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Re: [ddlm-group] DDLm aliases (subject changed). .. .. .. .. .. .... .. .. .

As noted earlier, I will be putting together a demonstration using
these tags together for Madrid in one consolidated DDLm-based imgcif
dictionary to support both DDL2 and DDlm validation, and, hopefully,
a new DDL1 imgCIF version as well.  It will be interesting to
see how well or badly it turns out, especially because it will
also include a DDLm conversion of the portions of the mmCIF
dictionary needed by imgCIF done in the same way.

The advantage of a COMCIFs acceptance of these proposed
tags at this time is that we would avoid the nuisance of
first working with them with the BpluS prefix and then having
to take the prefix out later.

But if PDB users have been able to deal with the PDBx prefixed
tags for all these years, I suppose imgCIF users should be
able to cope with some more prefixed tags for a while.

Regards,
   Herbert

=====================================================
  Herbert J. Bernstein, Professor of Computer Science
    Dowling College, Kramer Science Center, KSC 121
         Idle Hour Blvd, Oakdale, NY, 11769

                  +1-631-244-3035
                  yaya@dowling.edu
=====================================================

On Tue, 15 Feb 2011, James Hester wrote:

> My own position is to reserve support pending a demonstration of the
> utility of the proposed changes, ie I do not favour accepting these
> changes at this time.
>
> The applications for tag sets that I had previously forseen turn out
> to be relatively pointless, and I remain to be convinced that defining
> DDL2/1 tags inside a DDLm dictionary is worthwhile.  I am willing to
> be proved wrong on this.
>
> On Tue, Feb 15, 2011 at 3:00 PM, James Hester <jamesrhester@gmail.com> wrote:
>> Dear DDLm group,
>>
>> As per David's request, will you please indicate whether or not you
>> support the tag set proposal currently posted at
>>
>> http://arcib.dowling.edu/~bernsteh/BplusS_DDLm_changes_2Feb11.dic
>>
>> James.
>>
>> On Tue, Feb 15, 2011 at 3:36 AM, David Brown <idbrown@mcmaster.ca> wrote:
>>> Dear James,
>>>
>>> There seems to be general agreement on Herbert's version of the DDLm changes
>>> to the alias and xref items given at the url in the email below, but we
>>> should have a vote to formally adopt these changes in the draft DDLm that we
>>> are evaluating.  Eventually the fully revised DDLm will have to be voted on
>>> by COMCIFS, but at this stage we need to know that the DDLm discussion group
>>> is on board so that we can start adapting DDLm CIF dictionaries.  In my
>>> case, this will require changes to the majority of items in the dictionary
>>> and I want to make sure that we all agree on how aliases should be presented
>>> before I start making these changes.
>>>
>>> Can you please call for a vote.
>>>
>>> David
>>>
>>>
>>>
>>> Herbert J. Bernstein wrote:
>>>
>>> These messages are getting too long.  I have posted the current
>>> best draft of what I will be using for my own work at
>>>
>>> http://arcib.dowling.edu/~bernsteh/BplusS_DDLm_changes_2Feb11.dic
>>>
>>> which should be considered a preliminary proposal to COMCIFs
>>> in support of the development of a DDLm dictionary for
>>> imgCIF along with a DDLm dictionary for the portion of the
>>> mmCIF dictionary needed to support imgCIF.
>>>
>>> I hope to have practical code using this to demonstrate in Madrid,
>>> when we can discuss it face-to-face.
>>> =====================================================
>>>   Herbert J. Bernstein, Professor of Computer Science
>>>     Dowling College, Kramer Science Center, KSC 121
>>>          Idle Hour Blvd, Oakdale, NY, 11769
>>>
>>>                   +1-631-244-3035
>>>                   yaya@dowling.edu
>>> =====================================================
>>>
>>> On Wed, 2 Feb 2011, Bollinger, John C wrote:
>>>
>>> On Wednesday, February 02, 2011 11:46 AM, Herbert J. Bernstein wrote:
>>> [...]
>>>
>>> I think the original COMCIFS decision of a global
>>> name space was a wise choice for the major applications of
>>> CIF, and would suggest we stick to it for DDLm.
>>>
>>> For the record, lest it be obscured by the volume of rhetoric, none of
>>> the name space issues I have raised in this discussion of DDLm aliases
>>> should be construed as advocacy for COMCIFS changing policy on naming,
>>> prefixes, etc..  The introduction of DDLm is no justification for such a
>>> disruptive move.  All I ask the group to consider is whether DDLm should
>>> provide for cases where COMCIFS policy is not observed.
>>>
>>>
>>> Cheers,
>>>
>>> John
>>>
>>> --
>>> John C. Bollinger, Ph.D.
>>> Department of Structural Biology
>>> St. Jude Children's Research Hospital
>>>
>>>
>>> Email Disclaimer:  www.stjude.org/emaildisclaimer
>>>
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>>>
>>>
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>>>
>>
>>
>>
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>>
>
>
>
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