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[cellml-discussion] ABI CellML Meeting Minutes, 21st April 2010


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  • From: r.britten at auckland.ac.nz (Randall Britten)
  • Subject: [cellml-discussion] ABI CellML Meeting Minutes, 21st April 2010
  • Date: Tue, 27 Apr 2010 08:16:18 +1200
From what I understand, this is exactly what Andrew is setting up.

Regards,
Randall

On 26/04/2010, at 8:17 PM, "Alan Garny" <alan.garny at dpag.ox.ac.uk>
wrote:

> Then, the approach that I would personally take (and the one that I
> people
> take when solving ODE models, though I accept things might be
> different with
> DAE models!) is to start from the original ICs and let the solver do
> its
> job. Now, I imagine there might be cases where user changes to some
> of the
> parameters are such that the original ICs might not be suitable at
> all?
>
> Alan
>
>> -----Original Message-----
>> From: cellml-discussion-bounces at cellml.org [mailto:cellml-discussion-
>> bounces at cellml.org] On Behalf Of Randall Britten
>> Sent: 25 April 2010 22:54
>> To: 'CellML Discussion List'
>> Subject: Re: [cellml-discussion] ABI CellML Meeting Minutes, 21st
>> April
> 2010
>>
>> Andrew pointed out some time ago that even if consistent IC's are
>> provided
>> by the model author, one of the things we often do with models is
>> change
>> some of the parameters, or re-use the models in a different
>> context, in
> which
>> case some assistance from the software in recalculating new
>> consistent
> IC's is
>> invaluable.
>>
>> Regards,
>> Randall
>>
>>> -----Original Message-----
>>> From: cellml-discussion-bounces at cellml.org [mailto:cellml-
>>> discussion-
>>> bounces at cellml.org] On Behalf Of Alan Garny
>>> Sent: Friday, 23 April 2010 11:43 p.m.
>>> To: 'CellML Discussion List'
>>> Subject: Re: [cellml-discussion] ABI CellML Meeting Minutes, 21st
>>> April
>> 2010
>>>
>>> But aren't or, rather, shouldn't ICs be provided by the model
>>> developer?
>> Or
>>> is it the case that you want to be able to determine the ICs, should
>>> the model developer not have provided some? Then again, if no ICs
>>> have
>>> been provided, then this would be a shortcoming of the model, and
>>> rather than trying to determine some ICs, we should try to get the
>>> ICs
>>> from the model author. Just thinking 'aloud', so sorry if I am
>>> missing
>>> something obvious here (not least because I have never 'played' with
> DAEs
>> myself).
>>>
>>> Alan
>>>
>>>> -----Original Message-----
>>>> From: cellml-discussion-bounces at cellml.org
>>>> [mailto:cellml-discussion- bounces at cellml.org] On Behalf Of Randall
>>>> Britten
>>>> Sent: 23 April 2010 12:35
>>>> To: CellML Discussion List
>>>> Subject: Re: [cellml-discussion] ABI CellML Meeting Minutes, 21st
>>>> April
>>> 2010
>>>>
>>>> DAEs are a little more complex, it isn't always obvious which
>>>> unknowns require initial conditions, or how to ensure ICs are
> consistent.
>>>>
>>>> Regards,
>>>> Randall
>>>>
>>>> On 23/04/2010, at 8:50 PM, "Alan Garny" <alan.garny at dpag.ox.ac.uk>
>>>> wrote:
>>>>
>>>>> Sorry, one more (non-OpenCell) comment:
>>>>> - "... the biggest problem is using IDA's default solver for
>>>>> initial conditions..." -- What is exactly meant by solver for
>>>>> initial conditions? Do you mean that you are trying to use IDA to
>>>>> determine what the initial value of the state variables should
>>>>> (i.e. like those
>>>>> 99 guesses in the original OpenCell DAE solver?)? I would
>>>>> think/hope not (I thought we had 'agreed' to provide the initial
>>>>> conditions to the solver?).
>>>>>
>>>>> Alan
>>>>>
>>>>>> -----Original Message-----
>>>>>> From: cellml-discussion-bounces at cellml.org
>>>>>> [mailto:cellml-discussion- bounces at cellml.org] On Behalf Of
>>>>>> Dougal Cowan
>>>>>> Sent: 22 April 2010 21:19
>>>>>> To: CellML Discussion List
>>>>>> Subject: [cellml-discussion] ABI CellML Meeting Minutes, 21st
>>>>>> April
>>>>>> 2010
>>>>>>
>>>>>> I have put the minutes from this week's meeting up at:
>>>>>>
>>>>>> http://www.cellml.org/community/meeting/minutes/2010/04.21
>>>>>>
>>>>>> Thanks,
>>>>>> Dougal
>>>>>>
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>>>>>
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