Add initial draft of Software overhaul

AJN: This is a transcription of Sean's suggested specific changes to
UCO, and will serve as a starting point for discussion markup.  I've
denoted Sean the patch-author because these changes were his suggestion
initially.

I enacted a few revisions in this patch that are either deviations are
additions to Sean's notes, and seemed necessary for the first patch:

* Concepts marked for removal, migration, and/or deletion are instead
  marked deprecated.  A follow-on patch will implement shapes for
  deprecation.
* I guessed on where the property `hasCharacterization` should be
  defined.
* Another revision is I guessed on how some of the new namespaces'
  direct-imports directions would have to be.
* The tool namesapce needed to pick up a stub reference to
  `ObservableObject`.

A follow-on patch will regenerate Make-managed files.

References:
* #583

Signed-off-by: Alex Nelson <alexander.nelson@nist.gov>

ontology/uco/action/action.ttl

@@ -374,6 +374,26 @@ action:ArrayOfAction
 	sh:targetClass action:ArrayOfAction ;
 	.
 
+action:Implement
+	a owl:Class ;
+	rdfs:subClassOf action:Action ;
+	.
+
+action:Obfuscate
+	a owl:Class ;
+	rdfs:subClassOf action:Action ;
+	.
+
+action:Plan
+	a owl:Class ;
+	rdfs:subClassOf action:Action ;
+	.
+
+action:Respond
+	a owl:Class ;
+	rdfs:subClassOf action:Action ;
+	.
+
 action:action
 	a owl:ObjectProperty ;
 	rdfs:label "action"@en ;

ontology/uco/configuration/configuration.ttl

@@ -115,6 +115,14 @@ configuration:ConfigurationEntry
 	) ;
 	.
 
+configuration:CyberInfrastructureConfiguration
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf configuration:InfrastructureConfiguration ;
+	.
+
 configuration:Dependency
 	a
 		owl:Class ,
@@ -140,6 +148,62 @@ configuration:Dependency
 	sh:targetClass configuration:Dependency ;
 	.
 
+configuration:DeploymentConfiguration
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf configuration:Configuration ;
+	.
+
+configuration:EnvironmentConfiguration
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf configuration:Configuration ;
+	.
+
+configuration:InfrastructureConfiguration
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf configuration:Configuration ;
+	.
+
+configuration:ObservableObjectConfiguration
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf configuration:Configuration ;
+	.
+
+configuration:ServiceConfiguration
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf configuration:ObservableObjectConfiguration ;
+	.
+
+configuration:SoftwareConfiguration
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf configuration:ObservableObjectConfiguration ;
+	.
+
+configuration:SoftwareEnvironmentConfiguration
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf configuration:EnvironmentConfiguration ;
+	.
+
 configuration:configurationEntry
 	a owl:ObjectProperty ;
 	rdfs:comment "A single configuration setting entry item for a tool or other software."@en ;

ontology/uco/core/core.ttl

@@ -598,6 +598,13 @@ core:externalReference
 	rdfs:range core:ExternalReference ;
 	.
 
+core:hasCharacterization
+	a owl:ObjectProperty ;
+	rdfs:comment "TODO - references the Software or Device that make up the actual tool"@en ;
+	rdfs:domain core:UcoObject ;
+	rdfs:range core:UcoObject ;
+	.
+
 core:hasFacet
 	a
 		owl:ObjectProperty ,

ontology/uco/deployment/deployment.ttl

@@ -0,0 +1,61 @@
+# imports: https://ontology.unifiedcyberontology.org/uco/observable/1.3.0
+
+@prefix core: <https://ontology.unifiedcyberontology.org/uco/core/> .
+@prefix deployment: <https://ontology.unifiedcyberontology.org/uco/deployment/> .
+@prefix observable: <https://ontology.unifiedcyberontology.org/uco/observable/> .
+@prefix owl: <http://www.w3.org/2002/07/owl#> .
+@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
+@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
+@prefix sh: <http://www.w3.org/ns/shacl#> .
+@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
+
+<https://ontology.unifiedcyberontology.org/uco/deployment>
+	a owl:Ontology ;
+	rdfs:label "uco-deployment"@en ;
+	rdfs:comment "TODO"@en ;
+	owl:imports observable:1.3.0 ;
+	owl:versionIRI deployment:1.3.0 ;
+	.
+
+deployment:ArtifactDeployment
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf deployment:Deployment ;
+	.
+
+deployment:Deployment
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf core:UcoObject ;
+	sh:property
+		[
+			sh:class core:UcoObject ;
+			sh:nodeKind sh:IRI ;
+			sh:path deployment:deploymentContext ;
+		] ,
+		[
+			sh:class observable:Deploy ;
+			sh:maxCount "1"^^xsd:integer ;
+			sh:nodeKind sh:IRI ;
+			sh:path deployment:deploymentAction ;
+		] ,
+		[
+			sh:class observable:ObservableObject ;
+			sh:nodeKind sh:IRI ;
+			sh:path deployment:deploymentObject ;
+		]
+		;
+	.
+
+deployment:SoftwareDeployment
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf deployment:Deployment ;
+	.
+

