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Re: [SED-ML-discuss] The 'numberOfPoints' attribute
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From: Bergmann, F. T. <fbe...@ca...> - 2017-06-27 23:31:50
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I’d prefer option 1. Cheers Frank On Jun 27, 2017, at 2:03 PM, Kyle Medley <me...@co...<mailto:me...@co...>> wrote: I was under the mistaken in impression that this change was going to impact SED-ML L1V2 retroactively, but it's actually slated for L1V3 and won't affect libsedml's ability to read older versions, so I also agree with Herbert (i.e. option 2). J Kyle Medley, PhD Candidate Bioengineering/BPSD, Sauro Lab University of Washington, Seattle skype: jkylemedley On 6/27/17 1:47 PM, Moraru,Ion wrote: I agree with Herbert. Ion From: Herbert Sauro [mailto:uw....@gm...] Sent: Tuesday, June 27, 2017 4:21 PM To: sed...@li...<mailto:sed...@li...> Subject: Re: [SED-ML-discuss] The 'numberOfPoints' attribute Given that the sedml community is still very small, it would be better to get it right at this early stage, hence I prefer option 2) change the name to set thing else, e.g. numberOfSteps For those clinging to earlier versions they can check the version of the sedml and interpret numberofpoints in the old way. In that sense I don't think it affects backward compatibility. Herbett On Tue, Jun 27, 2017 at 1:08 PM Kyle Medley <me...@co...<mailto:me...@co...>> wrote: It seems to me that breaking backwards compatibility defeats one of the major advantages of having a standard encoding, so I would prefer option 1. If people are not happy with that, I have a different suggestion: 4) Allow 'numberOfPoints', and do not change its meaning, but also create a new attribute 'numberOfSteps' with the same semantics. 'numberOfPoints' would not be deprecated. Cheers, Kyle J Kyle Medley, PhD Candidate Bioengineering/BPSD, Sauro Lab University of Washington, Seattle skype: jkylemedley On 6/27/17 12:46 PM, Lucian Smith wrote: At HARMONY, the issue was brought up that the 'numberOfPoints' attribute is confusing, because the literal number of expected points in the output file is one more than that: the initial conditions, and the number of *computed* points. It was proposed that we fix this for SED-ML Level 1 Version 3. There are a few options: 1) No change: simply make it more clear in the spec that 'numberOfPoints' means 'number of computed points' aka 'number of steps'. 2) Change the name of the attribute to 'numberOfSteps' or possibly 'numberOfComputedPoints'. 3) Deprecate but allow 'numberOfPoints', and make a new 'numberOfSteps' attribute that people are encouraged to use instead. Any opinions? It seems like the advantage is preventing future confusion, and the cost is having a non-backwards-compatible spec, and the cost of implementation changes for the groups that currently support SED-ML. -Lucian ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org<http://Slashdot.org>! http://sdm.link/slashdot<https://urldefense.proofpoint.com/v2/url?u=http-3A__sdm.link_slashdot&d=DwMFaQ&c=EZxp_D7cDnouwj5YEFHgXuSKoUq2zVQZ_7Fw9yfotck&r=Uahi_Qsm5BuafcKS0wC-iw&m=wKDsf_F966wgDSfa6n7E0NHaXou1yRkMgwEQBGu_w8M&s=9F_v0bUXB6j5kn7Vv_3WfktqtVDUS0b6558jV6juN6A&e=> _______________________________________________ SED-ML-discuss mailing list SED...@li...<mailto:SED...@li...> https://lists.sourceforge.net/lists/listinfo/sed-ml-discuss<https://urldefense.proofpoint.com/v2/url?u=https-3A__lists.sourceforge.net_lists_listinfo_sed-2Dml-2Ddiscuss&d=DwMFaQ&c=EZxp_D7cDnouwj5YEFHgXuSKoUq2zVQZ_7Fw9yfotck&r=Uahi_Qsm5BuafcKS0wC-iw&m=wKDsf_F966wgDSfa6n7E0NHaXou1yRkMgwEQBGu_w8M&s=CJx4rItQ2ECm949FtSEOLLKAjDzxvCHyxfloP89GGCM&e=> ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org<http://Slashdot.org>! http://sdm.link/slashdot<https://urldefense.proofpoint.com/v2/url?u=http-3A__sdm.link_slashdot&d=DwMFaQ&c=EZxp_D7cDnouwj5YEFHgXuSKoUq2zVQZ_7Fw9yfotck&r=Uahi_Qsm5BuafcKS0wC-iw&m=wKDsf_F966wgDSfa6n7E0NHaXou1yRkMgwEQBGu_w8M&s=9F_v0bUXB6j5kn7Vv_3WfktqtVDUS0b6558jV6juN6A&e=>_______________________________________________ SED-ML-discuss mailing list SED...@li...<mailto:SED...@li...> https://lists.sourceforge.net/lists/listinfo/sed-ml-discuss<https://urldefense.proofpoint.com/v2/url?u=https-3A__lists.sourceforge.net_lists_listinfo_sed-2Dml-2Ddiscuss&d=DwMFaQ&c=EZxp_D7cDnouwj5YEFHgXuSKoUq2zVQZ_7Fw9yfotck&r=Uahi_Qsm5BuafcKS0wC-iw&m=wKDsf_F966wgDSfa6n7E0NHaXou1yRkMgwEQBGu_w8M&s=CJx4rItQ2ECm949FtSEOLLKAjDzxvCHyxfloP89GGCM&e=> ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org<http://Slashdot.org>! http://sdm.link/slashdot _______________________________________________ SED-ML-discuss mailing list SED...@li...<mailto:SED...@li...> https://lists.sourceforge.net/lists/listinfo/sed-ml-discuss ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org<http://slashdot.org/>! http://sdm.link/slashdot_______________________________________________ SED-ML-discuss mailing list SED...@li...<mailto:SED...@li...> https://lists.sourceforge.net/lists/listinfo/sed-ml-discuss |
