Re: [SED-ML-discuss] Level 1 Version 3?

[Lucian S. <luc...@gm...>]

To be clear, there has been no SED-ML activity on the editors' side since
COMBINE, so, no spec work nor anything else has been done.  Nobody else has
mentioned any work being done on SED-ML on the discussion lists, either.  I
had hoped to have some time to work on a new version of the spec myself
(since I've done a lot of spec work for SBML), but have had to focus my
time elsewhere.  I believe that Frank has been in a similar situation with
libsedml--none of his official duties involve working on the library.  I
think he is also reluctant to work on libsedml without there being an
official spec backing him up--if the spec was officially released, I think
he'd probably be able to find the time to incorporate that into the library.

Ideally, work on the spec could be justified by a grant, but in the absence
of that, the whole effort is living on time borrowed from other projects.

-Lucian

On Tue, May 16, 2017 at 3:31 PM, Herbert Sauro <uw....@gm...> wrote:

> So does the current L1V3 specify how data can be referenced from
> spreadsheets? Is there support for this in libSEDML or I wonder if JWS
> has hand crafted their own code?
>
> Herbert
>
> On Tue, May 16, 2017 at 3:29 PM, David Nickerson
> <dav...@gm...> wrote:
> > yes, we decided at COMBINE 2016 to move to something more in line with
> > CSV or Excel rather than NuML. But this has not yet been written up in
> > the specification. Part of the problem we currently have is that the
> > "current state" of SED-ML is only captured across a couple of google
> > docs, some email treads, and the draft L1V3 specification. Hopefully
> > this will be something we can address during HARMONY.
> >
> > Also, while JWS does make use of L1V3 to link to data, they are using
> > data from Excel spreadsheets - one of the main driving use-cases for
> > the move away from NuML.
> >
> > Cheers,
> > David.
> >
> >
> > On 17 May 2017 at 08:01, Herbert Sauro <uw....@gm...> wrote:
> >> I see. Wasn't it decidedin COMBINE 2016 that we wouldn't be using NuML
> >> or at least priority had moved to using Excel like data sources?
> >> Something like that.
> >>
> >> On another note:
> >>
> >> Might be worth adding a summary of changes in the main spec document
> >> as new versions are released.
> >>
> >> Herbert
> >>
> >>
> >> On Tue, May 16, 2017 at 12:55 PM, Frank T. Bergmann
> >> <fbe...@ca...> wrote:
> >>> Hello Herbert
> >>>
> >>> Version 3 extends the SED-ML language to include addressing of
> >>> external data files, by introducing the datasource construct ... the
> >>> summary is here:
> >>>
> >>> https://github.com/fbergmann/sedml-data-proposal
> >>>
> >>> cheers
> >>> Frank
> >>>
> >>> On Tue, May 16, 2017 at 9:48 PM, Herbert Sauro <uw....@gm...>
> wrote:
> >>>> I just noticed that JWS Online uses Level 1 Version 3 of SED-ML.
> >>>>
> >>>> What's the difference between Version 2 and 3? I couldn't find a
> >>>> summary of the differences in the draft document for Version 3.
> >>>>
> >>>> Herbert
> >>>>
> >>>> ------------------------------------------------------------
> ------------------
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> >>>> _______________________________________________
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> >>>
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> >>
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> >
> >
> >
> > --
> >
> >
> > David Nickerson
> > about.me/david.nickerson
> >
> > ------------------------------------------------------------
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>
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