ontology/uco/environment/environment.ttl

@@ -0,0 +1,38 @@
+# imports: https://ontology.unifiedcyberontology.org/uco/core/1.3.0
+
+@prefix core: <https://ontology.unifiedcyberontology.org/uco/core/> .
+@prefix environment: <https://ontology.unifiedcyberontology.org/uco/environment/> .
+@prefix owl: <http://www.w3.org/2002/07/owl#> .
+@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
+@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
+@prefix sh: <http://www.w3.org/ns/shacl#> .
+@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
+
+<https://ontology.unifiedcyberontology.org/uco/environment>
+	a owl:Ontology ;
+	rdfs:label "uco-environment"@en ;
+	rdfs:comment "TODO"@en ;
+	owl:imports core:1.3.0 ;
+	owl:versionIRI environment:1.3.0 ;
+	.
+
+environment:Environment
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf core:UcoObject ;
+	sh:property [
+		sh:class core:UcoObject ;
+		sh:path core:hasCharacterization ;
+	] ;
+	.
+
+environment:SoftwareEnvironment
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf environment:Environment ;
+	.
+

ontology/uco/infrastructure/infrastructure.ttl

@@ -0,0 +1,42 @@
+# imports: https://ontology.unifiedcyberontology.org/uco/core/1.3.0
+
+@prefix core: <https://ontology.unifiedcyberontology.org/uco/core/> .
+@prefix infrastructure: <https://ontology.unifiedcyberontology.org/uco/infrastructure/> .
+@prefix owl: <http://www.w3.org/2002/07/owl#> .
+@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
+@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
+@prefix sh: <http://www.w3.org/ns/shacl#> .
+@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
+
+<https://ontology.unifiedcyberontology.org/uco/infrastructure>
+	a owl:Ontology ;
+	rdfs:label "uco-infrastructure"@en ;
+	rdfs:comment "TODO"@en ;
+	owl:imports core:1.3.0 ;
+	owl:versionIRI infrastructure:1.3.0 ;
+	.
+
+infrastructure:CyberInfrastructure
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf infrastructure:Infrastructure ;
+	.
+
+infrastructure:Infrastructure
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf core:UcoObject ;
+	.
+
+infrastructure:PhysicalInfrastructure
+	a
+		owl:Class ,
+		sh:NodeShape
+		;
+	rdfs:subClassOf infrastructure:Infrastructure ;
+	.
+

ontology/uco/master/uco.ttl

@@ -4,7 +4,10 @@
 # imports: https://ontology.unifiedcyberontology.org/uco/analysis/1.3.0
 # imports: https://ontology.unifiedcyberontology.org/uco/configuration/1.3.0
 # imports: https://ontology.unifiedcyberontology.org/uco/core/1.3.0
+# imports: https://ontology.unifiedcyberontology.org/uco/deployment/1.3.0
+# imports: https://ontology.unifiedcyberontology.org/uco/environment/1.3.0
 # imports: https://ontology.unifiedcyberontology.org/uco/identity/1.3.0
+# imports: https://ontology.unifiedcyberontology.org/uco/infrastructure/1.3.0
 # imports: https://ontology.unifiedcyberontology.org/uco/location/1.3.0
 # imports: https://ontology.unifiedcyberontology.org/uco/marking/1.3.0
 # imports: https://ontology.unifiedcyberontology.org/uco/observable/1.3.0
@@ -33,7 +36,10 @@
 		<https://ontology.unifiedcyberontology.org/uco/analysis/1.3.0> ,
 		<https://ontology.unifiedcyberontology.org/uco/configuration/1.3.0> ,
 		<https://ontology.unifiedcyberontology.org/uco/core/1.3.0> ,
+		<https://ontology.unifiedcyberontology.org/uco/deployment/1.3.0> ,
+		<https://ontology.unifiedcyberontology.org/uco/environment/1.3.0> ,
 		<https://ontology.unifiedcyberontology.org/uco/identity/1.3.0> ,
+		<https://ontology.unifiedcyberontology.org/uco/infrastructure/1.3.0> ,
 		<https://ontology.unifiedcyberontology.org/uco/location/1.3.0> ,
 		<https://ontology.unifiedcyberontology.org/uco/marking/1.3.0> ,
 		<https://ontology.unifiedcyberontology.org/uco/observable/1.3.0> ,