Merge pull request #44 from casework/UCO-Feature-Issue-449

UCO Issue 449: Add Protege catalog files

Makefile

@@ -23,6 +23,7 @@ all: \
 
 .PHONY: \
   all-dependencies \
+  all-ontology \
   all-shapes \
   all-taxonomy \
   all-tests \
@@ -132,8 +133,13 @@ all-dependencies: \
 	$(MAKE) \
 	  --directory dependencies
 
-all-shapes: \
+all-ontology: \
   all-dependencies
+	$(MAKE) \
+	  --directory ontology
+
+all-shapes: \
+  all-ontology
 	$(MAKE) \
 	  --directory shapes
 

dependencies/Makefile

@@ -15,6 +15,11 @@ SHELL := /bin/bash
 
 top_srcdir := $(shell cd .. ; pwd)
 
+# TODO - After release of CASE 1.2.0, have this reference a different submodule.
+case_srcdir := CASE-unstable
+
+uco_srcdir := $(case_srcdir)/dependencies/UCO
+
 case_develop_ttls := \
   $(wildcard CASE-develop/ontology/*/*.ttl) \
   $(wildcard UCO-develop/ontology/*/*.ttl) \
@@ -48,8 +53,8 @@ rdf_toolkit_jar := $(top_srcdir)/dependencies/CASE/dependencies/UCO/lib/rdf-tool
 all: \
   CASE-develop.ttl \
   CASE-unstable.ttl \
-  dcat-us.jsonld \
-  dependencies.ttl
+  catalog-v001.xml \
+  dcat-us.jsonld
 
 CASE-develop.ttl: \
   $(top_srcdir)/.venv.done.log \
@@ -72,9 +77,29 @@ CASE-unstable.ttl: \
 	    > _$@
 	mv _$@ $@
 
+catalog-v001.xml: \
+  $(case_srcdir)/ontology/master/catalog-v001.xml \
+  $(top_srcdir)/.venv.done.log \
+  $(top_srcdir)/etc/domain_directories.tsv \
+  $(top_srcdir)/etc/dependency_files.tsv \
+  $(uco_srcdir)/src/create-catalog-v001.xml.py \
+  $(uco_srcdir)/ontology/uco/master/catalog-v001.xml \
+  dependencies.ttl
+	rm -f _$@
+	source $(top_srcdir)/venv/bin/activate \
+	  && python3 $(uco_srcdir)/src/create-catalog-v001.xml.py \
+	    --catalog-xml $(case_srcdir)/ontology/master/catalog-v001.xml \
+	    --catalog-xml $(uco_srcdir)/ontology/uco/master/catalog-v001.xml \
+	    _$@ \
+	    $(top_srcdir)/etc/domain_directories.tsv \
+	    $(top_srcdir)/etc/dependency_files.tsv \
+	    "$(top_srcdir)" \
+	    dependencies.ttl
+	mv _$@ $@
+
 # Construction of dependencies.ttl includes UCO OWL review.
 check: \
-  dependencies.ttl
+  catalog-v001.xml
 
 cito.ttl: \
   cito/docs/current/cito.ttl
@@ -90,6 +115,7 @@ clean:
 	@rm -f \
 	  CASE-develop.ttl \
 	  CASE-unstable.ttl \
+	  catalog-v001.xml \
 	  dependencies.ttl
 
 cpannotationschema.ttl:

dependencies/catalog-v001.xml

@@ -0,0 +1,18 @@
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<catalog xmlns="urn:oasis:names:tc:entity:xmlns:xml:catalog" prefer="public">
+    <uri id="User Entered Import Resolution" uri="cito.ttl" name="http://purl.org/spar/cito"/>
+    <uri id="User Entered Import Resolution" uri="cpannotationschema.ttl" name="http://www.ontologydesignpatterns.org/schemas/cpannotationschema.owl"/>
+    <uri id="User Entered Import Resolution" uri="dcat.ttl" name="http://www.w3.org/ns/dcat"/>
+    <uri id="User Entered Import Resolution" uri="dcterms.ttl" name="http://purl.org/dc/terms/"/>
+    <uri id="User Entered Import Resolution" uri="discourse-relationships.ttl" name="http://purl.org/swan/2.0/discourse-relationships/"/>
+    <uri id="User Entered Import Resolution" uri="foaf.ttl" name="http://xmlns.com/foaf/0.1/"/>
+    <uri id="User Entered Import Resolution" uri="prov-o.ttl" name="http://www.w3.org/ns/prov#"/>
+    <uri id="User Entered Import Resolution" uri="prov-o.ttl" name="http://www.w3.org/ns/prov-o#"/>
+    <uri id="User Entered Import Resolution" uri="situation.ttl" name="http://www.ontologydesignpatterns.org/cp/owl/situation.owl"/>
+    <uri id="User Entered Import Resolution" uri="skos.ttl" name="http://www.w3.org/2004/02/skos/core"/>
+    <uri id="User Entered Import Resolution" uri="sosa.ttl" name="http://www.w3.org/ns/sosa/"/>
+    <uri id="User Entered Import Resolution" uri="sosa.ttl" name="https://raw.githubusercontent.com/casework/CASE-Corpora/main/dependencies/sosa.ttl"/>
+    <uri id="User Entered Import Resolution" uri="ssn.ttl" name="http://www.w3.org/ns/ssn/"/>
+    <uri id="User Entered Import Resolution" uri="time.ttl" name="http://www.w3.org/2006/time"/>
+    <uri id="User Entered Import Resolution" uri="vcard.ttl" name="http://www.w3.org/2006/vcard/ns"/>
+</catalog>

etc/dependency_files.tsv

@@ -0,0 +1,15 @@
+http://purl.org/dc/dcam/	${top_srcdir}/dependencies/dcam.ttl
+http://purl.org/dc/elements/1.1/	${top_srcdir}/dependencies/dc.ttl
+http://purl.org/dc/terms/	${top_srcdir}/dependencies/dcterms.ttl
+http://purl.org/spar/cito/2018-02-16	${top_srcdir}/dependencies/cito.ttl
+http://purl.org/swan/2.0/discourse-relationships/	${top_srcdir}/dependencies/discourse-relationships.ttl
+http://www.ontologydesignpatterns.org/cp/owl/situation.owl	${top_srcdir}/dependencies/situation.ttl
+http://www.ontologydesignpatterns.org/schemas/cpannotationschema.owl	${top_srcdir}/dependencies/cpannotationschema.ttl
+http://www.w3.org/2004/02/skos/core	${top_srcdir}/dependencies/skos.ttl
+http://www.w3.org/2006/time#2016	${top_srcdir}/dependencies/time.ttl
+http://www.w3.org/2006/vcard/ns	${top_srcdir}/dependencies/vcard.ttl
+http://www.w3.org/ns/dcat	${top_srcdir}/dependencies/dcat.ttl
+http://xmlns.com/foaf/0.1/	${top_srcdir}/dependencies/foaf.ttl
+https://raw.githubusercontent.com/casework/CASE-Corpora/main/dependencies/prov-o.ttl	${top_srcdir}/dependencies/prov-o.ttl
+https://raw.githubusercontent.com/casework/CASE-Corpora/main/dependencies/sosa.ttl	${top_srcdir}/dependencies/sosa.ttl
+https://raw.githubusercontent.com/casework/CASE-Corpora/main/dependencies/ssn.ttl	${top_srcdir}/dependencies/ssn.ttl

etc/domain_directories.tsv

@@ -0,0 +1,4 @@
+http://example.org/ontology/	${top_srcdir}/ontology/
+http://example.org/shapes/	${top_srcdir}/shapes/
+https://ontology.caseontology.org/	${top_srcdir}/dependencies/CASE-unstable/ontology/
+https://ontology.unifiedcyberontology.org/	${top_srcdir}/dependencies/CASE-unstable/dependencies/UCO/ontology/

ontology/Makefile

@@ -15,11 +15,17 @@ SHELL := /bin/bash
 
 top_srcdir := $(shell cd .. ; pwd)
 
