meta name="layout" content="main"/>
</head>
<body class="BodyBackground">
<div id="spinner" class="spinner" style="display:none;">
<img src="/cts/images/spinner.gif" alt="Spinner"/>
</div>
<!-- testing for the browser and print an error message in case they use the internet explorer -->
<script type="text/javascript">
if (navigator.appName == 'Microsoft Internet Explorer') {
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommend that you use Firefox, Safari or Google Chrome for the best expirience! Right now you are using the Microsoft Internet Eplorer and we do not actively support or recommend it!</div></div>');
}
</script>
<div id="main">
<div class="page_header">
Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
</div>
</div>
</div>
<div id="footer">
<!--
<style type="text/css">@import url("/cts/css/WebGUIStandards.css");</style>
<style type="text/css">@import url("/cts/css/FooterLayout.css");</style>
<div id="copy" align="center" valign="middle">
<div class="LabelFooter" align="center" valign="middle" style="padding:5px;">
<a class="Footer" href="http://binbase.fiehnlab.ucdavis.edu:8080/jira/secure/Dashboard.jspa">Report a problem</a>
| <a class="Footer" href="http://binbase.fiehnlab.ucdavis.edu:8080/jira/secure/Dashboard.jspa">Request a feature</a>
| <a class="Footer" href="http://binbase.fiehnlab.ucdavis.edu:8080/jira/secure/Administrators.jspa">Contact administrators</a>
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<div class="LabelFooter" align="center" valign="middle">
Powered by a free Atlassian <a class="Footer" href='http://www.atlassian.com/software/jira'>JIRA</a> open source license
</div>
</div>
-->
<!-- google anlytics, do not change -->
<script type="text/javascript">
var gaJsHost = (("https:" == document.location.protocol) ? "https://ssl." : "http://www.");
document.write(unescape("%3Cscript src='" + gaJsHost + "google-analytics.com/ga.js' type='text/javascript'%3E%3C/script%3E"));
</script>
<script type="text/javascript">
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var pageTracker = _gat._getTracker("UA-2237528-17");
pageTracker._trackPageview();
}
catch (err) {
}
</script>
</div>
</body>
</html>:36: parser error : Opening and ending tag mismatch: script line 33 and div
Microsoft Internet Eplorer and we do not actively support or recommend it!</div>
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
<style type="text/css">@import url("/cts/css/font.css");</style>
<!--
<link rel="shortcut icon" href="/cts/images/favicon.ico" type="image/x-icon"/>
-->
<meta name="layout" content="main"/>
<script type="text/javascript" src="/cts/js/application.js"></script>
<script type="text/javascript" src="/cts/js/prototype/prototype.js"></script>
<meta name="layout" content="main"/>
</head>
<body class="BodyBackground">
<div id="spinner" class="spinner" style="display:none;">
<img src="/cts/images/spinner.gif" alt="Spinner"/>
</div>
<!-- testing for the browser and print an error message in case they use the internet explorer -->
<script type="text/javascript">
if (navigator.appName == 'Microsoft Internet Explorer') {
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommend that you use Firefox, Safari or Google Chrome for the best expirience! Right now you are using the Microsoft Internet Eplorer and we do not actively support or recommend it!</div></div>');
}
</script>
<div id="main">
<div class="page_header">
Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
</div>
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</html>:36: parser error : Opening and ending tag mismatch: body line 27 and div
oft Internet Eplorer and we do not actively support or recommend it!</div></div>
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
<style type="text/css">@import url("/cts/css/font.css");</style>
<!--
<link rel="shortcut icon" href="/cts/images/favicon.ico" type="image/x-icon"/>
-->
<meta name="layout" content="main"/>
<script type="text/javascript" src="/cts/js/application.js"></script>
<script type="text/javascript" src="/cts/js/prototype/prototype.js"></script>
<meta name="layout" content="main"/>
</head>
<body class="BodyBackground">
<div id="spinner" class="spinner" style="display:none;">
<img src="/cts/images/spinner.gif" alt="Spinner"/>
</div>
<!-- testing for the browser and print an error message in case they use the internet explorer -->
<script type="text/javascript">
if (navigator.appName == 'Microsoft Internet Explorer') {
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommend that you use Firefox, Safari or Google Chrome for the best expirience! Right now you are using the Microsoft Internet Eplorer and we do not actively support or recommend it!</div></div>');
}
</script>
<div id="main">
<div class="page_header">
Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
</div>
</div>
</div>
<div id="footer">
<!--
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</html>:39: parser error : Opening and ending tag mismatch: html line 1 and script
</script>
^
<html>
<head>
<title>CTS: Chemical Translation Service</title>
<link rel="stylesheet" href="/cts/css/main.css"/>
<style type="text/css">@import url("/cts/css/pagination.css");</style>
<style type="text/css">@import url("/cts/css/font.css");</style>
<!--
<link rel="shortcut icon" href="/cts/images/favicon.ico" type="image/x-icon"/>
-->
<meta name="layout" content="main"/>
<script type="text/javascript" src="/cts/js/application.js"></script>
<script type="text/javascript" src="/cts/js/prototype/prototype.js"></script>
<meta name="layout" content="main"/>
</head>
<body class="BodyBackground">
<div id="spinner" class="spinner" style="display:none;">
<img src="/cts/images/spinner.gif" alt="Spinner"/>
</div>
<!-- testing for the browser and print an error message in case they use the internet explorer -->
<script type="text/javascript">
if (navigator.appName == 'Microsoft Internet Explorer') {
document.write('<div class=\"box\"><div class=\"errors-center\" >we recommend that you use Firefox, Safari or Google Chrome for the best expirience! Right now you are using the Microsoft Internet Eplorer and we do not actively support or recommend it!</div></div>');
}
</script>
<div id="main">
<div class="page_header">
Chemical Translation Service
</div>
<div class="box">
<h3><a href="/cts/homePage/index" class="home">Home</a></h3>
<div class="line"></div>
</div>
<div class="box">
<h3>Ooops, what did just happen?</h3>
<div class="line"></div>
<div class="message">
oh dear this is rather embarissing, but it looks like you discovered a bug. To help us avoiding this in the future, would you mind to send a bug report to <a href="mailto:wohlgemuth@ucdavis.edu">Gert Wohlgemuth</a> with as many informations as possible, so we can reproduce this and fix it!
