diff --git a/aspect-model-editor-service/pom.xml b/aspect-model-editor-service/pom.xml
index 1199ded8..ffdbc08e 100644
--- a/aspect-model-editor-service/pom.xml
+++ b/aspect-model-editor-service/pom.xml
@@ -39,10 +39,6 @@
          <groupId>org.eclipse.esmf</groupId>
          <artifactId>esmf-native-support</artifactId>
       </dependency>
-      <dependency>
-         <groupId>org.apache.commons</groupId>
-         <artifactId>commons-compress</artifactId>
-      </dependency>
 
       <!-- ESMF dependencies -->
       <dependency>
diff --git a/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/ModelService.java b/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/ModelService.java
index 7e48a448..728f30a3 100644
--- a/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/ModelService.java
+++ b/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/ModelService.java
@@ -16,6 +16,7 @@
 import java.io.File;
 import java.io.IOException;
 import java.net.URI;
+import java.nio.file.Files;
 import java.nio.file.Path;
 import java.util.ArrayList;
 import java.util.List;
@@ -85,9 +86,8 @@ public AspectModelResult getModel( final AspectModelUrn aspectModelUrn, final @N
                loadModelFromUrn( aspectModelUrn );
          validateModel( aspectModel );
 
-         return aspectModel.files().stream().filter( a -> a.elements().stream().anyMatch(
-                     e -> ( e instanceof DefaultScalarValue && ( (DefaultScalarValue) e ).getType()
-                           .equals( new DefaultScalar( aspectModelUrn.toString() ) ) ) || e.urn().equals( aspectModelUrn ) ) ).findFirst()
+         return aspectModel.files().stream().filter( file -> containsElement( file, aspectModelUrn ) )
+               .filter( aspectModelFile -> aspectModelFile.sourceLocation().isPresent() ).filter( this::hasValidCasing ).findFirst()
                .map( aspectModelFile -> new AspectModelResult( aspectModelFile.filename(),
                      AspectSerializer.INSTANCE.aspectModelFileToString( aspectModelFile ) ) )
                .orElseThrow( () -> new FileNotFoundException( "Aspect Model not found" ) );
@@ -96,6 +96,29 @@ public AspectModelResult getModel( final AspectModelUrn aspectModelUrn, final @N
       }
    }
 
+   private boolean containsElement( final AspectModelFile file, final AspectModelUrn aspectModelUrn ) {
+      return file.elements().stream().anyMatch( e -> ( e instanceof DefaultScalarValue && ( (DefaultScalarValue) e ).getType()
+            .equals( new DefaultScalar( aspectModelUrn.toString() ) ) ) || e.urn().equals( aspectModelUrn ) );
+   }
+
+   private boolean hasValidCasing( final AspectModelFile aspectModelFile ) {
+      try {
+         final URI sourceLocation = aspectModelFile.sourceLocation().orElseThrow( () -> new IOException( "Source location not present" ) );
+         final Path file = Path.of( sourceLocation );
+
+         if ( !Files.exists( file ) ) {
+            return false;
+         }
+
+         final Path realPath = file.toRealPath();
+         final Path providedPath = file.toAbsolutePath().normalize();
+
+         return realPath.getFileName().toString().equals( providedPath.getFileName().toString() );
+      } catch ( final IOException e ) {
+         return false;
+      }
+   }
+
    private AspectModel loadModelFromUrn( final AspectModelUrn aspectModelUrn ) {
       final Supplier<AspectModel> aspectModelSupplier = ModelUtils.getAspectModelSupplier( aspectModelUrn, aspectModelLoader );
       return aspectModelSupplier.get();
@@ -254,8 +277,7 @@ public boolean checkElementExists( final AspectModelUrn aspectModelUrn, final St
       try {
 
          System.out.println( loadModelFromUrn( aspectModelUrn ).files() );
-         return loadModelFromUrn( aspectModelUrn ).files().stream()
-               .anyMatch( f -> !fileName.equals( f.filename().orElse( "" ) ) );
+         return loadModelFromUrn( aspectModelUrn ).files().stream().anyMatch( f -> !fileName.equals( f.filename().orElse( "" ) ) );
       } catch ( final ModelResolutionException e ) {
          return false;
       }
diff --git a/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/utils/ModelGroupingUtils.java b/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/utils/ModelGroupingUtils.java
index 6f239949..cabeccae 100644
--- a/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/utils/ModelGroupingUtils.java
+++ b/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/utils/ModelGroupingUtils.java
@@ -15,23 +15,24 @@
 
 import java.io.File;
 import java.net.URI;
-import java.util.AbstractMap;
-import java.util.Comparator;
-import java.util.LinkedHashMap;
-import java.util.List;
-import java.util.Map;
-import java.util.Optional;
+import java.nio.file.Path;
+import java.util.*;
 import java.util.stream.Collectors;
 import java.util.stream.Stream;
 
