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Atomic (base) module proposal #50

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cmungall opened this issue May 16, 2018 · 2 comments
Closed

Atomic (base) module proposal #50

cmungall opened this issue May 16, 2018 · 2 comments

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@cmungall
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@balhoff's proposal
https://docs.google.com/document/d/1eCo5C3aZ9kjhBu98-24c2FHZIHEeFV7I2TJ4Vd6qw6k/edit#

We can merge this into the template:
https://github.com/balhoff/ultimate-ontology-makefile
cmungall added a commit to cmungall/ontology-metadata that referenced this issue May 20, 2018
@cmungall
Created a hierarchy of ontology module types.
85dfaff 
This can be used for injecting ontology header axioms in
tools such as ROBOT, see ontodev/robot#6

This is also useful for the atomic module proposal
see INCATools/ontology-development-kit#50

Unclear if IAO is the best home for this, see information-artifact-ontology#35
@cmungall cmungall mentioned this issue May 20, 2018
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cmungall added a commit to pato-ontology/pato that referenced this issue May 21, 2018
@cmungall
First attempt at making atomic module, see INCATools/ontology-develop…
531dca0 
…ment-kit#50
cmungall added a commit to oborel/obo-relations that referenced this issue May 21, 2018
@cmungall
First attempt at making atomic module, see INCATools/ontology-develop…
2d34386 
…ment-kit#50
@cmungall cmungall mentioned this issue May 21, 2018
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@balhoff balhoff mentioned this issue Jun 4, 2018
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cmungall added a commit to oborel/obo-relations that referenced this issue Jul 30, 2018
@cmungall
First attempt at making atomic module, see INCATools/ontology-develop…
f21b93e 
…ment-kit#50

Conflicts:
	src/ontology/ro-edit.owl
@cmungall cmungall changed the title Atomic module proposal Atomic (base) module proposal Jul 30, 2018
cmungall added a commit to OBOFoundry/OBOFoundry.github.io that referenced this issue Jul 30, 2018
@cmungall
Adding ro/ro-base.owl product
37709be 
INCATools/ontology-development-kit#50
@cmungall
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Some ontologies provide base, some do not.

For now we can hardcode the list in the generator script. If a dependency is passed, and the ontology is known to have a base, then we can switch to using this to build the import

eventually this could be pulled from the OBO central repo

cmungall added a commit to pato-ontology/pato that referenced this issue Aug 5, 2018
@cmungall
base release, see INCATools/ontology-development-kit#50
e1506d2
cmungall added a commit to cmungall/Pheno_odk_test that referenced this issue Aug 6, 2018
@cmungall
Use cl-base to avoid superimposing RO and creating incoherency
8ed89d3 
Fixes https://github.com/obophenotype/Pheno_odk_test/issues/2

See INCATools/ontology-development-kit#50
This was referenced Aug 6, 2018
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@cmungall cmungall mentioned this issue Sep 27, 2018
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@matentzn
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matentzn commented Nov 2, 2018

There is a PR for that, so closing for now.

@matentzn matentzn closed this as completed Nov 2, 2018
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@cmungall @matentzn