</div>
<h3>Error Details</h3>
<div class="line"></div>
<div class="errors">
<strong>Error 500:</strong> Cannot load default configuration from jar<br/>
<strong>Servlet:</strong> default<br/>
<strong>URI:</strong> /cts/massLookup/masstransform<br/>
<strong>Exception Message:</strong> Cannot load default configuration from jar <br/>
<strong>Caused by:</strong> Cannot load default configuration from jar <br/>
<strong>Class:</strong> Unknown <br/>
<strong>At Line:</strong> [-1] <br/>
<strong>Code Snippet:</strong><br/>
<div class="snippet">
</div>
</div>
<h3>Stack Trace</h3>
<div class="line"></div>
<div class="errors">
<pre>java.lang.IllegalStateException: Cannot load default configuration from jar
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadSitemeshXML(Grails5535Factory.java:146)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.loadConfig(Grails5535Factory.java:73)
<br/> at org.codehaus.groovy.grails.web.sitemesh.Grails5535Factory.refresh(Grails5535Factory.java:272)
<br/> at com.opensymphony.module.sitemesh.Factory.getInstance(Factory.java:56)
<br/> at com.opensymphony.sitemesh.webapp.SiteMeshFilter.initContentProcessor(SiteMeshFilter.java:107)
<br/> at org.codehaus.groovy.grails.web.sitemesh.GrailsPageFilter.doFilter(GrailsPageFilter.java:114)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.servlet.mvc.GrailsWebRequestFilter.doFilterInternal(GrailsWebRequestFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.codehaus.groovy.grails.web.filters.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:69)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:88)
<br/> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
<br/> at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilt
erProxy.java:167)
<br/> at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1323)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:474)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:119)
<br/> at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:480)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:226)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:935)
<br/> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:404)
<br/> at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:184)
<br/> at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:870)
<br/> at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:117)
<br/> at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:247)
<br/> at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:151)
<br/> at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
<br/> at org.eclipse.jetty.server.Server.handle(Server.java:346)
<br/> at org.eclipse.jetty.server.HttpConnection.handleRequest(HttpConnection.java:596)
<br/> at org.eclipse.jetty.server.HttpConnection$RequestHandler.headerComplete(HttpConnection.java:1051)
<br/> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:592)
<br/> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:214)
<br/> at org.eclipse.jetty.server.HttpConnection.handle(HttpConnection.java:426)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:520)
<br/> at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:40)
<br/> at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:528)
<br/> at java.lang.Thread.run(Thread.java:619)
<br/></pre>
</div>
</div>
</div>
<div id="footer">
<!--
<style type="text/css">@import url("/cts/css/WebGUIStandards.css");</style>
<style type="text/css">@import url("/cts/css/FooterLayout.css");</style>
<div id="copy" align="center" valign="middle">
<div class="LabelFooter" align="center" valign="middle" style="padding:5px;">
<a class="Footer" href="http://binbase.fiehnlab.ucdavis.edu:8080/jira/secure/Dashboard.jspa">Report a problem</a>
| <a class="Footer" href="http://binbase.fiehnlab.ucdavis.edu:8080/jira/secure/Dashboard.jspa">Request a feature</a>
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document.write(unescape("%3Cscript src='" + gaJsHost + "google-analytics.com/ga.js' type='text/javascript'%3E%3C/script%3E"));
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</html>:44: parser error : Extra content at the end of the document
<div id="main">
^
Error: processing vignette 'RMassBank.Rnw' failed with diagnostics:
chunk 19
Error in res[[1]] : subscript out of bounds
Execution halted