Unexpected Error on JSP for Experiment Overview

[base]

I have loaded 2 experiments, one gives me the following problem

stack trace:

Experiment Options… Unexpected error java.lang.NullPointerException on page /nutribase221/views/experiments/overview/index.jsp Version BASE 2.3.0pre (build #3130; schema #29) Web server Apache Tomcat/5.5.15 Database Dialect org.hibernate.dialect.MySQLInnoDBDialect JDBC Driver com.mysql.jdbc.Driver (version 5.0) Java runtime Java(TM) 2 Runtime Environment, Standard Edition (1.5.0_06-b05), Sun Microsystems Inc. Operating system Windows XP x86 5.1 Memory Total: 31.5 MB Free: 9.9 MB Max: 254.1 MB Browser Mozilla/5.0 (Windows; U; Windows NT 5.1; en-US; rv:1.8.1.1) Gecko/20061204 Firefox/2.0.0.1 Error message Stack trace

...at net.sf.basedb.util.overview.ExperimentOverview.addRawBioAssay(ExperimentOverview.java:621) ...at net.sf.basedb.util.overview.ExperimentOverview.addRawBioAssays(ExperimentOverview.java:573) ...at net.sf.basedb.util.overview.ExperimentOverview.generateOverview(ExperimentOverview.java:309) ...at net.sf.basedb.util.overview.ExperimentOverview.(ExperimentOverview.java:256) ...at net.sf.basedb.util.overview.ExperimentOverview.getOverview(ExperimentOverview.java:187) ...at org.apache.jsp.views.experiments.overview.index_jsp._jspService(org.apache.jsp.views.experiments.overview.index_jsp:87) ...at org.apache.jasper.runtime.HttpJspBase.service(HttpJspBase.java:97) ...at javax.servlet.http.HttpServlet.service(HttpServlet.java:802)

...at org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:332) ...at org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:314) ...at org.apache.jasper.servlet.JspServlet.service(JspServlet.java:264) ...at javax.servlet.http.HttpServlet.service(HttpServlet.java:802) ...at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:252) ...at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:173) ...at net.sf.basedb.clients.web.servlet.CharacterEncodingFilter.doFilter(CharacterEncodingFilter.java:71) ...at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:202) ...at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:173) ...at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:213) ...at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:178) ...at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:126) ...at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:105) ...at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:107) ...at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:148) ...at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:869) ...at org.apache.coyote.http11.Http11BaseProtocol$Http11ConnectionHandler.processConnection(Http11BaseProtocol.java:667) ...at org.apache.tomcat.util.net.PoolTcpEndpoint.processSocket(PoolTcpEndpoint.java:527) ...at org.apache.tomcat.util.net.LeaderFollowerWorkerThread.runIt(LeaderFollowerWorkerThread.java:80) ...at org.apache.tomcat.util.threads.ThreadPool$ControlRunnable.run(ThreadPool.java:684) ...at java.lang.Thread.run(Thread.java:595)

cheers

Philippe

[Nicklas Nordborg]

I think this happens if there is a raw bioassay without annotations. It should be easy to fix by checking 'annotationsNode' for null on line 621. Note, that the failure on the following lines should still be generated in this case.

[Martin Svensson]

(In [3137]) Fixes #494 Unexpected Error on JSP for Experiment Overview