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Re: [SOSlib-discuss] sink reactions
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From: Michael L. <mfl...@fh...> - 2008-05-30 17:56:35
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On Fri, May 30, 2008 at 10:42 AM, Rainer Machne <ra...@tb...> wrote: > Michael Lawrence wrote: > > >> >> On Fri, May 30, 2008 at 10:00 AM, Rainer Machne <ra...@tb...<mailto: >> ra...@tb...>> wrote: >> >> Michael Lawrence wrote: >> >> When I run odeSolver --time 70 on the model, I get the following >> results for HX: >> >> 9.51785 37.57650 57.50690 71.10390 80.45370 87.07900 >> 92.03690 >> >> ... >> >> >> Also, my results seem similar to what is happening here: >> >> >> http://www.biouml.org/_biomodels/relativeErrors/BIOMD0000000015.xml.html >> >> >> Strange! >> >> Which version of the odeSolver are you using? >> >> >> I am using the CVS as of about a week ago. Don't think it's changed since >> then. And I believe those BioUML test results (for what they call >> SBWODESolver) are from the CVS back in December. >> >> >> Are you using other options additionally to --time 70 >> >> >> Nope, just --time and the filename. >> >> >> I have just freshly recompiled 1.6.0 and don't get these results. >> >> >> I haven't tried 1.6.0, yet. Perhaps I should though. >> > > Which version are you using? I stated above: I am using the CVS as of about a week ago. Don't think it's changed since then. And I believe those BioUML test results (for what they call SBWODESolver) are from the CVS back in December. > I don't have the old libSBML versions, and currently sbml.org is down, so > i can't test 1.5.0pre, but it is easily possible that this bug existed back > then, or even still in 1.6.0pre. > > Please check the correct libSBML and SUNDIALS (not Scott Cohen's CVODE > anymore) libraries for 1.6.0 at > http://www.tbi.univie.ac.at/~raim/odeSolver/doc/<http://www.tbi.univie.ac.at/%7Eraim/odeSolver/doc/> > > I am using the latest of both libraries, but not CVS. > If you want to go for the CVS version use the latest versions of both > libSBML and SUNDIALS (CVS has several bugs fixed, and is much faster, with a > on-line compiler which should already work, but needs to be activated by > commenting in some line). > > Rainer > > > >> >> Rainer >> >> >> > |
