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> -----Original Message-----
> From: cellml-discussion-bounces at cellml.org
> [mailto:cellml-discussion-bounces at cellml.org] On Behalf Of
> David Nickerson
> Sent: 30 October 2006 10:50
> To: For those interested in contributing to the development of CellML.
> Subject: Re: [cellml-discussion] pcenv development priorities
>
> Alan Garny wrote:
> > As you know, there is a CellML 1.0 version of the
> epicardial version
> > of the ten Tusscher model, which we have. I computed that model for
> > one-second worth of cardiac activity, plotting the trans-membrane
> > potential. From there, we could extrapolate to 70 minutes by saying
> > that the frequency of the stimulus is 1 Hz. Like David, I
> have set the
> > maximum time step to 0.1 ms. Here are some rough figures:
> >
> > Simulation time: 1037.4 s (i.e. ~17 min 17 sec) Computation time:
> > 684.6 s (i.e. ~11 min 24 sec)
>
> so the total (predicted) wall clock run time is 17minutes? or
> 28minutes?

Oops, sorry for not making that clear: it is 17 minutes.

> any chance you could run something longer than a 1s
> simulation and extrapolate from there, if not run a whole
> 70minutes worth? If not, I guess I can run it next time I'm
> on a windows machine ;)

Ok, I have quickly set up a CellML 1.0 file with a 1 Hz stimulus protocol
(incidently, for those who are interested on how to do that in CellML, as
well as a few other things, have a look at http://cor.physiol.ox.ac.uk/FAQ/,
towards the end of that page) and ran it for 70-minute worth of cardiac
activity on another computer (a Pentium 4 2.4 GHz machine with 1.5 GB of
RAM). Here are the figures (using CVODE: BDF+Newton(Dense) and 0.1 ms max
time step):

Simulation time (i.e. wall clock run time): 1107.193 (i.e. ~18 min 27 sec).
Computation time: 945.563 s (i.e. ~15 min 45 sec).

I think it's not bad for some 'manually' generated machine code, eh? :)

Alan.

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• [cellml-discussion] pcenv development priorities, David Nickerson, 10/30/2006
  • [cellml-discussion] pcenv development priorities, Andrew Miller, 10/30/2006
    • [cellml-discussion] pcenv development priorities, David Nickerson, 10/30/2006
      • [cellml-discussion] pcenv development priorities, Alan Garny, 10/30/2006
    • [cellml-discussion] pcenv development priorities, Poul Nielsen, 10/30/2006
      • [cellml-discussion] pcenv development priorities, Andrew Miller, 10/30/2006
    • [cellml-discussion] pcenv development priorities, David Nickerson, 10/30/2006
      • [cellml-discussion] pcenv development priorities, Alan Garny, 10/30/2006
        • [cellml-discussion] pcenv development priorities, David Nickerson, 10/30/2006
          • [cellml-discussion] pcenv development priorities, Alan Garny, 10/31/2006
          • [cellml-discussion] pcenv development priorities, Andrew Miller, 10/31/2006
            • [cellml-discussion] pcenv development priorities, David Nickerson, 10/31/2006
              • [cellml-discussion] pcenv development priorities, Andrew Miller, 10/31/2006
              • [cellml-discussion] pcenv development priorities, Alan Garny, 10/31/2006

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