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Classtree generation code #444

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Classtree generation code #444

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560c55f
Merge pull request #3 from dgarijo/develop
situx Dec 29, 2020
87c9de7
Added classtree js generation
situx Dec 29, 2020
434f5b9
Code cleanup
situx Dec 29, 2020
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6 changes: 6 additions & 0 deletions pom.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -49,6 +49,12 @@
<artifactId>owlapi-distribution</artifactId>
<version>5.1.14</version>
</dependency>
<!-- https://mvnrepository.com/artifact/org.json/json -->
<dependency>
<groupId>org.json</groupId>
<artifactId>json</artifactId>
<version>20201115</version>
</dependency>

<dependency>
<groupId>com.googlecode.json-simple </groupId>
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279 changes: 279 additions & 0 deletions src/main/java/widoco/ClassTreeParser.java
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@@ -0,0 +1,279 @@
package widoco;

import java.util.Iterator;
import java.util.Set;
import java.util.TreeSet;

import org.json.JSONArray;
import org.json.JSONObject;
import org.semanticweb.owlapi.model.AxiomType;
import org.semanticweb.owlapi.model.OWLAnnotationProperty;
import org.semanticweb.owlapi.model.OWLClass;
import org.semanticweb.owlapi.model.OWLDataProperty;
import org.semanticweb.owlapi.model.OWLNamedIndividual;
import org.semanticweb.owlapi.model.OWLObjectProperty;
import org.semanticweb.owlapi.model.OWLOntology;
import org.semanticweb.owlapi.model.OWLSubAnnotationPropertyOfAxiom;
import org.semanticweb.owlapi.model.OWLSubClassOfAxiom;
import org.semanticweb.owlapi.model.OWLSubObjectPropertyOfAxiom;
import org.semanticweb.owlapi.model.OWLSubPropertyAxiom;