+import org.apache.jena.rdf.model.*;
+import org.apache.jena.vocabulary.RDF;
 import org.eclipse.esmf.ame.services.models.Model;
 import org.eclipse.esmf.ame.services.models.Version;
 import org.eclipse.esmf.aspectmodel.AspectModelFile;
 import org.eclipse.esmf.aspectmodel.loader.AspectModelLoader;
 import org.eclipse.esmf.aspectmodel.resolver.AspectModelFileLoader;
+import org.eclipse.esmf.aspectmodel.resolver.modelfile.RawAspectModelFile;
 import org.eclipse.esmf.aspectmodel.urn.AspectModelUrn;
-import org.eclipse.esmf.metamodel.AspectModel;
 import org.eclipse.esmf.metamodel.ModelElement;
+import org.eclipse.esmf.metamodel.vocabulary.SAMM;
+import org.eclipse.esmf.metamodel.vocabulary.SAMMC;
+import org.eclipse.esmf.metamodel.vocabulary.SAMME;
 import org.eclipse.esmf.metamodel.vocabulary.SammNs;
 import org.eclipse.esmf.samm.KnownVersion;
 
@@ -42,7 +43,7 @@
  *
  * @param aspectModelLoader the loader for aspect models
  */
-public record ModelGroupingUtils( AspectModelLoader aspectModelLoader ) {
+public record ModelGroupingUtils(AspectModelLoader aspectModelLoader) {
    /**
     * Constructs a ModelGrouper with the given base model path.
     */
@@ -52,7 +53,7 @@ public record ModelGroupingUtils( AspectModelLoader aspectModelLoader ) {
    /**
     * Groups model URIs by namespace and version, setting the existing field as specified.
     *
-    * @param uriStream a stream of model URIs
+    * @param uriStream        a stream of model URIs
     * @param onlyAspectModels get only Aspect Models with Aspects as namespace list.
     * @return a map where the keys are namespaces and the values are lists of maps containing versions and their associated models
     */
@@ -63,48 +64,155 @@ public Map<String, List<Version>> groupModelsByNamespaceAndVersion( final Stream
    /**
     * Groups model URIs by namespace and version, setting the existing field as specified.
     *
-    * @param files a List of model Files
+    * @param files            a List of model Files
     * @param onlyAspectModels get only Aspect Models with Aspects as namespace list.
     * @return a map where the keys are namespaces and the values are lists of maps containing versions and their associated models
     */
    public Map<String, List<Version>> groupModelsByNamespaceAndVersion( final List<File> files, final boolean onlyAspectModels ) {
-      return files.stream().map( file -> {
-               final Optional<KnownVersion> metaModelVersionFromFile = Try.of(
-                           () -> AspectModelFileLoader.load( file ).sourceModel().getNsPrefixMap().get( SammNs.SAMM.getShortForm() ) )
-                     .flatMap( AspectModelUrn::from ).toJavaOptional().map( AspectModelUrn::getVersion )
-                     .flatMap( KnownVersion::fromVersionString );
-               final AspectModel loadedModel = aspectModelLoader.load( file );
-               return new AbstractMap.SimpleEntry<>( loadedModel, metaModelVersionFromFile );
-            } ).flatMap(
-                  entry -> entry.getKey().files().stream().flatMap( file -> extractModelElement( file, onlyAspectModels ) ).map( modelElement -> {
-                     assert entry.getValue().orElse( null ) != null;
-                     return createModel( modelElement, entry.getValue().orElse( null ) );
-                  } ) ).collect( Collectors.groupingBy( model -> model.aspectModelUrn().getNamespaceMainPart() ) ).entrySet().stream()
-            .sorted( Map.Entry.comparingByKey() )
-            .collect( Collectors.toMap( Map.Entry::getKey, entry -> groupByVersion( entry.getValue() ), ( v1, v2 ) -> {
-               throw new RuntimeException( String.format( "Duplicate key for values %s and %s", v1, v2 ) );
-            }, LinkedHashMap::new ) );
+      final List<Model> allModels = loadAndExtractModels( files, onlyAspectModels );
+      final Map<String, List<Model>> modelsByNamespace = groupByNamespace( allModels );
+
+      return modelsByNamespace.entrySet().stream()
+              .sorted( Map.Entry.comparingByKey() )
+              .collect( Collectors.toMap(
+                      Map.Entry::getKey,
+                      entry -> groupByVersion( entry.getValue() ),
+                      this::throwOnDuplicateKey,
+                      LinkedHashMap::new ) );
+   }
+
