[Ontology-editors] marking xp terms

[Midori Harris]

OBO-Editt does roundtrip unrecognized tags, but Jen's talking about the 
pared-down OBO files containing cross-product tags  -- the ones in the 
go/scratch/xps/ directory. Those are generated by some procedure that 
preserves only the ID and intersection_of tags, plus term names as 
exclamation-point comments.

m

On Thu, 9 Apr 2009, Alexander Diehl wrote:

> This points to the problem that comments in OBO files set off by exclamation 
> points are not preserved upon loading and saving an OBO file.  The comments 
> that show term names in stanza lines for relationships to other terms are 
> regenerated upon every save (keeps term names updated).
>
> It would be nice to have a tag for term specific comments that roundtrips 
> within a term stanza, but is not part of the official term data associated 
> with the term, and is not the same as the "comment:" field.  Does OBO-edit 2 
> automatically roundtrip unrecognized tags and their values?  If so, you could 
> just use your own made up tag.
>
> -- Alex
>
>
> Jennifer Deegan (nee Clark) wrote:
>> Hi,
>> 
>> Has anybody come up with any cunning schemes for marking which terms they 
>> have checked in the cross product file?
>> 
>> I am working through bp-self in OE2 just now, checking the graph above the 
>> term that has a logical definition in the xp file. I started by putting 
>> '!!' on the end of the term name in the xp text file to mark the terms I 
>> had checked. I planned then to reload all the files and do a search on 'has 
>> is_intersection' AND NOT 'has name ends_with !!'. However, when I load the 
>> files, the version of the term names in the live file overwrites the 
>> version in the xp file and the !! is lost. If I load the files in the 
>> opposite order then it should solve this problem, but then I would have no 
>> way of noticing those terms in the live file that have changed their name 
>> since my xp file was made (quite a lot of them going by experience so far.)
>> 
>> It's hard to mark these even if I mark with dbxrefs in OBO-Edit and then 
>> save out and filter to regenerate my xp file, as the dbxrefs to not go in 
>> there.
>> 
>> Is there any other way to mark a term name that would not be overwritten by 
>> the live file version of the term name?
>> 
>> Thanks,
>> 
>> Jen
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>
>
>