public class ClassTreeParser {

static JSONObject getClassHierarchyTree( final OWLOntology model) {
Set<String> seenResources=new TreeSet<String>();
Set<String> workedResources=new TreeSet<String>();
JSONObject result=new JSONObject();
result.put("classes",new JSONArray());
result.put("objprop",new JSONArray());
result.put("dataprop",new JSONArray());
result.put("annoprop",new JSONArray());
result.put("individuals",new JSONArray());
System.out.println("SeenResources: "+seenResources);
System.out.println("WorkedResources: "+workedResources);
Iterator<OWLSubClassOfAxiom> sciter = model.axioms(AxiomType.SUBCLASS_OF).iterator();
System.out.println("Hasnext? "+sciter.hasNext());
while (sciter.hasNext())
{
OWLSubClassOfAxiom subClasse=sciter.next();
if (subClasse.getSuperClass() instanceof OWLClass
&& subClasse.getSubClass() instanceof OWLClass)
{
System.out.println(subClasse.getSuperClass().toString()+" - "+subClasse.getSubClass().toString());
if(!seenResources.contains(subClasse.getSubClass().toString()) || (seenResources.contains(subClasse.getSubClass().toString()) && !workedResources.contains(subClasse.getSubClass().toString())) ){
seenResources.add(subClasse.getSuperClass().toString());
seenResources.add(subClasse.getSubClass().toString());
JSONObject treeelem=new JSONObject();
treeelem.put("id",subClasse.getSubClass().toString().replace("<", "").replace(">", ""));
treeelem.put("parent",subClasse.getSuperClass().toString().replace("<", "").replace(">", ""));
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/Classes.gif");
if(subClasse.getSubClass().toString().contains("#")) {
treeelem.put("text",subClasse.getSubClass().toString().substring(subClasse.getSubClass().toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",subClasse.getSubClass().toString().substring(subClasse.getSubClass().toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("classes").put(treeelem);
workedResources.add(subClasse.getSubClass().toString());
}
}
}
System.out.println("SeenResources: "+seenResources);
System.out.println("WorkedResources: "+workedResources);
for(String res:seenResources) {
if(!workedResources.contains(res)) {
System.out.println("Missing Class: "+res);
JSONObject treeelem=new JSONObject();
treeelem.put("id",res.replace("<", "").replace(">", ""));
treeelem.put("parent","#");
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/Classes.gif");
if(res.toString().contains("#")) {
treeelem.put("text",res.toString().substring(res.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",res.toString().substring(res.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("classes").put(treeelem);
}
}
Iterator<OWLClass> classpropiter = model.classesInSignature().iterator();
System.out.println("Hasnext? "+sciter.hasNext());
while (classpropiter.hasNext()) {
OWLClass c=classpropiter.next();
if(!seenResources.contains(c.toString())) {
JSONObject treeelem=new JSONObject();
treeelem.put("id",c.toString().replace("<", "").replace(">", ""));
treeelem.put("parent","#");
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/Classes.gif");
if(c.toString().contains("#")) {
treeelem.put("text",c.toString().substring(c.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",c.toString().substring(c.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("dataprop").put(treeelem);
}
}
//System.out.println(result.getJSONArray("classes").toString(2));
seenResources.clear();
workedResources.clear();
for (OWLClass c : model.getClassesInSignature()) {
for (OWLNamedIndividual i :c.getIndividualsInSignature()) {
JSONObject treeelem=new JSONObject();
treeelem.put("id",i.toString().replace("<", "").replace(">", ""));
treeelem.put("parent",c.toString().replace("<", "").replace(">", ""));
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/OWLIndividual.gif");
if(i.toString().contains("#")) {
treeelem.put("text",i.toString().substring(i.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",i.toString().substring(i.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("individuals").put(treeelem);
}
}
Iterator<OWLSubObjectPropertyOfAxiom> sciter2 = model.axioms(AxiomType.SUB_OBJECT_PROPERTY).iterator();
System.out.println("Hasnext? "+sciter.hasNext());
while (sciter2.hasNext())
{
OWLSubObjectPropertyOfAxiom subClasse = sciter2.next();
if(!seenResources.contains(subClasse.getSuperProperty().toString()) || (seenResources.contains(subClasse.getSubProperty().toString()) && !workedResources.contains(subClasse.getSubProperty().toString()))){
seenResources.add(subClasse.getSuperProperty().toString());
seenResources.add(subClasse.getSubProperty().toString());
JSONObject treeelem=new JSONObject();
treeelem.put("id",subClasse.getSubProperty().toString().replace("<", "").replace(">", ""));
treeelem.put("parent",subClasse.getSuperProperty().toString().replace("<", "").replace(">", ""));
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/OWLObjectProperty.gif");
if(subClasse.getSubProperty().toString().contains("#")) {
treeelem.put("text",subClasse.getSubProperty().toString().substring(subClasse.getSubProperty().toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",subClasse.getSubProperty().toString().substring(subClasse.getSubProperty().toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("objprop").put(treeelem);
workedResources.add(subClasse.getSubProperty().toString());
}
}
System.out.println(seenResources);
System.out.println(workedResources);
for(String res:seenResources) {
if(!workedResources.contains(res)) {
System.out.println("Missing ObjProp: "+res);
JSONObject treeelem=new JSONObject();
treeelem.put("id",res.replace("<", "").replace(">", ""));
treeelem.put("parent","#");
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/OWLObjectProperty.gif");
if(res.toString().contains("#")) {
treeelem.put("text",res.toString().substring(res.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",res.toString().substring(res.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("objprop").put(treeelem);
}
}
Iterator<OWLObjectProperty> objpropiter = model.objectPropertiesInSignature().iterator();
System.out.println("Hasnext? "+sciter.hasNext());
while (objpropiter.hasNext()) {
OWLObjectProperty c=objpropiter.next();
if(!seenResources.contains(c.toString())) {
JSONObject treeelem=new JSONObject();
treeelem.put("id",c.toString().replace("<", "").replace(">", ""));
treeelem.put("parent","#");
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/OWLObjectProperty.gif");
if(c.toString().contains("#")) {
treeelem.put("text",c.toString().substring(c.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",c.toString().substring(c.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("objprop").put(treeelem);
}
}
seenResources.clear();
workedResources.clear();
for (final OWLSubPropertyAxiom subClasse : model.getAxioms(AxiomType.SUB_DATA_PROPERTY))
{
if(!seenResources.contains(subClasse.getSuperProperty().toString()) || (seenResources.contains(subClasse.getSubProperty().toString()) && !workedResources.contains(subClasse.getSubProperty().toString()))){
seenResources.add(subClasse.getSuperProperty().toString());
seenResources.add(subClasse.getSubProperty().toString());
JSONObject treeelem=new JSONObject();
treeelem.put("id",subClasse.getSubProperty().toString().replace("<", "").replace(">", ""));
treeelem.put("parent",subClasse.getSuperProperty().toString().replace("<", "").replace(">", ""));
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/OWLDatatypeProperty.gif");
if(subClasse.getSubProperty().toString().contains("#")) {
treeelem.put("text",subClasse.getSubProperty().toString().substring(subClasse.getSubProperty().toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",subClasse.getSubProperty().toString().substring(subClasse.getSubProperty().toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("dataprop").put(treeelem);
workedResources.add(subClasse.getSubProperty().toString());
}
}
System.out.println("SeenResources: "+seenResources);
System.out.println("WorkedResources: "+workedResources);
for(String res:seenResources) {
if(!workedResources.contains(res)) {
System.out.println("Missing Dataprop: "+res);
JSONObject treeelem=new JSONObject();
treeelem.put("id",res.replace("<", "").replace(">", ""));
treeelem.put("parent","#");
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/OWLDatatypeProperty.gif");
if(res.toString().contains("#")) {
treeelem.put("text",res.toString().substring(res.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",res.toString().substring(res.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("dataprop").put(treeelem);
}
}
Iterator<OWLDataProperty> datapropiter = model.dataPropertiesInSignature().iterator();
System.out.println("Hasnext? "+sciter.hasNext());
while (datapropiter.hasNext()) {
OWLDataProperty c=datapropiter.next();
if(!seenResources.contains(c.toString())) {
JSONObject treeelem=new JSONObject();
treeelem.put("id",c.toString().replace("<", "").replace(">", ""));
treeelem.put("parent","#");
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/OWLDatatypeProperty.gif");
if(c.toString().contains("#")) {
treeelem.put("text",c.toString().substring(c.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",c.toString().substring(c.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("dataprop").put(treeelem);
}
}
seenResources.clear();
workedResources.clear();
for (final OWLSubAnnotationPropertyOfAxiom subClasse : model.getAxioms(AxiomType.SUB_ANNOTATION_PROPERTY_OF))
{
if(!seenResources.contains(subClasse.getSuperProperty().toString()) || (seenResources.contains(subClasse.getSubProperty().toString()) && !workedResources.contains(subClasse.getSubProperty().toString()))){
seenResources.add(subClasse.getSuperProperty().toString());
seenResources.add(subClasse.getSubProperty().toString());
JSONObject treeelem=new JSONObject();
treeelem.put("id",subClasse.getSubProperty().toString().replace("<", "").replace(">", ""));
treeelem.put("parent",subClasse.getSuperProperty().toString().replace("<", "").replace(">", ""));
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/Annotation.gif");
if(subClasse.getSubProperty().toString().contains("#")) {
treeelem.put("text",subClasse.getSubProperty().toString().substring(subClasse.getSubProperty().toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",subClasse.getSubProperty().toString().substring(subClasse.getSubProperty().toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("annoprop").put(treeelem);
workedResources.add(subClasse.getSubProperty().toString());
}
}
System.out.println("SeenResources: "+seenResources);
System.out.println("WorkedResources: "+workedResources);
for(String res:seenResources) {
if(!workedResources.contains(res)) {
System.out.println("Missing Annoprop: "+res);
JSONObject treeelem=new JSONObject();
treeelem.put("id",res.replace("<", "").replace(">", ""));
treeelem.put("parent","#");
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/Annotation.gif");
if(res.toString().contains("#")) {
treeelem.put("text",res.toString().substring(res.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",res.toString().substring(res.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("annoprop").put(treeelem);
}
}
Iterator<OWLAnnotationProperty> annopropiter = model.annotationPropertiesInSignature().iterator();
System.out.println("Hasnext? "+sciter.hasNext());
while (annopropiter.hasNext()) {
OWLAnnotationProperty c=annopropiter.next();
if(!seenResources.contains(c.toString())) {
JSONObject treeelem=new JSONObject();
treeelem.put("id",c.toString().replace("<", "").replace(">", ""));
treeelem.put("parent","#");
treeelem.put("icon","https://raw.githubusercontent.com/protegeproject/protege/master/protege-editor-owl/src/main/resources/Annotation.gif");
if(c.toString().contains("#")) {
treeelem.put("text",c.toString().substring(c.toString().lastIndexOf('#')+1).replace("<", "").replace(">", ""));
}else {
treeelem.put("text",c.toString().substring(c.toString().lastIndexOf('/')+1).replace("<", "").replace(">", ""));
}
result.getJSONArray("annoprop").put(treeelem);
}
}
seenResources.clear();
workedResources.clear();
return result;
}