+   private List<Model> loadAndExtractModels( final List<File> files, final boolean onlyAspectModels ) {
+      return files.stream()
+              .map( this::loadModelWithVersion )
+              .flatMap( entry -> extractModelsFromEntry( entry, onlyAspectModels ) )
+              .toList();
+   }
+
+   private Map.Entry<RawAspectModelFile, Optional<KnownVersion>> loadModelWithVersion( final File file ) {
+      final RawAspectModelFile rawFile = AspectModelFileLoader.load( file );
+      final Optional<KnownVersion> metaModelVersion = extractMetaModelVersion( rawFile );
+
+      return new AbstractMap.SimpleEntry<>( rawFile, metaModelVersion );
+   }
+
+   private Optional<KnownVersion> extractMetaModelVersion( final RawAspectModelFile rawFile ) {
+      return Try.of( () -> rawFile.sourceModel().getNsPrefixMap().get( SammNs.SAMM.getShortForm() ) )
+              .flatMap( AspectModelUrn::from )
+              .toJavaOptional()
+              .map( AspectModelUrn::getVersion )
+              .flatMap( KnownVersion::fromVersionString );
+   }
+
+   private Stream<Model> extractModelsFromEntry(final Map.Entry<RawAspectModelFile, Optional<KnownVersion>> entry, final boolean onlyAspectModels) {
+      final KnownVersion version = entry.getValue()
+              .orElseThrow(() -> new IllegalStateException("Meta model version is required"));
+      final RawAspectModelFile rawFile = entry.getKey();
+
+      final String filename = extractFilename(rawFile);
+      final List<Resource> resources = collectMetaModelResources(version);
+      final Resource firstNonBlankSubject = findFirstNonBlankSubject(rawFile.sourceModel(), resources, filename);
+
+      final Model model = new Model(filename, AspectModelUrn.fromUrn(firstNonBlankSubject.getURI()),
+              version.toVersionString(), true);
+
+      return Stream.of(model);
+   }
+
+   private String extractFilename(final RawAspectModelFile rawFile) {
+      return rawFile.sourceLocation()
+              .map(uri -> Path.of(uri).getFileName().toString())
+              .orElse("unnamed file");
+   }
+
+   private List<Resource> collectMetaModelResources(final KnownVersion version) {
+      final SAMM samm = new SAMM(version);
+      final SAMMC sammc = new SAMMC(version);
+      final SAMME samme = new SAMME(version, samm);
+
+      return Stream.of(
+              Stream.of(samm.Aspect(), samm.Property(), samm.Operation(), samm.Event(),
+                      samm.Entity(), samm.Value(), samm.Characteristic(), samm.Constraint(),
+                      samm.AbstractEntity(), samm.AbstractProperty()),
+              samme.allEntities(),
+              sammc.allCharacteristics(),
+              sammc.allConstraints(),
+              sammc.allCollections()
+      ).flatMap(s -> s).toList();
+   }
+
+   private Resource findFirstNonBlankSubject(final org.apache.jena.rdf.model.Model sourceModel, final List<Resource> resources, final String filename) {
+      return resources.stream()
+              .flatMap(resource -> sourceModel.listStatements(null, RDF.type, resource).toList().stream())
+              .map(Statement::getSubject)
+              .filter(subject -> !subject.isAnon())
+              .findFirst()
+              .orElseThrow(() -> new IllegalStateException("No non-blank subject found in " + filename));
+   }
+
+   private Map<String, List<Model>> groupByNamespace( final List<Model> models ) {
+      return models.stream()
+              .collect( Collectors.groupingBy( model ->
+                      model.aspectModelUrn().getNamespaceMainPart() ) );
    }
 
    private Stream<ModelElement> extractModelElement( final AspectModelFile file, final boolean onlyAspectModels ) {
+
+      final Optional<ModelElement> aspectElement = file.aspects().stream()
+              .map( ModelElement.class::cast )
+              .findFirst();
+
       if ( onlyAspectModels ) {
-         return file.aspects().stream().map( ModelElement.class::cast ).findFirst().stream();
+         return aspectElement.stream();
       }
 
-      return file.aspects().stream().map( ModelElement.class::cast ).findFirst()
-            .or( () -> file.elements().stream().filter( element -> !element.isAnonymous() ).findAny() ).stream();
+      return aspectElement
+              .or( () -> findFirstNonAnonymousElement( file ) )
+              .stream();
    }
 
