[Date Prev][Date Next][Thread Prev][Thread Next][Date Index][Thread Index]
Reply to: [list | sender only]
Re: [ddlm-group] A dictionary-writing workshop in Hyderabad?
- To: Group finalising DDLm and associated dictionaries <ddlm-group@iucr.org>
- Subject: Re: [ddlm-group] A dictionary-writing workshop in Hyderabad?
- From: "john.westbrook@rcsb.org" <john.westbrook@rcsb.org>
- Date: Wed, 9 Nov 2016 18:56:41 -0500
- DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed;d=rcsb-org.20150623.gappssmtp.com; s=20150623;h=subject:to:references:from:message-id:date:user-agent:mime-version:in-reply-to:content-transfer-encoding;bh=x43umX1cWP/PLuHPovPCDkVLWGsSl2F/S/aWR/nCp+M=;b=UT7C9M1LzBMvFN7Sw8INMzhj5akuWJvWgfHx8f/4WbKRIvlrfwCi2dNM46s9KABEA4vEd2nIH8gOeT2/CPc+zJBNw364B/sFMvLSN4WDxDO11dLa3dnNL/FEv23nKbxSq3oG4O+Els5Oaqmt8e7Twr9y+z/3O5ND6xidkxR/YTWeHBQh+tbw5JQqD3vNM5iZmHcBAZSWZrZBG1N0Qf3/H7W16PWhs+bM90fTnsfjaT1Hyt7aQOA7jStUQJ9nstXPldmpqTFLaRURhGh9iy5RSoYwuDjXVqpJcDTU375X9JnaOOkVRePjAc0sOKTnVVplZhtkdSv9jSSQAuNX1wd9Gw==
- In-Reply-To: <CABcsX242w_m_fjL7axTOXR6J5ooKWiLFheDnBJJmsWCSGngMjw@mail.gmail.com>
- References: <CAM+dB2c7GSfmfqyGcd06T4gA4x8jbmKHY0WTd_GOO8hw=q=o3g@mail.gmail.com><b7ce2fb9-decb-6492-dad6-3e32ead4682d@rcsb.org><CAM+dB2cD45NTU-QwpDRaR1boxAuuFyh7pvzcq8Lum6Zdg0NGWQ@mail.gmail.com><CABcsX242w_m_fjL7axTOXR6J5ooKWiLFheDnBJJmsWCSGngMjw@mail.gmail.com>
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
Reply to: [list | sender only]
- References:
- [ddlm-group] A dictionary-writing workshop in Hyderabad? (James Hester)
- Re: [ddlm-group] A dictionary-writing workshop in Hyderabad? (john.westbrook@rcsb.org)
- Re: [ddlm-group] A dictionary-writing workshop in Hyderabad? (James Hester)
- Re: [ddlm-group] A dictionary-writing workshop in Hyderabad? (Herbert J. Bernstein)
- Prev by Date: Re: [ddlm-group] A dictionary-writing workshop in Hyderabad?
- Next by Date: Re: [ddlm-group] A dictionary-writing workshop in Hyderabad?
- Prev by thread: Re: [ddlm-group] A dictionary-writing workshop in Hyderabad?
- Next by thread: Re: [ddlm-group] A dictionary-writing workshop in Hyderabad?
- Index(es):