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Re: [Obi-instrument-branch] not completely defined classes
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From: frank g. <Fra...@nc...> - 2008-09-10 12:06:37
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[snip] > Have you ever heared of synergetics and non-deterministic 'emergent' > properties? In most cases, when complex systems are tackled, like > instruments and all homeostatic organisations like living things, the whole > is more than the simple sum of its parts and the function of the whole is > more than the sum/list of its parts functions. To answer your question > simply: > Cell count > Cell identification > Cell sorting > are all higher level functions that require an orchestrated interplay of the > parts and function parts of the flow cytometer. The flow cytometer is more > than the sum of its parts/function. The reverse is also true - and entity can be the sum of its parts - this is one issue I have. The mass spec is an example of this where a mass specs function is the function of its parts. The cell examples you give are not a clear example, cell count and cell identification are the same - an instrument measure a characteristic of a cell in order to relay the information of count and identification, sorting we have already identified as a measure and then a compartmentalisation - sticking it in a tube. Anyway - for the short term, I will concede that the restrictions of parts should be moved to neccessary. The issue is that we may have to restate the functions of the parts as a function of the instrument as opposed to inferring it. Frank > > > > > Same issue: > mass spectrometer > device and has_part some 'mass analyzer' > and has_part some 'ion source' > and has_part some 'ion detector' > hybridization station > > > > > > What is the issue here? - hybridization station is not a mass > spectrometer and it does not classify as such > > > don't know where this 'hybridization station' came from. > > > > same as above. > > > > Same issue: > cytometer > device and has_part some 'light source' > and has_part some 'optical filter' > and has_part some photodetector > > I have move the conditions to be necessary but not sufficient for the > moment. > > > > Yes, the only N&S cond is the device functions which we add later. > > > We have device functions. What do you mean here? > > > To cover the emergent but essential function we will add a flow cytometer > function as N&S axion once this is ready. > Cheers, > Daniel. > > > > > This also resolves an issue we are having with the reasoner. > I believe the definitions above can be repaired by addition of a > condition that the instrument has the appropriate function. > > > > > Yes, exactly. > > > > I haven't moved these from _defined_material pending resolution. > > > > > Why are they not under instrument or device ? > > > These are the defined classes, they are in the defined classes bin > _defined_material so they dont get disjoints added to them upon > release. > > > > > > Cheers, Daniel. > > > > -Alan > > > > ------------------------------------------------------------------------- > This SF.Net email is sponsored by the Moblin Your Move Developer's challenge > Build the coolest Linux based applications with Moblin SDK & win great > prizes > Grand prize is a trip for two to an Open Source event anywhere in the world > http://moblin-contest.org/redirect.php?banner_id=100&url=/ > _______________________________________________ > Obi-instrument-branch mailing list > Obi...@li... > https://lists.sourceforge.net/lists/listinfo/obi-instrument-branch > > > > > -- > __________________________________________________________________________________________ > > Dr. Daniel Schober > > NET Project - Ontologist > > The European Bioinformatics Institute email: sc...@eb... > EMBL Outstation - Hinxton direct: +44 (0)1223 494410 > Wellcome Trust Genome Campus fax: +44 (0)1223 494 468 > Cambridge CB10 1SD, UK Room: A3-141 (extension building) > > Project page: www.ebi.ac.uk/net-project > > Personal page: > http://www.ebi.ac.uk/Information/Staff/person_maint.php?s_person_id=734 > Former home page: http://www.bioinf.mdc-berlin.de/%7Eschober/ > > > > ------------------------------------------------------------------------- > This SF.Net email is sponsored by the Moblin Your Move Developer's challenge > Build the coolest Linux based applications with Moblin SDK & win great > prizes > Grand prize is a trip for two to an Open Source event anywhere in the world > http://moblin-contest.org/redirect.php?banner_id=100&url=/ > _______________________________________________ > Obi-instrument-branch mailing list > Obi...@li... > https://lists.sourceforge.net/lists/listinfo/obi-instrument-branch > > > > > > -- > __________________________________________________________________________________________ > > Dr. Daniel Schober > > NET Project - Ontologist > > The European Bioinformatics Institute email: sc...@eb... > EMBL Outstation - Hinxton direct: +44 (0)1223 494410 > Wellcome Trust Genome Campus fax: +44 (0)1223 494 468 > Cambridge CB10 1SD, UK Room: A3-141 (extension building) > > Project page: www.ebi.ac.uk/net-project > > Personal page: > http://www.ebi.ac.uk/Information/Staff/person_maint.php?s_person_id=734 > Former home page: http://www.bioinf.mdc-berlin.de/%7Eschober/ > > -- Frank Gibson Research Associate Room 2.19, Devonshire Building School of Computing Science, Newcastle University, Newcastle upon Tyne, NE1 7RU United Kingdom Telephone: +44-191-246-4933 Fax: +44-191-246-4905 https://homepages.cs.ncl.ac.uk/frank.gibson |