-   private Model createModel( final ModelElement element, final KnownVersion version ) {
-      final String filename = element.getSourceFile().filename().orElse( "unnamed file" );
-      return new Model( filename, element.urn(), version.toVersionString(), true );
+   private Optional<ModelElement> findFirstNonAnonymousElement( final AspectModelFile file ) {
+      return file.elements().stream()
+              .filter( element -> !element.isAnonymous() )
+              .findAny();
    }
 
    private List<Version> groupByVersion( final List<Model> models ) {
+      final Map<AspectModelUrn, Model> uniqueModels = removeDuplicateModels( models );
+      final Map<String, List<Model>> modelsByVersion = groupModelsByVersionString( uniqueModels );
+
+      return modelsByVersion.entrySet().stream()
+              .sorted( Map.Entry.comparingByKey() )
+              .map( this::createVersionEntry )
+              .toList();
+   }
+
+   private Map<AspectModelUrn, Model> removeDuplicateModels( final List<Model> models ) {
       return models.stream()
-            .collect( Collectors.toMap( Model::aspectModelUrn, model -> model, ( existing, duplicate ) -> existing, LinkedHashMap::new ) )
-            .values().stream().collect( Collectors.groupingBy( model -> model.aspectModelUrn().getVersion() ) ).entrySet().stream()
-            .sorted( Map.Entry.comparingByKey() ).map( entry -> new Version( entry.getKey(),
-                  entry.getValue().stream().sorted( Comparator.comparing( Model::model ) ).toList() ) ).toList();
+              .collect( Collectors.toMap(
+                      Model::aspectModelUrn,
+                      model -> model,
+                      ( existing, duplicate ) -> existing,
+                      LinkedHashMap::new ) );
    }
+
+   private Map<String, List<Model>> groupModelsByVersionString(
+           final Map<AspectModelUrn, Model> uniqueModels ) {
+
+      return uniqueModels.values().stream()
+              .collect( Collectors.groupingBy( model ->
+                      model.aspectModelUrn().getVersion() ) );
+   }
+
+   private Version createVersionEntry( final Map.Entry<String, List<Model>> entry ) {
+      final List<Model> sortedModels = entry.getValue().stream()
+              .sorted( Comparator.comparing( Model::model ) )
+              .toList();
+      return new Version( entry.getKey(), sortedModels );
+   }
+
+   private <T> T throwOnDuplicateKey( final T v1, final T v2 ) {
+      throw new RuntimeException(
+              String.format( "Duplicate key for values %s and %s", v1, v2 ) );
+   }
+
 }
diff --git a/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/utils/ModelUtils.java b/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/utils/ModelUtils.java
index edc734f9..f31678b3 100644
--- a/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/utils/ModelUtils.java
+++ b/aspect-model-editor-service/src/main/java/org/eclipse/esmf/ame/services/utils/ModelUtils.java
@@ -233,7 +233,7 @@ public AspectModel get() {
     * @return the loaded {@link AspectModel}
     */
    public static AspectModel loadModelFromFile( final Path modelPath, final String filePath, final AspectModelLoader aspectModelLoader ) {
-      final Path path = Paths.get( filePath ).normalize();
+      final Path path = Paths.get( filePath.replace( ":", File.separator ) ).normalize();
       final String[] pathParts = StreamSupport.stream( path.spliterator(), false ).map( Path::toString ).toArray( String[]::new );
       final Path aspectModelPath = constructModelPath( modelPath, pathParts[0], pathParts[1], pathParts[2] );
       return aspectModelLoader.load( aspectModelPath.toFile() );
diff --git a/aspect-model-editor-web/pom.xml b/aspect-model-editor-web/pom.xml
index 0582862e..6039d642 100644
--- a/aspect-model-editor-web/pom.xml
+++ b/aspect-model-editor-web/pom.xml
@@ -52,10 +52,6 @@
       </dependency>
 
       <!-- Third party dependencies -->
-      <dependency>
-         <groupId>org.apache.velocity</groupId>
-         <artifactId>velocity-engine-core</artifactId>
-      </dependency>
       <dependency>
          <groupId>io.micronaut</groupId>
          <artifactId>micronaut-http-client</artifactId>
diff --git a/aspect-model-editor-web/src/main/java/org/eclipse/esmf/ame/api/ModelController.java b/aspect-model-editor-web/src/main/java/org/eclipse/esmf/ame/api/ModelController.java
index d705f235..13b0b9f3 100644
--- a/aspect-model-editor-web/src/main/java/org/eclipse/esmf/ame/api/ModelController.java
+++ b/aspect-model-editor-web/src/main/java/org/eclipse/esmf/ame/api/ModelController.java
@@ -75,11 +75,9 @@ private AspectModelUrn parseAspectModelUrn( final Optional<String> urn ) {
     */
    @Get()
    @Produces( MediaTypeExtension.TEXT_TURTLE_VALUE )
-   public HttpResponse<String> getModel( @Header( URN ) final Optional<String> urn,
-         @Header( "file-path" ) final Optional<String> filePath ) {
+   public HttpResponse<String> getModel( @Header( URN ) final Optional<String> urn ) {
       final AspectModelUrn aspectModelUrn = parseAspectModelUrn( urn );
-      final String path = filePath.orElse( null );
-      return HttpResponse.ok( modelService.getModel( aspectModelUrn, path ).content() );
+      return HttpResponse.ok( modelService.getModel( aspectModelUrn, null ).content() );
    }
 
