> >>> Ok, I deleted the extra line at the end of the show_exception file. The
> >> new
> >>> error message is:
> >>>
> >>> File creation in base.config[userfiles] failed
> >> There can be two reasons:
> >>
> >> 1) The path specified in base.config for the userfiles property doesn't
> >> exists
> >> 2) The user that Tomcat runs as doesn't have permission to create new
> >> files in that directory
> >
> > I'm guessing it's 1)
> >
> > I changed the Tomcat configuration to run as a user with the proper
> > permissions. However, the directory specified by the
> > base.config[userfiles]
> > variable exists. So, I'm rather stuck here.
>
> Can you submit the entire stacktrace? If it is not 1 or 2 there might be
> some information about what the problem is.
Here it is. By the way, do I need to configure a "Reporter Map Importer" for
Affymetrix .cdf files? There isn't any information for that in the 2.1 getting
started manual
(http://base.thep.lu.se/chrome/site/doc/user/getting_started.html, "Reporter
Map Importer"). There's only information there for Genepix files.
Thanks so much,
Jesse
...at File.getNewFile(File.java:1002)
...at File.getUploadStream(File.java:878)
...at
org.apache.jsp.filemanager.upload.upload_jsp._jspService(upload_jsp.java:175)
...at org.apache.jasper.runtime.HttpJspBase.service(HttpJspBase.java:70)
...at javax.servlet.http.HttpServlet.service(HttpServlet.java:803)
...at
org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:393)
...at org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:320)
...at org.apache.jasper.servlet.JspServlet.service(JspServlet.java:266)
...at javax.servlet.http.HttpServlet.service(HttpServlet.java:803)
...at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
...at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
...at
net.sf.basedb.clients.web.servlet.CharacterEncodingFilter.doFilter(CharacterEncodingFilter.java:72)
...at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
...at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
...at
org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233)
...at
org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:175)
...at
org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:128)
...at
org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
...at
org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
...at
org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:263)
...at
org.apache.coyote.http11.Http11AprProcessor.process(Http11AprProcessor.java:852)
...at
org.apache.coyote.http11.Http11AprProtocol$Http11ConnectionHandler.process(Http11AprProtocol.java:584)
...at org.apache.tomcat.util.net.AprEndpoint$Worker.run(AprEndpoint.java:1508)
...at java.lang.Thread.run(Unknown Source)
Caused by: java.io.IOException
...at java.io.WinNTFileSystem.createFileExclusively(Native Method)
...at java.io.File.createNewFile(Unknown Source)
...at File.getNewFile(File.java:998)
...at File.getUploadStream(File.java:878)
...at
org.apache.jsp.filemanager.upload.upload_jsp._jspService(upload_jsp.java:175)
...at org.apache.jasper.runtime.HttpJspBase.service(HttpJspBase.java:70)
...at javax.servlet.http.HttpServlet.service(HttpServlet.java:803)
...at
org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:393)
...at org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:320)
...at org.apache.jasper.servlet.JspServlet.service(JspServlet.java:266)
...at javax.servlet.http.HttpServlet.service(HttpServlet.java:803)
...at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
...at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
...at
net.sf.basedb.clients.web.servlet.CharacterEncodingFilter.doFilter(CharacterEncodingFilter.java:72)
...at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
...at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
...at
org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233)
...at
org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:175)
...at
org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:128)
...at
org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
...at
org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
...at
org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:263)
...at
org.apache.coyote.http11.Http11AprProcessor.process(Http11AprProcessor.java:852)
...at
org.apache.coyote.http11.Http11AprProtocol$Http11ConnectionHandler.process(Http11AprProtocol.java:584)
...at org.apache.tomcat.util.net.AprEndpoint$Worker.run(AprEndpoint.java:1508)
...at java.lang.Thread.run(Unknown Source)
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