Making a release version
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Revision as of 06:03, 8 December 2008 by Dosumis (→Saving implied links and removing foreign terms from in an XP file prior to release)
Making a pre-reasoned ontology from an XP file prior to release
- Step 1: Save with 'save implied links' (save for presentation) selected.
- Step 2: Add auto-defs using autodef.pl
- Step 3: Strip out genus lines of intersections and convert differentiae to regular relationships. To do this use:
your_XP_ontology.obo < grep -v "intersection_of\: [Aa-Zz]*\:[0-9].* \!" | sed 's/^intersection_of\:/relationship\:/' > your_ontology_pre-reasoned.obo
- Note 1: Relationships in differentia are not instantiated during step 1 But perhaps they should be (see ticket*) . This step instantiates them.
- Note 2: It is vital to do this before step 4, otherwise highly dangerous dangling intersections result from disallowing dangling parents)
- Step 4: Strip out foriegn terms. To do this: Save with filter selecting terms that have <insert ID prefix of your ontology>.
Check 'always save properties'. Do not check 'allow dangling parents'
- Step 5: Save with filter to strip redundancy.
- Note - relies on redundancy filters being good. Currently (12/08), they are good for