XP:biological process xp regulation: Difference between revisions
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Manage the XPs directly in the main .obo file | Manage the XPs directly in the main .obo file | ||
=== Alternate plan === | |||
This plan is designed to allow us to press ahead with OE1 (see [[OBO-Edit:Why_xps_wont_work_for_GO_in_OE1]]). | |||
We will take the less conservative step of abandoning [[OBO-Edit:Reasoner Repair Mode|Repair Mode]] and going with reasoner constantly-on mode FOR EDITORS ONLY. The reasoner will be run in batch mode to make the public version of the ontology. | |||
== Tracker Items == | == Tracker Items == |
Revision as of 13:30, 24 June 2008
There is far more detail on this page; however, some of it is historical:
The following rule is implemented in the OE2 semantic parser:
- negative regulation of P -> biological_regulation THAT negatively_regulates P
- regulation of P -> biological_regulation THAT regulates P
- positive regulation of P -> biological_regulation THAT positively_regulates P
The Obol grammar has more complex parsing rules: obol_biological_process_xp_self. See XP:biological_process_xp_multi_organism_process for example
Location:
This directory is updated NIGHTLY
See the README. In particular the newlinks report. This report will become obsolete once the regulation xps are in the main ontology.
Implementation
Short term:
convert to XPs in batch using OE2 semantic parser - editors check the above report and fix missing links
Medium term (post OE2):
Manage the XPs directly in the main .obo file
Alternate plan
This plan is designed to allow us to press ahead with OE1 (see OBO-Edit:Why_xps_wont_work_for_GO_in_OE1).
We will take the less conservative step of abandoning Repair Mode and going with reasoner constantly-on mode FOR EDITORS ONLY. The reasoner will be run in batch mode to make the public version of the ontology.