[Ontology-editors] XP file

[Jennifer Deegan (nee Clark)]

Thanks. I don't have neatly commented sanzas like Midori, so if it could 
just pick up on "id: GO:xxxxxxx" in the file of problem stanzas that 
would be awfully helpful.

Jen

Chris Mungall wrote:
> 
> On Mar 5, 2009, at 2:42 AM, Midori Harris wrote:
> 
>> Hi Jen,
>>
>> What Chris did with my BP-CC xps is create a new file for the ones 
>> that *haven't* passed muster as fully checked. (I'll find the relevant 
>> email and forward it.) His plan is to convert the file with the 
>> original name into the file for fully vetted xps, but that hasn't been 
>> done yet. At the moment they're still in the go/scratch/xps/ 
>> directory, and I'm inclined to leave all the xp file there at least 
>> until we have another chat with Chris (mhich maybe we should do soon).
>>
>> Specifically, in go/scratch/xps/ Chris added 
>> biological_process_xp_cellular_component-unvetted.obo, and intends to 
>> strip anything that appears in that file from 
>> biological_process_xp_cellular_component.obo; I presume you can copy 
>> your difficult stanzas into a new file with an '-unvetted.obo' name.
>>
>> Chris - are you still planning to eliminate duplication between 
>> whatever-xps-.obo and whatever-xps-unvetted.obo, or should we work on 
>> that?
> 
> Yes. I will knock together a quick 'obo-subtract' script to do this
> 
>>
>> m
>>
>> On Thu, 5 Mar 2009, Jennifer Deegan (nee Clark) wrote:
>>
>>> Hi,
>>>
>>> The majority (about 650) of my XP stanzas in the bp-self file are 
>>> nearly good to go. There are a bunch of others (about 100) that are 
>>> going to be really difficult to fix and will need extensive 
>>> rearrangements of the live structure.
>>>
>>> I would like to start to move my good stanzas to a file that is 
>>> marked in some way as 'fully checked stanzas'. I feel as if the 
>>> current policy of trying to fix all stanzas in a file before passing 
>>> on the file is stopping the good stanzas from being used. The 
>>> difficult terms that need work may take a *long* time, just because 
>>> of the difficulty of the rearrangements and the current lack of 
>>> support in OBO-Edit.
>>>
>>> I believe the current policy is that finished files will be moved to 
>>> somewhere in go/ontology/. Would you be happy for me to make a 
>>> bp-self file there and start to trickle-feed my fully checked stanzas 
>>> into it? If so, then is there any preference for the location and 
>>> naming scheme?
>>>
>>> Thanks,
>>>
>>> Jennifer
>>>
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