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From: W E. W. <wew...@gm...> - 2007-02-02 12:09:14
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Hi, Was developing some code based on the SBML ode Solver cvodes etc. using gcc (GCC) 4.0.3 (Ubuntu 4.0.3-1ubuntu5) moved now to a platform with gcc (GCC) 3.4.6 20060404 (Red Hat 3.4.6-3) Do hi have to any reasons to expect differences ? .... I am asking because to my surprise I am getting different sensitivities with precisely the same code... Eryk |
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From: Rainer M. <ra...@tb...> - 2007-02-02 12:39:14
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Hi Eryk, No, we don't know of any such differences currently. Could you send the model or the code? Have you updated SOSlib, after the sensitivity bug that you had reported was fixed? This bug was fixed in 2006-10-13 02:49 as documented at sourceforge. We did a wrong initialization of CVODES sensitivities in version 1.6.0, and it worked for normal use but not for iterative use of the same solver structure. However, also for the first run, the correct initialization (to 0) depended on the compiler. Some compilers might do this wrongly. So if you use SOSlib code from before the bugfix, the described bug and differences with compilers is easily possible. Rainer W Eryk Wolski wrote: > Hi, > > Was developing some code based on the SBML ode Solver cvodes etc. using > gcc (GCC) 4.0.3 (Ubuntu 4.0.3-1ubuntu5) > > moved now to a platform > with > gcc (GCC) 3.4.6 20060404 (Red Hat 3.4.6-3) > > Do hi have to any reasons to expect differences ? .... > I am asking because to my surprise I am getting different sensitivities > with precisely the same code... > > Eryk > > > ------------------------------------------------------------------------ > > ------------------------------------------------------------------------- > Using Tomcat but need to do more? Need to support web services, security? > Get stuff done quickly with pre-integrated technology to make your job easier. > Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 > > > ------------------------------------------------------------------------ > > _______________________________________________ > sbmlsolver-devel mailing list > sbm...@li... > https://lists.sourceforge.net/lists/listinfo/sbmlsolver-devel |
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From: W E. W. <wew...@gm...> - 2007-02-02 13:44:54
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Rainer... The integration results are definitely the same... The difference is in the sensitivities Yes I have updated the code after the error was removed .... a checkout from beginning of octorber .. (I remember that the error report on sourceforege was made after we have found the error) and I am using the same checkout on both machines ... I will try to switch to the latest version of SBML ode solver .... as soon as time permits... Eryk On 2/2/07, Rainer Machne <ra...@tb...> wrote: > > Hi Eryk, > > No, we don't know of any such differences currently. Could you send the > model or the code? > > Have you updated SOSlib, after the sensitivity bug that you had reported > was fixed? This bug was fixed in 2006-10-13 02:49 as documented at > sourceforge. > > We did a wrong initialization of CVODES sensitivities in version 1.6.0, > and it worked for normal use but not for iterative use of the same > solver structure. > However, also for the first run, the correct initialization (to 0) > depended on the compiler. Some compilers might do this wrongly. So if > you use SOSlib code from before the bugfix, the described bug and > differences with compilers is easily possible. > > Rainer > > W Eryk Wolski wrote: > > Hi, > > > > Was developing some code based on the SBML ode Solver cvodes etc. using > > gcc (GCC) 4.0.3 (Ubuntu 4.0.3-1ubuntu5) > > > > moved now to a platform > > with > > gcc (GCC) 3.4.6 20060404 (Red Hat 3.4.6-3) > > > > Do hi have to any reasons to expect differences ? .... > > I am asking because to my surprise I am getting different sensitivities > > with precisely the same code... > > > > Eryk > > > > > > ------------------------------------------------------------------------ > > > > > ------------------------------------------------------------------------- > > Using Tomcat but need to do more? Need to support web services, > security? > > Get stuff done quickly with pre-integrated technology to make your job > easier. > > Download IBM WebSphere Application Server v.1.0.1 based on Apache > Geronimo > > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 > > > > > > ------------------------------------------------------------------------ > > > > _______________________________________________ > > sbmlsolver-devel mailing list > > sbm...@li... > > https://lists.sourceforge.net/lists/listinfo/sbmlsolver-devel > > |
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From: Rainer M. <ra...@tb...> - 2007-02-02 14:09:40
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Eryk updating is generally a good idea :-) we should however really try to locate that bug, it's very strange. Rainer W Eryk Wolski wrote: > Rainer... > > The integration results are definitely the same... The difference is in > the sensitivities > > Yes I have updated the code after the error was removed .... a checkout > from beginning of octorber .. (I remember that the error report on > sourceforege was made after we have found the error) and I am using the > same checkout on both machines ... > > I will try to switch to the latest version of SBML ode solver .... as > soon as time permits... > > Eryk > > > > > On 2/2/07, *Rainer Machne* <ra...@tb... > <mailto:ra...@tb...>> wrote: > > Hi Eryk, > > No, we don't know of any such differences currently. Could you send the > model or the code? > > Have you updated SOSlib, after the sensitivity bug that you had reported > was fixed? This bug was fixed in 2006-10-13 02:49 as documented at > sourceforge. > > We did a wrong initialization of CVODES sensitivities in version 1.6.0, > and it worked for normal use but not for iterative use of the same > solver structure. > However, also for the first run, the correct initialization (to 0) > depended on the compiler. Some compilers might do this wrongly. So if > you use SOSlib code from before the bugfix, the described bug and > differences with compilers is easily possible. > > Rainer > > W Eryk Wolski wrote: > > Hi, > > > > Was developing some code based on the SBML ode Solver cvodes etc. > using > > gcc (GCC) 4.0.3 (Ubuntu 4.0.3-1ubuntu5) > > > > moved now to a platform > > with > > gcc (GCC) 3.4.6 20060404 (Red Hat 3.4.6-3) > > > > Do hi have to any reasons to expect differences ? .... > > I am asking because to my surprise I am getting different > sensitivities > > with precisely the same code... > > > > Eryk > > > > > > > ------------------------------------------------------------------------ > > > > > ------------------------------------------------------------------------- > > Using Tomcat but need to do more? Need to support web services, > security? > > Get stuff done quickly with pre-integrated technology to make > your job easier. > > Download IBM WebSphere Application Server v.1.0.1 based on Apache > Geronimo > > > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 > <http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642> > > > > > > > ------------------------------------------------------------------------ > > > > _______________________________________________ > > sbmlsolver-devel mailing list > > sbm...@li... > <mailto:sbm...@li...> > > https://lists.sourceforge.net/lists/listinfo/sbmlsolver-devel > > > > ------------------------------------------------------------------------ > > ------------------------------------------------------------------------- > Using Tomcat but need to do more? Need to support web services, security? > Get stuff done quickly with pre-integrated technology to make your job easier. > Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 > > > ------------------------------------------------------------------------ > > _______________________________________________ > sbmlsolver-devel mailing list > sbm...@li... > https://lists.sourceforge.net/lists/listinfo/sbmlsolver-devel |
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