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Simplify imports for easier local development

The doid-edit.owl imports were coming directly from GitHub
instead of the local versions ext.owl and imports/.
I changed doid-edit.owl, ext.owl and some import OWL files,
to ensure that owl:Imports and ontology IRIs to match each other,
allowing effective use of catalog files for local development.
Then I removed the GitHub redirects from catalog-v001.xml.
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jamesaoverton committed Nov 28, 2016
1 parent 37967f9 commit e9bc22cfbf6cf9f683e1def8ba6e353310c19675
@@ -1,11 +1,5 @@
<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<catalog prefer="public" xmlns="urn:oasis:names:tc:entity:xmlns:xml:catalog">
<uri id="User Entered Import Resolution" name="https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/relations.owl" uri="imports/relations.owl"/>
<uri id="User Entered Import Resolution" name="https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/cl_import.owl" uri="imports/cl_import.owl"/>
<uri id="User Entered Import Resolution" name="https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/hp_import.owl" uri="imports/hp_import.owl"/>
<uri id="User Entered Import Resolution" name="https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/uberon_import.owl" uri="imports/uberon_import.owl"/>
<uri id="User Entered Import Resolution" name="https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/ncbitaxon_import.owl" uri="imports/ncbitaxon_import.owl"/>
<uri id="User Entered Import Resolution" name="https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/ext.owl" uri="ext.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/relations.owl" uri="imports/relations.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/cl_import.owl" uri="imports/cl_import.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/hp_import.owl" uri="imports/hp_import.owl"/>
@@ -20,10 +14,10 @@
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/bridge/umls_bridge.owl" uri="bridge/umls_bridge.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/doid-non-classified.owl" uri="doid-non-classified.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/doid-simple.owl" uri="doid-simple.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/imports/cl_import.owl" uri="imports/cl_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/imports/go_import.owl" uri="imports/go_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/imports/hp_import.owl" uri="imports/hp_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/imports/ncbitaxon_import.owl" uri="imports/ncbitaxon_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/cl_import.owl" uri="imports/cl_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/go_import.owl" uri="imports/go_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/hp_import.owl" uri="imports/hp_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/ncbitaxon_import.owl" uri="imports/ncbitaxon_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/omim_import.owl" uri="imports/omim_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/imports/uberon_import.owl" uri="imports/uberon_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1479837295424" name="http://purl.obolibrary.org/obo/doid/subsets/DO_FlyBase_slim.owl" uri="releases/2016-09-16/subsets/DO_FlyBase_slim.owl"/>

Ontology(<http://purl.obolibrary.org/obo/doid.owl>
<http://purl.obolibrary.org/obo/doid/releases/2016-11-22/doid.owl>
Import(<https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/ext.owl>)
Import(<http://purl.obolibrary.org/obo/doid/obo/ext.owl>)
Annotation(oboInOwl:default-namespace "disease_ontology"^^xsd:string)
Annotation(oboInOwl:auto-generated-by "OBO-Edit 2.3.1"^^xsd:string)
Annotation(oboInOwl:saved-by "elvira"^^xsd:string)
@@ -5,12 +5,12 @@ Prefix(xsd:=<http://www.w3.org/2001/XMLSchema#>)
Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)


Ontology(<https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/ext.owl>
Import(<https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/ncbitaxon_import.owl>)
Import(<https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/uberon_import.owl>)
Import(<https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/hp_import.owl>)
Import(<https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/cl_import.owl>)
Import(<https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/master/src/ontology/imports/relations.owl>)
Ontology(<http://purl.obolibrary.org/obo/doid/obo/ext.owl>
Import(<http://purl.obolibrary.org/obo/doid/imports/ncbitaxon_import.owl>)
Import(<http://purl.obolibrary.org/obo/doid/imports/uberon_import.owl>)
Import(<http://purl.obolibrary.org/obo/doid/imports/hp_import.owl>)
Import(<http://purl.obolibrary.org/obo/doid/imports/cl_import.owl>)
Import(<http://purl.obolibrary.org/obo/doid/imports/relations.owl>)

SubClassOf(<http://purl.obolibrary.org/obo/DOID_0050012> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0002200> <http://purl.obolibrary.org/obo/HP_0002829>))
SubClassOf(<http://purl.obolibrary.org/obo/DOID_0050025> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/IDO_0000664> <http://purl.obolibrary.org/obo/NCBITaxon_948>))
@@ -1,11 +1,10 @@
<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<catalog prefer="public" xmlns="urn:oasis:names:tc:entity:xmlns:xml:catalog">
<group id="Folder Repository, directory=, recursive=true, Auto-Update=true, version=2" prefer="public" xml:base="">
<uri id="Automatically generated entry, Timestamp=1467217799877" name="http://purl.obolibrary.org/obo/doid/imports/imports/cl_import.owl" uri="cl_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1467217799877" name="http://purl.obolibrary.org/obo/doid/imports/imports/go_import.owl" uri="go_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1467217799877" name="http://purl.obolibrary.org/obo/doid/imports/imports/hp_import.owl" uri="hp_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1467217799877" name="http://purl.obolibrary.org/obo/doid/imports/imports/ncbitaxon_import.owl" uri="ncbitaxon_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1467217799877" name="http://purl.obolibrary.org/obo/doid/imports/omim_import.owl" uri="omim_import.owl"/>
<uri id="Automatically generated entry, Timestamp=1467217799877" name="http://purl.obolibrary.org/obo/doid/imports/uberon_import.owl" uri="uberon_import.owl"/>
</group>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/cl_import.owl" uri="cl_import.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/go_import.owl" uri="go_import.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/hp_import.owl" uri="hp_import.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/ncbitaxon_import.owl" uri="ncbitaxon_import.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/omim_import.owl" uri="omim_import.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/relations.owl" uri="relations.owl"/>
<uri id="User Entered Import Resolution" name="http://purl.obolibrary.org/obo/doid/imports/uberon_import.owl" uri="uberon_import.owl"/>
</catalog>
@@ -1,11 +1,11 @@
<?xml version="1.0"?>
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/doid/imports/imports/cl_import.owl#"
xml:base="http://purl.obolibrary.org/obo/doid/imports/imports/cl_import.owl"
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/doid/imports/cl_import.owl#"
xml:base="http://purl.obolibrary.org/obo/doid/imports/cl_import.owl"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/doid/imports/imports/cl_import.owl"/>
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/doid/imports/cl_import.owl"/>



@@ -9,13 +9,13 @@
]>


<rdf:RDF xmlns="http://purl.obolibrary.org/obo/doid/imports/imports/hp_import.owl#"
xml:base="http://purl.obolibrary.org/obo/doid/imports/imports/hp_import.owl"
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/doid/imports/hp_import.owl#"
xml:base="http://purl.obolibrary.org/obo/doid/imports/hp_import.owl"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/doid/imports/imports/hp_import.owl"/>
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/doid/imports/hp_import.owl"/>



@@ -1,11 +1,11 @@
<?xml version="1.0"?>
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/doid/imports/imports/ncbitaxon_import.owl#"
xml:base="http://purl.obolibrary.org/obo/doid/imports/imports/ncbitaxon_import.owl"
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/doid/imports/ncbitaxon_import.owl#"
xml:base="http://purl.obolibrary.org/obo/doid/imports/ncbitaxon_import.owl"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/doid/imports/imports/ncbitaxon_import.owl"/>
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/doid/imports/ncbitaxon_import.owl"/>



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