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Re: [ddlm-group] A dictionary-writing workshop in Hyderabad?

Count me in -
John
On 11/9/16 6:35 PM, Herbert J. Bernstein wrote:> I agree that a concrete objective is desirable, and a CIF dictionary is certainly a useful product to try for, but the main> objective should be content organized in a way that>   1.  Clarifies the terminology used in the target domain;>   2.  Integrates well with the terminology used in related target domains; and>   3.  Integrates well with use in databases> It is quite possible to write a valid CIF domain dictionary that satisfies none of those objectives; so it might be worth some time> on those issues.>> I also think we should build on your suggestion about NeXus and provide at least some practical guidance in how to move between a> CIF dictionary and a NeXus application definition.>>   Regards,>     Herbert>>> On Wed, Nov 9, 2016 at 6:24 PM, James Hester <jamesrhester@gmail.com <mailto:jamesrhester@gmail.com>> wrote:>>     I agree with John W that the considerations in writing dictionaries are largely technology-agnostic, and indeed my proposal>     would be that a large component of the workshop would be separate from any particular ontological language and indeed applicable>     to e.g. NeXus-style efforts.  I think, however, that the workshop has to have a concrete (perhaps stretch) goal, which is that>     actual draft CIF dictionaries/definitions are started (or even finished) as a result of the workshop, which means that towards>     the end of the workshop an introduction to DDL2 and DDLm would be needed.>>     I've had some offline encouragement so I plan to move this idea along.  I will probably take discussions offline (with perhaps>     some progress updates to this group), so if you would like to be included in further discussions please let me know.>>     James.>>>     On 6 November 2016 at 06:02, john.westbrook@rcsb.org <mailto:john.westbrook@rcsb.org> <john.westbrook@rcsb.org>     <mailto:john.westbrook@rcsb.org>> wrote:>>         Hi all,>>         We continue to actively engage our producer and consumer communities in the macromolecular>         domain in developing content extensions that are compatible with our DDL2 infrastructure.>         Increasingly this involves developing compatible content extensions for domains outside>         of the traditional diffraction methods.>>         As David Brown has observed, there is a significant intellectual component in carefully>         defining a domain dictionary content and these are fairly distinct from the particular>         choice for encoding this information.>>         I would suggest to focus any workshop more specifically on the fundamental aspects of>         data definition and organization.   From a technology perspective I would prefer that>         the discussion also address how to contribute content for macromolecular applications as>         well.>>         Regards,>>         John>>>>>         On 11/2/16 10:29 PM, James Hester wrote:>>             Dear DDLm group,>>             From time to time I get enquiries on creating CIF dictionaries for various disciplines (pressure, reflectometry, electron>             diffraction are the most recent).  It occurs to me that there might be sufficient interest in the general and technical>             aspects of>             CIF dictionaries that a one-day workshop at Hyderabad would be worthwhile.  At the conclusion of the workshop,>             participants should>             be able to produce a syntactically-correct (DDLm) dictionary with consistent and correct semantics, and the attendees>             would be>             invited to come prepared with a list of concepts that they would like to put into a dictionary.  In a broader sense, the>             workshop>             would kick-start new dictionary efforts and may interact nicely with those commissions that are being pushed to produce some>             metadata for their fields by the DDDWG/IUCr executive.  In an ideal world, the content of dictionaries begun at the>             workshop could>             be finalised in consultation with colleagues on the spot during the IUCr conference, whether at commission meetings or>             in ad-hoc>             discussions, and some of us could make ourselves available for immediate consultation throughout the meeting.>>             Suggested topics:>             (1) Introduction: dictionary layout, role the dictionary plays, what is a category?>             (2) First steps: collecting and classifying concepts (single-valued, multi-valued, assigned, measured, derived,...)>             (3) Sorting concepts into categories>             (4) Writing the human-readable definitions>             (5) Assigning datanames>             (6) Assigning attributes; overview of available attributes>             (7) Describing interaction with other CIF dictionaries (import)>             (8) How expansion works (the _audit.schema system)>             (9) Adding to existing dictionaries>>             I would not propose covering dREL in detail due to time constraints. Note also that much of the material is not CIF>             specific, but>             whether we want to sell it that way I'm not sure.  There would be plenty of "practical" sessions where participants>             actually worked>             on their own dictionary - we might choose a useful mini-topic as an example for those who haven't come with any>             particular field in>             mind.>>             It would also be useful to have some DDLm dictionary-writing tools (checkers/GUIs) available, if anybody has something>             they could>             polish up in time.>>             What does the rest of the group think of this idea?  While I'm happy to take a lead role in putting it together, we>             would need some>             volunteers to help prepare materials, present, and wander around the room helping.>>             all the best,>             James.>             -->             T +61 (02) 9717 9907 <tel:%2B61%20%2802%29%209717%209907>>             F +61 (02) 9717 3145 <tel:%2B61%20%2802%29%209717%203145>>             M +61 (04) 0249 4148 <tel:%2B61%20%2804%29%200249%204148>>>>             _______________________________________________>             ddlm-group mailing list>             ddlm-group@iucr.org <mailto:ddlm-group@iucr.org>>             http://mailman.iucr.org/cgi-bin/mailman/listinfo/ddlm-group <http://mailman.iucr.org/cgi-bin/mailman/listinfo/ddlm-group>>>>         -->         John Westbrook, Ph.D.>         RCSB, Protein Data Bank>         Rutgers, The State University of New Jersey>         Department of Chemistry and Chemical Biology>         174 Frelinghuysen Rd>         Piscataway, NJ 08854-8087>         e-mail: john.westbrook@rcsb.org <mailto:john.westbrook@rcsb.org>>         Ph: (848) 445-4290 <tel:%28848%29%20445-4290> Fax: (732) 445-4320 <tel:%28732%29%20445-4320>>         _______________________________________________>         ddlm-group mailing list>         ddlm-group@iucr.org <mailto:ddlm-group@iucr.org>>         http://mailman.iucr.org/cgi-bin/mailman/listinfo/ddlm-group <http://mailman.iucr.org/cgi-bin/mailman/listinfo/ddlm-group>>>>>>     -->     T +61 (02) 9717 9907 <tel:%2B61%20%2802%29%209717%209907>>     F +61 (02) 9717 3145 <tel:%2B61%20%2802%29%209717%203145>>     M +61 (04) 0249 4148>>     _______________________________________________>     ddlm-group mailing list>     ddlm-group@iucr.org <mailto:ddlm-group@iucr.org>>     http://mailman.iucr.org/cgi-bin/mailman/listinfo/ddlm-group <http://mailman.iucr.org/cgi-bin/mailman/listinfo/ddlm-group>>>>>> _______________________________________________> ddlm-group mailing list> ddlm-group@iucr.org> http://mailman.iucr.org/cgi-bin/mailman/listinfo/ddlm-group>
-- John Westbrook, Ph.D.RCSB, Protein Data BankRutgers, The State University of New JerseyDepartment of Chemistry and Chemical Biology174 Frelinghuysen RdPiscataway, NJ 08854-8087e-mail: john.westbrook@rcsb.orgPh: (848) 445-4290 Fax: (732) 445-4320_______________________________________________ddlm-group mailing listddlm-group@iucr.orghttp://mailman.iucr.org/cgi-bin/mailman/listinfo/ddlm-group

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