Emmanuel Courcelle wrote: > Hi all. > Sorry to bother you again with this point, but I still does not > understand everything... > > I tried to define a new type, called "float colored": it is a float, > colored with min value as 0, max as 0, mid as 5 > I want to add 2 values to my data: > -2 * (ch(1) / ch(2)) > -3 * (ch(1) / ch(2)) > (Probably stupid for the analysis, but I just want to check the > functionality) > > So, I tried the JEP extra value calculator, specifying float coloured as > a data type, and 2 * (ch(1) / ch(2)) as the expression. Then, I give a > look to the data, and it works: the numbers are preceded with a little > coloured square, the colour depends on the value. > Great, indeed. > > So, I tried a second run, this time with 3 * (ch(1) / ch(2)) as > expression. It got the following error message: > > "The bioassay set already has extra values of the type: Extra value > type[id=2824; name=float colored]"
You can only calculate one extra value of each type per bioassayset. > This sounds very strange to me: If "float colored" is an "Extra Value > Type", (this sounds to me as some data type, it's not right ?) why > should it be applied ONLY one time ? Because the extra value type itself can be used in further calculations, filters, by plugins, etc. You then refer to it by the External ID of the extra value type. If there are more than one value for each type, it is not possible to know which one to choose. > -------------------------------------------- > > Something else, which is probably a bug. When I go to > Administrate/Types/Extra value types, I click on any extra type declared > (for instance for editing the type), I get the following: It looks like some internal Tomcat error. Try removing everything from the /usr/local/apache-tomcat-5.5.20/work/Catalina/localhost/base2/ directory. /Nicklas > > Base version 2.1 (build #2847; schema #20) > Web server Apache Tomcat/5.5.20 > Database Dialect org.hibernate.dialect.PostgreSQLDialect > JDBC Driver org.postgresql.Driver (version 8.1) > Java runtime Java(TM) 2 Runtime Environment, Standard Edition > (1.5.0_06-b05), Sun Microsystems Inc. <http://java.sun.com/> > Operating system Linux i386 2.6.16-2-em64t-p4-smp > Memory Total: 155.3 MB > Free: 30.9 MB > Max: 986.1 MB > Browser Mozilla/5.0 (X11; U; Linux i686; fr; rv:1.8.1) Gecko/20061010 > Firefox/2.0 > Error message > /usr/local/apache-tomcat-5.5.20/work/Catalina/localhost/base2/org/apache/jsp/admin/extravaluetypes/view_005fextravaluetype_jsp.java > > (Permission denied) > Stack trace > > ...at java.io.FileOutputStream.open(Native Method) > ...at java.io.FileOutputStream.(Unknown Source) > ...at java.io.FileOutputStream.(Unknown Source) > ...at org.apache.jasper.compiler.Compiler.generateJava(Compiler.java:140) > ...at org.apache.jasper.compiler.Compiler.compile(Compiler.java:295) > ...at org.apache.jasper.compiler.Compiler.compile(Compiler.java:276) > ...at org.apache.jasper.compiler.Compiler.compile(Compiler.java:264) > ...at > org.apache.jasper.JspCompilationContext.compile(JspCompilationContext.java:563) > > ...at > org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:305) > ...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 > org.apache.catalina.core.ApplicationDispatcher.invoke(ApplicationDispatcher.java:672) > ...at > org.apache.catalina.core.ApplicationDispatcher.processRequest(ApplicationDispatcher.java:463) > ...at > org.apache.catalina.core.ApplicationDispatcher.doForward(ApplicationDispatcher.java:398) > ...at > org.apache.catalina.core.ApplicationDispatcher.forward(ApplicationDispatcher.java:301) > ...at > org.apache.jasper.runtime.PageContextImpl.doForward(PageContextImpl.java:688) > ...at > org.apache.jasper.runtime.PageContextImpl.forward(PageContextImpl.java:658) > ...at > org.apache.jsp.admin.extravaluetypes.index_jsp._jspService(index_jsp.java:278) > ...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:334) > ...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$Http11ConnectionHandler.processConnection(Http11BaseProtocol.java:664) > ...at > org.apache.tomcat.util.net.PoolTcpEndpoint.processSocket(PoolTcpEndpoint.java:527) > ...at > org.apache.tomcat.util.net.LeaderFollowerWorkerThread.runIt(LeaderFollowerWorkerThread.java:80) > ...at > org.apache.tomcat.util.threads.ThreadPool$ControlRunnable.run(ThreadPool.java:684) > ...at java.lang.Thread.run(Unknown Source) > > > ------------------------------------------------------------------------- Take Surveys. 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