+# TODO - After release of CASE 1.2.0, have this reference a different submodule.
+case_srcdir := $(top_srcdir)/dependencies/CASE-unstable
+
+uco_srcdir := $(case_srcdir)/dependencies/UCO
+
 ontology_files := case-corpora.ttl
 check_ontology_files := $(foreach ontology_file,$(ontology_files),.check-$(ontology_file))
 check_ontology_targets := $(foreach ontology_file,$(ontology_files),check-$(ontology_file))
 
-all:
+all: \
+  catalog-v001.xml
 
 .PRECIOUS: \
   .check-%.ttl
@@ -34,8 +40,29 @@ all:
 	  --target-format turtle
 	mv _$@ $@
 
+catalog-v001.xml: \
+  $(case_srcdir)/ontology/master/catalog-v001.xml \
+  $(top_srcdir)/.venv.done.log \
+  $(top_srcdir)/etc/domain_directories.tsv \
+  $(top_srcdir)/etc/dependency_files.tsv \
+  $(uco_srcdir)/src/create-catalog-v001.xml.py \
+  $(uco_srcdir)/ontology/uco/master/catalog-v001.xml \
+  $(ontology_files)
+	rm -f _$@
+	source $(top_srcdir)/venv/bin/activate \
+	  && python3 $(uco_srcdir)/src/create-catalog-v001.xml.py \
+	    --catalog-xml $(case_srcdir)/ontology/master/catalog-v001.xml \
+	    --catalog-xml $(uco_srcdir)/ontology/uco/master/catalog-v001.xml \
+	    _$@ \
+	    $(top_srcdir)/etc/domain_directories.tsv \
+	    $(top_srcdir)/etc/dependency_files.tsv \
+	    "$(top_srcdir)" \
+	    $(ontology_files)
+	mv _$@ $@
+
 check: \
   $(check_ontology_targets) \
+  catalog-v001.xml \
   uco_owl_review.ttl
 
 check-%.ttl: \
@@ -47,6 +74,7 @@ check-%.ttl: \
 clean:
 	@rm -f \
 	  $(check_ontology_files) \
+	  catalog-v001.xml \
 	  uco_owl_review.ttl
 
 uco_owl_review.ttl: \

ontology/catalog-v001.xml

@@ -0,0 +1,40 @@
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<catalog xmlns="urn:oasis:names:tc:entity:xmlns:xml:catalog" prefer="public">
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/dependencies/collections-ontology/collections.owl" name="http://purl.org/co"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/dependencies/error/docs/current/error.ttl" name="http://purl.org/spar/error"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/co/co.ttl" name="https://ontology.unifiedcyberontology.org/co/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/owl/owl.ttl" name="https://ontology.unifiedcyberontology.org/owl/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/action/action.ttl" name="https://ontology.unifiedcyberontology.org/uco/action/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/analysis/analysis.ttl" name="https://ontology.unifiedcyberontology.org/uco/analysis/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/configuration/configuration.ttl" name="https://ontology.unifiedcyberontology.org/uco/configuration/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/core/core.ttl" name="https://ontology.unifiedcyberontology.org/uco/core/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/identity/identity.ttl" name="https://ontology.unifiedcyberontology.org/uco/identity/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/location/location.ttl" name="https://ontology.unifiedcyberontology.org/uco/location/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/marking/marking.ttl" name="https://ontology.unifiedcyberontology.org/uco/marking/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/master/uco.ttl" name="https://ontology.unifiedcyberontology.org/uco/uco/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/observable/observable.ttl" name="https://ontology.unifiedcyberontology.org/uco/observable/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/pattern/pattern.ttl" name="https://ontology.unifiedcyberontology.org/uco/pattern/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/role/role.ttl" name="https://ontology.unifiedcyberontology.org/uco/role/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/time/time.ttl" name="https://ontology.unifiedcyberontology.org/uco/time/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/tool/tool.ttl" name="https://ontology.unifiedcyberontology.org/uco/tool/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/types/types.ttl" name="https://ontology.unifiedcyberontology.org/uco/types/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/victim/victim.ttl" name="https://ontology.unifiedcyberontology.org/uco/victim/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/dependencies/UCO/ontology/uco/vocabulary/vocabulary.ttl" name="https://ontology.unifiedcyberontology.org/uco/vocabulary/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/ontology/investigation/investigation.ttl" name="https://ontology.caseontology.org/case/investigation/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/ontology/master/case.ttl" name="https://ontology.caseontology.org/case/case/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/CASE-unstable/ontology/vocabulary/vocabulary.ttl" name="https://ontology.caseontology.org/case/vocabulary/1.1.0"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/cito.ttl" name="http://purl.org/spar/cito/2018-02-16"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/cpannotationschema.ttl" name="http://www.ontologydesignpatterns.org/schemas/cpannotationschema.owl"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/dcat.ttl" name="http://www.w3.org/ns/dcat"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/dcterms.ttl" name="http://purl.org/dc/terms/"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/foaf.ttl" name="http://xmlns.com/foaf/0.1/"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/prov-o.ttl" name="http://www.w3.org/ns/prov-o#"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/prov-o.ttl" name="https://raw.githubusercontent.com/casework/CASE-Corpora/main/dependencies/prov-o.ttl"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/situation.ttl" name="http://www.ontologydesignpatterns.org/cp/owl/situation.owl"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/skos.ttl" name="http://www.w3.org/2004/02/skos/core"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/sosa.ttl" name="https://raw.githubusercontent.com/casework/CASE-Corpora/main/dependencies/sosa.ttl"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/ssn.ttl" name="https://raw.githubusercontent.com/casework/CASE-Corpora/main/dependencies/ssn.ttl"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/time.ttl" name="http://www.w3.org/2006/time#2016"/>
+    <uri id="User Entered Import Resolution" uri="../dependencies/vcard.ttl" name="http://www.w3.org/2006/vcard/ns"/>
+    <uri id="User Entered Import Resolution" uri="case-corpora.ttl" name="http://example.org/ontology/case-corpora"/>
+</catalog>

