Forums

Hi all,

I noticed that my patch hasn't been applied yet. Is there anything I can
do to help this move forward? Let me know if something is blocking this.

--
Martijn

On 03/07/12 12:48, Martijn van Iersel wrote:
> I have attached a patch that removes (instead of deprecates) all the
> relevant bits, including lisTofSymbolicValues and boundaryCondition.
> I've checked that it compiles and produces valid SBML-Qual output.
>
> I'll send notifications to the sbml-qual mailing list about the removal
> of these methods.
>
> --
> Martijn
>
> On 29/06/12 10:50, Nicolas Rodriguez wrote:
>> On 26/06/12 15:33, Martijn van Iersel wrote:
>>> As you know, during the Colomoto and HARMONY meetings, we discussed
>>> removing some of the unused elements of SBML-Qual, in the hope that
>>> this will make the spec simpler and more mature.
>>>
>>> I've attached a patch that marks the concerned methods as deprecated
>>> in JSBML. This is a conservative approach: most of these are not
>>> actually used by any software at all. So it may be better to remove
>>> these functions instead of deprecating them. If you wish, I could make
>>> a patch for this as well.
>>>
>>> I think the only element that is somewhat used in software is
>>> boundaryCondition on QualitativeSpecies. So it may be a good idea to
>>> deprecate that one and remove all the rest.
>>>
>>
>> Yes, I would remove them. You should send a mail to the colomoto and/or
>> sbml-qual mailing list to see if anybody is using boundaryCondition and
>> remove it as well if nobody reply to complain in the next week.
>>
>>> One final note: the ListOfSymbolicValues on QualitativeSpecies may
>>> still come back in some form or other. However, it's certain that it's
>>> not going to stay in its current form, so it makes sense to remove it
>>> or deprecate it to prevent people from using it accidentally.
>>>
>>
>> Yes, we should remove it as well
>>
>> Let me know if you try to provide a patch for the removal of the unused
>> attributes and elements ?
>>
>> Thanks,
>> Nico
>>
>>
>
>

____________________________________________________________
To manage your jsbml-development list subscription, visit
https://utils.its.caltech.edu/mailman/listinfo/jsbml-development

For a web interface to the jsbml-development mailing list, visit
http://sbml.org/Forums/

For questions or feedback about the jsbml-development list,
contact sbml-team@caltech.edu