}
2 changes: 1 addition & 1 deletion src/main/java/widoco/Constants.java
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Expand Up @@ -612,7 +612,7 @@ public static String getIndexDocument(String resourcesFolderName, Configuration

// JSON-LD snippet
document += getJSONLDSnippet(c);
document += "<script src=\"" + resourcesFolderName + "/jquery.js\"></script> \n" + "<script src=\""
document += "<script src=\"https://cdnjs.cloudflare.com/ajax/libs/jstree/3.3.9/jstree.min.js\"></script><script src=\"" + resourcesFolderName + "/classtree.js\"></script><script src=\"" + resourcesFolderName + "/jquery.js\"></script> \n" + "<script src=\""
+ resourcesFolderName + "/marked.min.js\"></script> \n" + " <script> \n" + "function loadHash() {\n"
+ " jQuery(\".markdown\").each(function(el){jQuery(this).after(marked(jQuery(this).text())).remove()});\n"
+ " var hash = location.hash;\n" + " if($(hash).offset()!=null){\n"
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1 change: 1 addition & 0 deletions src/main/java/widoco/CreateResources.java
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Expand Up @@ -125,6 +125,7 @@ public static void generateDocumentation(String outFolder, Configuration c, File
// serialize the model in different serializations.
OWLOntologyManager om = c.getMainOntology().getOWLAPIOntologyManager();
OWLOntology o = c.getMainOntology().getOWLAPIModel();
WidocoUtils.writeClassTreeJSON(o, folderOut + File.separator + "resources"+File.separator+"classtree.js");
WidocoUtils.writeModel(om, o, new RDFXMLDocumentFormat(), folderOut + File.separator + "ontology.xml");
WidocoUtils.writeModel(om, o, new TurtleDocumentFormat(), folderOut + File.separator + "ontology.ttl");
WidocoUtils.writeModel(om, o, new NTriplesDocumentFormat(), folderOut + File.separator + "ontology.nt");
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