We're getting an error when using the spectral counting feature. We just installed R so this is the first time it has been tried. The error message is below. The R console in the study module is working (without graphics).

Thanks,
Bill


Spectra Counts: Peptide sequence, ProteinProphet protein assignment, No peptide filter

An unexpected error occurred

java.lang.NullPointerException
org.labkey.api.util.UnexpectedException: java.lang.NullPointerException:java.lang.NullPointerException
       at org.labkey.api.data.AsyncQueryRequest.waitForResult(AsyncQueryRequest.java:106)
       at org.labkey.api.data.Table.selectForDisplayAsync(Table.java:1332)
       at org.labkey.api.data.RenderContext.selectForDisplay(RenderContext.java:347)
       at org.labkey.api.data.RenderContext.getResultSet(RenderContext.java:228)
       at org.labkey.api.data.DataRegion.getResultSet(DataRegion.java:610)
       at org.labkey.api.data.DataRegion.getResultSet(DataRegion.java:594)
       at org.labkey.api.data.DataRegion._renderTable(DataRegion.java:683)
       at org.labkey.api.data.DataRegion.render(DataRegion.java:1915)
       at org.labkey.api.data.DataRegion.renderTable(DataRegion.java:668)
       at org.labkey.api.view.GridView._renderDataRegion(GridView.java:71)
       at org.labkey.api.view.DataView.renderView(DataView.java:124)
       at org.labkey.api.view.DataView.renderView(DataView.java:31)
       at org.labkey.api.view.WebPartView.renderView(WebPartView.java:569)
       at org.labkey.api.view.WebPartView.renderInternal(WebPartView.java:180)
       at org.labkey.api.view.HttpView.render(HttpView.java:135)
       at org.labkey.api.view.HttpView.render(HttpView.java:117)
       at org.labkey.api.view.HttpView.include(HttpView.java:536)
       at org.labkey.api.query.QueryView.renderDataRegion(QueryView.java:1049)
       at org.labkey.api.query.QueryView.renderView(QueryView.java:885)
       at org.labkey.api.view.WebPartView.renderView(WebPartView.java:569)
       at org.labkey.api.query.QueryView.renderView(QueryView.java:910)
       at org.labkey.api.view.WebPartView.renderInternal(WebPartView.java:180)
       at org.labkey.api.view.HttpView.render(HttpView.java:135)
       at org.labkey.api.view.HttpView.render(HttpView.java:117)
       at org.labkey.api.view.HttpView.include(HttpView.java:536)
       at org.labkey.jsp.compiled.org.labkey.api.view.template.CommonTemplate_jsp._jspService(CommonTemplate_jsp.java:204)
       at org.labkey.api.view.JspView.renderView(JspView.java:119)
       at org.labkey.api.view.WebPartView.renderInternal(WebPartView.java:180)
       at org.labkey.api.view.HttpView.render(HttpView.java:135)
       at org.labkey.api.view.HttpView.render(HttpView.java:117)
       at org.labkey.api.action.SpringActionController.renderInTemplate(SpringActionController.java:420)
       at org.labkey.api.action.SpringActionController.handleRequest(SpringActionController.java:344)
       at org.labkey.api.module.DefaultModule.dispatch(DefaultModule.java:726)
       at org.labkey.api.view.ViewServlet.service(ViewServlet.java:140)
       at javax.servlet.http.HttpServlet.service(HttpServlet.java:729)
       at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:269)
       at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:188)
       at org.labkey.api.data.TransactionFilter.doFilter(TransactionFilter.java:36)
       at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:215)
       at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:188)
       at org.labkey.core.filters.SetCharacterEncodingFilter.doFilter(SetCharacterEncodingFilter.java:124)
       at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:215)
       at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:188)
       at org.labkey.api.module.ModuleLoader.doFilter(ModuleLoader.java:651)
       at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:215)
       at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:188)
       at org.labkey.api.security.AuthFilter.doFilter(AuthFilter.java:101)
       at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:215)
       at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:188)
       at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:213)
       at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:172)
       at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127)
       at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:117)
       at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:108)
       at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:174)
       at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:875)
       at org.apache.coyote.http11.Http11BaseProtocol$Http11ConnectionHandler.processConnection(Http11BaseProtocol.java:665)
       at org.apache.tomcat.util.net.PoolTcpEndpoint.processSocket(PoolTcpEndpoint.java:528)
       at org.apache.tomcat.util.net.LeaderFollowerWorkerThread.runIt(LeaderFollowerWorkerThread.java:81)
       at org.apache.tomcat.util.threads.ThreadPool$ControlRunnable.run(ThreadPool.java:689)
       at java.lang.Thread.run(Thread.java:619)
Caused by: java.lang.NullPointerException
       at org.labkey.api.query.AliasManager.legalNameFromName(AliasManager.java:70)
       at org.labkey.api.query.AliasManager.makeLegalName(AliasManager.java:96)
       at org.labkey.query.QueryServiceImpl.getSelectSQL(QueryServiceImpl.java:643)
       at org.labkey.api.data.Table.getSelectSQL(Table.java:1164)
       at org.labkey.api.data.Table.selectForDisplay(Table.java:1323)
       at org.labkey.api.data.Table.access$300(Table.java:52)
       at org.labkey.api.data.Table$2.call(Table.java:1336)
       at org.labkey.api.data.Table$2.call(Table.java:1334)
       at org.labkey.api.data.AsyncQueryRequest$1.run(AsyncQueryRequest.java:69)
       ... 1 more
request attributes
LABKEY.StartTime = 1257796367437
LABKEY.action = spectraCount
org.springframework.web.servlet.DispatcherServlet.CONTEXT = org.springframework.web.context.support.XmlWebApplicationContext@5b9a82ee: display name [MS2 WebApplicationContext]; startup date [Mon Nov 09 09:20:25 EST 2009]; parent: org.springframework.web.context.support.XmlWebApplicationContext@46b4be3d
LABKEY.controller = ms2
WebPartView.frame = DIV
LABKEY.container = /LynnGroup/Jackson/ProbeQuantMethodDev/PreAvidin
LABKEY.RequestURL = /labkey/ms2/LynnGroup/Jackson/ProbeQuantMethodDev/PreAvidin/spectraCount.view?runList=73&spectraConfig=SpectraCountPeptideProteinPP&peptideFilterType=none&peptideProphetProbability=
LABKEY.OriginalURL = http://berkelium.gws.uky.edu:8080/labkey/ms2/LynnGroup/Jackson/ProbeQuantMethodDev/PreAvidin/spectraCount.view?runList=73&spectraConfig=SpectraCountPeptideProteinPP&peptideFilterType=none&peptideProphetProbability=

core schema database configuration
Server URL    jdbc:postgresql://localhost/labkey
Product Name    PostgreSQL
Product Version    8.3.7
Driver Name    PostgreSQL Native Driver
Driver Version    PostgreSQL 8.3 JDBC3 with SSL (build 604)