Re: Deprecated SBML-Qual attributes and elements
03 Jul '12 04:48
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.
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 ?
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