Fix project cloning allowing for duplicate versions

pom.xml

@@ -83,6 +83,7 @@
         <!-- Dependency Versions -->
         <frontend.version>4.8.1</frontend.version>
         <lib.alpine.version>${project.parent.version}</lib.alpine.version>
+        <lib.awaitility.version>4.2.0</lib.awaitility.version>
         <lib.cpe-parser.version>2.0.2</lib.cpe-parser.version>
         <lib.cvss-calculator.version>1.4.1</lib.cvss-calculator.version>
         <lib.owasp-rr-calculator.version>1.0.1</lib.owasp-rr-calculator.version>
@@ -400,6 +401,12 @@
             <version>5.15.0</version>
             <scope>test</scope>
         </dependency>
+        <dependency>
+            <groupId>org.awaitility</groupId>
+            <artifactId>awaitility</artifactId>
+            <version>${lib.awaitility.version}</version>
+            <scope>test</scope>
+        </dependency>
     </dependencies>
 
     <build>

src/main/java/org/dependencytrack/persistence/ProjectQueryManager.java

@@ -598,6 +598,15 @@ public Project clone(UUID from, String newVersion, boolean includeTags, boolean
                          boolean includeACL) {
         final Project source = getObjectByUuid(Project.class, from, Project.FetchGroup.ALL.name());
         if (source == null) {
+            LOGGER.warn("Project with UUID %s was supposed to be cloned, but it does not exist anymore".formatted(from));
+            return null;
+        }
+        if (doesProjectExist(source.getName(), newVersion)) {
+            // Project cloning is an asynchronous process. When receiving the clone request, we already perform
+            // this check. It is possible though that a project with the new version is created synchronously
+            // between the clone event being dispatched, and it being processed.
+            LOGGER.warn("Project %s was supposed to be cloned to version %s, but that version already exists"
+                    .formatted(source, newVersion));
             return null;
         }
         Project project = new Project();
@@ -654,6 +663,15 @@ public Project clone(UUID from, String newVersion, boolean includeTags, boolean
             }
         }
 
+        if (includeServices) {
+            final List<ServiceComponent> sourceServices = getAllServiceComponents(source);
+            if (sourceServices != null) {
+                for (final ServiceComponent sourceService : sourceServices) {
+                    cloneServiceComponent(sourceService, project, false);
+                }
+            }
+        }
+
         if (includeAuditHistory && includeComponents) {
             final List<Analysis> analyses = super.getAnalyses(source);
             if (analyses != null) {
@@ -1122,6 +1140,29 @@ public PaginatedResult getProjectsWithoutDescendantsOf(final String name, final
         return result;
     }
 
+    /**
+     * Check whether a {@link Project} with a given {@code name} and {@code version} exists.
+     *
+     * @param name    Name of the {@link Project} to check for
+     * @param version Version of the {@link Project} to check for
+     * @return {@code true} when a matching {@link Project} exists, otherwise {@code false}
+     * @since 4.9.0
+     */
+    @Override
+    public boolean doesProjectExist(final String name, final String version) {
+        final Query<Project> query = pm.newQuery(Project.class);
+        try {
+            query.setFilter("name == :name && version == :version");
+            query.setNamedParameters(Map.of(
+                    "name", name,
+                    "version", version
+            ));
+            query.setResult("count(this)");
+            return query.executeResultUnique(Long.class) > 0;
+        } finally {
+            query.closeAll();
+        }
+    }
 
     private static boolean isChildOf(Project project, UUID uuid) {
         boolean isChild = false;

src/main/java/org/dependencytrack/persistence/QueryManager.java

@@ -409,6 +409,10 @@ public PaginatedResult getProjects(final Tag tag) {
         return getProjectQueryManager().getProjects(tag);
     }
 