shapes/Makefile

@@ -15,6 +15,11 @@ SHELL := /bin/bash
 
 top_srcdir := $(shell cd .. ; pwd)
 
+# TODO - After release of CASE 1.2.0, have this reference a different submodule.
+case_srcdir := $(top_srcdir)/dependencies/CASE-unstable
+
+uco_srcdir := $(case_srcdir)/dependencies/UCO
+
 shapes_ttl_sources := $(wildcard sh-*.ttl)
 shape_files := \
   $(shapes_ttl_sources) \
@@ -23,6 +28,7 @@ check_shape_files := $(foreach shape_file,$(shape_files),.check-$(shape_file))
 check_shape_targets := $(foreach shape_file,$(shape_files),check-$(shape_file))
 
 all: \
+  catalog-v001.xml \
   shapes.ttl
 
 .PRECIOUS: \
@@ -38,6 +44,28 @@ all: \
 	  --target-format turtle
 	mv _$@ $@
 
+catalog-v001.xml: \
+  $(case_srcdir)/ontology/master/catalog-v001.xml \
+  $(top_srcdir)/.venv.done.log \
+  $(top_srcdir)/etc/domain_directories.tsv \
+  $(top_srcdir)/etc/dependency_files.tsv \
+  $(top_srcdir)/ontology/catalog-v001.xml \
+  $(uco_srcdir)/src/create-catalog-v001.xml.py \
+  $(uco_srcdir)/ontology/uco/master/catalog-v001.xml \
+  shapes.ttl
+	rm -f _$@
+	source $(top_srcdir)/venv/bin/activate \
+	  && python3 $(uco_srcdir)/src/create-catalog-v001.xml.py \
+	    --catalog-xml $(case_srcdir)/ontology/master/catalog-v001.xml \
+	    --catalog-xml $(top_srcdir)/ontology/catalog-v001.xml \
+	    --catalog-xml $(uco_srcdir)/ontology/uco/master/catalog-v001.xml \
+	    _$@ \
+	    $(top_srcdir)/etc/domain_directories.tsv \
+	    $(top_srcdir)/etc/dependency_files.tsv \
+	    "$(top_srcdir)" \
+	    shapes.ttl
+	mv _$@ $@
+
 check: \
   $(check_shape_targets) \
   uco_owl_review.ttl \