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Merged
cmungall merged 2 commits into from
Apr 29, 2024
Merged

Updates for the README #78

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b5f4e49
Add link to ODK Docker image
caufieldjh Feb 15, 2024
a2e00f3
URLs for hp.db -> hp.db.gz
caufieldjh Feb 15, 2024
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6 changes: 3 additions & 3 deletions README.md
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Expand Up @@ -20,7 +20,7 @@ sqlite> SELECT * FROM rdfs_label_statement WHERE value LIKE 'Abnormality of %';
|HP:0000032|HP:0000032|rdfs:label||Abnormality of male external genitalia|xsd:string||


Ready-made SQLite3 builds can also be downloaded for any ontology in [OBO](http://obofoundry.org), using URLs such as https://s3.amazonaws.com/bbop-sqlite/hp.db
Ready-made SQLite3 builds can also be downloaded for any ontology in [OBO](http://obofoundry.org), using URLs such as https://s3.amazonaws.com/bbop-sqlite/hp.db.gz

[relation-graph](https://github.com/balhoff/relation-graph/) is used to pre-generate tables of [entailed edges](https://incatools.github.io/semantic-sql/EntailedEdge/). For example,
all is-a and part-of ancestors of [finger](http://purl.obolibrary.org/obo/UBERON_0002389) in Uberon:
Expand Down Expand Up @@ -73,7 +73,7 @@ semsql download obi -o obi.db

Or simply download using URL of the form:

- https://s3.amazonaws.com/bbop-sqlite/hp.db
- https://s3.amazonaws.com/bbop-sqlite/hp.db.gz

## Attaching databases

Expand Down Expand Up @@ -138,7 +138,7 @@ This assumes `foo.owl` is in the same folder

There are two docker images that can be used:

- ODK
- [ODK](https://hub.docker.com/r/obolibrary/odkfull)
- [semantic-sql](https://hub.docker.com/repository/docker/linkml/semantic-sql)

The ODK image may lag behind
Expand Down