    /**
@@ -93,8 +91,7 @@ public HttpResponse<String> getModel( @Header( URN ) final Optional<String> urn,
     * @return True if the element exists in a different file, false otherwise
     */
    @Get( uri = "check-element", consumes = MediaType.APPLICATION_JSON )
-   public HttpResponse<Boolean> checkElementExists( @Header( URN ) final Optional<String> urn,
-         @QueryValue() final String fileName ) {
+   public HttpResponse<Boolean> checkElementExists( @Header( URN ) final Optional<String> urn, @QueryValue() final String fileName ) {
       final AspectModelUrn aspectModelUrn = parseAspectModelUrn( urn );
       return HttpResponse.ok( modelService.checkElementExists( aspectModelUrn, fileName ) );
    }
@@ -111,7 +108,7 @@ public HttpResponse<List<FileInformation>> getModelsBatch( @Body final List<File
       for ( final FileEntry entry : fileEntries ) {
          try {
             final AspectModelUrn urn = parseAspectModelUrn( Optional.of( entry.aspectModelUrn() ) );
-            final AspectModelResult aspectModelResult = modelService.getModel( urn, null );
+            final AspectModelResult aspectModelResult = modelService.getModel( urn, entry.absoluteName() );
 
             final FileInformation fileInformation = new FileInformation( entry.absoluteName(), entry.aspectModelUrn(), entry.modelVersion(),
                   aspectModelResult.content(), aspectModelResult.filename().orElse( "" ) );
diff --git a/pom.xml b/pom.xml
index 9308a336..9f300d78 100644
--- a/pom.xml
+++ b/pom.xml
@@ -64,7 +64,7 @@
       <os.platform/>
 
       <!-- Internal esmf dependencies -->
-      <esmf-sdk-version>2.11.1</esmf-sdk-version>
+      <esmf-sdk-version>2.13.0</esmf-sdk-version>
 
       <!-- Versions of third party dependencies -->
       <micronaut.version>4.7.6</micronaut.version>
@@ -84,13 +84,9 @@
       <graalvm.version>24.1.2</graalvm.version>
       <jakarta-validation-api-version>3.0.2</jakarta-validation-api-version>
       <jakarta-version>6.0.0</jakarta-version>
-      <commons-lang-version>3.12.0</commons-lang-version>
       <native-maven-plugin-version>0.9.23</native-maven-plugin-version>
-      <commons-exec-version>1.3</commons-exec-version>
       <jackson-dataformat-xml-version>2.17.2</jackson-dataformat-xml-version>
       <jackson-core-version>2.17.2</jackson-core-version>
-      <commons-compress-version>1.26.0</commons-compress-version>
-      <velocity-version>2.4</velocity-version>
       <graph-support-version>1.5.0</graph-support-version>
 
       <!-- Versions of plugins -->
@@ -322,11 +318,6 @@
             <version>${jakarta-version}</version>
             <scope>provided</scope>
          </dependency>
-         <dependency>
-            <groupId>org.apache.commons</groupId>
-            <artifactId>commons-exec</artifactId>
-            <version>${commons-exec-version}</version>
-         </dependency>
          <dependency>
             <groupId>commons-codec</groupId>
             <artifactId>commons-codec</artifactId>
@@ -348,16 +339,6 @@
             <artifactId>jackson-core</artifactId>
             <version>${jackson-core-version}</version>
          </dependency>
-         <dependency>
-            <groupId>org.apache.commons</groupId>
-            <artifactId>commons-compress</artifactId>
-            <version>${commons-compress-version}</version>
-         </dependency>
-         <dependency>
-            <groupId>org.apache.velocity</groupId>
-            <artifactId>velocity-engine-core</artifactId>
-            <version>${velocity-version}</version>
-         </dependency>
          <dependency>
             <groupId>org.graphper</groupId>
             <artifactId>graph-support-core</artifactId>