HTTP Status 500 – Internal Server Error


Type Exception Report

Message An exception occurred processing [WEB-INF/jsp/report/gene/main.jsp] at line [45]

Description The server encountered an unexpected condition that prevented it from fulfilling the request.

Exception

org.apache.jasper.JasperException: An exception occurred processing [WEB-INF/jsp/report/gene/main.jsp] at line [45]

42:     if( !(geneSource.equals("NCBI") || geneSource.equals("Ensembl")) ) {
43:         geneSource = "NCBI";
44:     }
45:     edu.mcw.rgd.datamodel.Map refMap = mapDAO.getPrimaryRefAssembly(obj.getSpeciesTypeKey(), geneSource);
46:     List mapDataList = mapDAO.getMapData(obj.getRgdId(), refMap.getKey());
47:     MapData md = new MapData();
48:     if (mapDataList.size() > 0) {


Stacktrace:
	org.apache.jasper.servlet.JspServletWrapper.handleJspException(JspServletWrapper.java:599)
	org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:478)
	org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:380)
	org.apache.jasper.servlet.JspServlet.service(JspServlet.java:328)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:658)
	org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:51)
	org.springframework.web.servlet.view.InternalResourceView.renderMergedOutputModel(InternalResourceView.java:171)
	org.springframework.web.servlet.view.AbstractView.render(AbstractView.java:314)
	org.springframework.web.servlet.DispatcherServlet.render(DispatcherServlet.java:1415)
	org.springframework.web.servlet.DispatcherServlet.processDispatchResult(DispatcherServlet.java:1159)
	org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:1098)
	org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:974)
	org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:1011)
	org.springframework.web.servlet.FrameworkServlet.doGet(FrameworkServlet.java:903)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:564)
	org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:885)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:658)
	org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:51)
	edu.mcw.rgd.web.ChinchillaFilter.doFilter(ChinchillaFilter.java:24)

Root Cause

jakarta.servlet.ServletException: edu.mcw.rgd.dao.impl.MapDAO$MapDAOException: No primary reference assembly found for species type key 10 and source NCBI
	org.apache.jasper.runtime.PageContextImpl.handlePageException(PageContextImpl.java:666)
	org.apache.jsp.WEB_002dINF.jsp.report.gene.main_jsp._jspService(main_jsp.java:8363)
	org.apache.jasper.runtime.HttpJspBase.service(HttpJspBase.java:70)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:658)
	org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:456)
	org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:380)
	org.apache.jasper.servlet.JspServlet.service(JspServlet.java:328)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:658)
	org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:51)
	org.springframework.web.servlet.view.InternalResourceView.renderMergedOutputModel(InternalResourceView.java:171)
	org.springframework.web.servlet.view.AbstractView.render(AbstractView.java:314)
	org.springframework.web.servlet.DispatcherServlet.render(DispatcherServlet.java:1415)
	org.springframework.web.servlet.DispatcherServlet.processDispatchResult(DispatcherServlet.java:1159)
	org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:1098)
	org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:974)
	org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:1011)
	org.springframework.web.servlet.FrameworkServlet.doGet(FrameworkServlet.java:903)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:564)
	org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:885)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:658)
	org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:51)
	edu.mcw.rgd.web.ChinchillaFilter.doFilter(ChinchillaFilter.java:24)

Root Cause

edu.mcw.rgd.dao.impl.MapDAO$MapDAOException: No primary reference assembly found for species type key 10 and source NCBI
	edu.mcw.rgd.dao.impl.MapDAO.getPrimaryRefAssembly(MapDAO.java:185)
	org.apache.jsp.WEB_002dINF.jsp.report.gene.main_jsp._jspService(main_jsp.java:518)
	org.apache.jasper.runtime.HttpJspBase.service(HttpJspBase.java:70)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:658)
	org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:456)
	org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:380)
	org.apache.jasper.servlet.JspServlet.service(JspServlet.java:328)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:658)
	org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:51)
	org.springframework.web.servlet.view.InternalResourceView.renderMergedOutputModel(InternalResourceView.java:171)
	org.springframework.web.servlet.view.AbstractView.render(AbstractView.java:314)
	org.springframework.web.servlet.DispatcherServlet.render(DispatcherServlet.java:1415)
	org.springframework.web.servlet.DispatcherServlet.processDispatchResult(DispatcherServlet.java:1159)
	org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:1098)
	org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:974)
	org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:1011)
	org.springframework.web.servlet.FrameworkServlet.doGet(FrameworkServlet.java:903)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:564)
	org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:885)
	jakarta.servlet.http.HttpServlet.service(HttpServlet.java:658)
	org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:51)
	edu.mcw.rgd.web.ChinchillaFilter.doFilter(ChinchillaFilter.java:24)

Note The full stack trace of the root cause is available in the server logs.


Apache Tomcat/10.1.13