+    public boolean doesProjectExist(final String name, final String version) {
+        return getProjectQueryManager().doesProjectExist(name, version);
+    }
+
     public Tag getTagByName(final String name) {
         return getProjectQueryManager().getTagByName(name);
     }

src/main/java/org/dependencytrack/persistence/ServiceComponentQueryManager.java

@@ -212,7 +212,7 @@ public ServiceComponent cloneServiceComponent(ServiceComponent sourceService, Pr
         service.setNotes(sourceService.getNotes());
         service.setVulnerabilities(sourceService.getVulnerabilities());
         service.setProject(destinationProject);
-        return createServiceComponent(sourceService, commitIndex);
+        return createServiceComponent(service, commitIndex);
     }
 
     /**

src/main/java/org/dependencytrack/resources/v1/ProjectResource.java

@@ -39,12 +39,7 @@
 import org.dependencytrack.model.Tag;
 import org.dependencytrack.persistence.QueryManager;
 import org.dependencytrack.resources.v1.vo.CloneProjectRequest;
-import java.security.Principal;
-import java.util.Collection;
-import java.util.List;
-import java.util.Set;
-import java.util.function.BiConsumer;
-import java.util.function.Function;
+
 import javax.jdo.FetchGroup;
 import javax.validation.Validator;
 import javax.ws.rs.Consumes;
@@ -59,6 +54,12 @@
 import javax.ws.rs.QueryParam;
 import javax.ws.rs.core.MediaType;
 import javax.ws.rs.core.Response;
+import java.security.Principal;
+import java.util.Collection;
+import java.util.List;
+import java.util.Set;
+import java.util.function.BiConsumer;
+import java.util.function.Function;
 
 /**
  * JAX-RS resources for processing projects.
@@ -247,8 +248,8 @@ public Response createProject(Project jsonProject) {
                 Project parent = qm.getObjectByUuid(Project.class, jsonProject.getParent().getUuid());
                     jsonProject.setParent(parent);
             }
-            Project project = qm.getProject(StringUtils.trimToNull(jsonProject.getName()), StringUtils.trimToNull(jsonProject.getVersion()));
-            if (project == null) {
+            if (!qm.doesProjectExist(StringUtils.trimToNull(jsonProject.getName()), StringUtils.trimToNull(jsonProject.getVersion()))) {
+                final Project project;
                 try {
                     project = qm.createProject(jsonProject, jsonProject.getTags(), true);
                 } catch (IllegalArgumentException e){
@@ -369,7 +370,7 @@ public Response patchProject(
                 modified |= setIfDifferent(jsonProject, project, Project::getName, Project::setName);
                 modified |= setIfDifferent(jsonProject, project, Project::getVersion, Project::setVersion);
                 // if either name or version has been changed, verify that this new combination does not already exist
-                if (modified && qm.getProject(project.getName(), project.getVersion()) != null) {
+                if (modified && qm.doesProjectExist(project.getName(), project.getVersion())) {
                     return Response.status(Response.Status.CONFLICT).entity("A project with the specified name and version already exists.").build();
                 }
                 modified |= setIfDifferent(jsonProject, project, Project::getAuthor, Project::setAuthor);
@@ -505,7 +506,14 @@ public Response cloneProject(CloneProjectRequest jsonRequest) {
         try (QueryManager qm = new QueryManager()) {
             final Project sourceProject = qm.getObjectByUuid(Project.class, jsonRequest.getProject(), Project.FetchGroup.ALL.name());
             if (sourceProject != null) {
-                LOGGER.info("Project " + sourceProject.toString() + " is being cloned by " + super.getPrincipal().getName());
+                if (!qm.hasAccess(super.getPrincipal(), sourceProject)) {
+                    return Response.status(Response.Status.FORBIDDEN).entity("Access to the specified project is forbidden").build();
+                }
+                if (qm.doesProjectExist(sourceProject.getName(), StringUtils.trimToNull(jsonRequest.getVersion()))) {
+                    return Response.status(Response.Status.CONFLICT).entity("A project with the specified name and version already exists.").build();
+                }
+
+                LOGGER.info("Project " + sourceProject + " is being cloned by " + super.getPrincipal().getName());
                 Event.dispatch(new CloneProjectEvent(jsonRequest));
                 return Response.ok().build();
             } else {