From: Nicolas Le N. <le...@eb...> - 2009-01-29 08:26:26
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Frank Bergmann wrote: > - Variable & Parameter: > > - in the OM it does look like we have two separate variable and > parameter objects, after a look at the schema this is not the case. OM is right, schema is wrong. We could use the same parameter.But the variable classes are in fact different, not in their structure, but in their semantics. We seeked parsimony and elegance. But that translated in confusion. We probably need to change the name of variable classes :-( cf. below > - Of course to make variables work in the ChangeMath case, a variable > now can refer directly to a model, where before we would only refer to > variables based on a taskreference. I'm not exactly sure why we did it > that way. Because in the dataGenerator, the SED-ML variable points to the value of a model's variable *as simulated*. The variable used by changeMath is equivalent to COPASI's initial value while the variable used in dataGenerator is equivalent to COPASI's transient value. > However having these two (possibly different) ways to describe > where a variable comes from seems troublesome to me. If possible we want > to avoid tables in the specification telling people what to use when. I agree. -- Nicolas LE NOVERE, Computational Neurobiology, EMBL-EBI, Wellcome-Trust Genome Campus, Hinxton CB101SD UK, Mob:+447833147074, Tel:+441223494521 Fax:468, Skype:n.lenovere, AIM:nlenovere, MSN:nle...@ho... http://www.ebi.ac.uk/~lenov/, http://www.ebi.ac.uk/compneur/ |