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


I have checked your DDLm draft at the site quoted below and find it acceptable.  The only suggestion I have is that the description of the alias_tag_set category should point out (in the same way as the description of the dictionary_xref category), that this category is not used as attributes of individual data items.  This is true in the normalized state when (I assume, though you never answered my question directly) all the aliases will appear in a single alias_tag_set save_ frame.  After denormalizing they will of course appear in the joined alias category and so in this format will be attributes of individual data items.  I assume this is not a problem.

The advantage of keeping all the aliased datanames (tags) in one save_ frame is that this save_ frame can be kept in a separate dictionary and can be imported as required into a standard dictioanry that otherwise has makes no reference to tag_sets, making dictionary management much simpler, but allowing a user to customize the dictioanry according to their own definition of tag_sets.

I like the alias_tag_set name.  It is more descriptive, shorter and therefore easier to understand.


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


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


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.



John C. Bollinger, Ph.D.
Department of Structural Biology
St. Jude Children's Research Hospital

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