Release version 5.1.0

Author: namedgraph

.gitignore

@@ -1,7 +1,6 @@
 .DS_Store
 /target
 /.env
-/data
 /uploads
 /nb-configuration.xml
 /node
@@ -12,4 +11,5 @@
 /ssl
 /http-tests/ssl
 /http-tests/datasets
-/http-tests/uploads
+/http-tests/uploads
+/fuseki

CHANGELOG.md

@@ -1,3 +1,67 @@
+## [5.1.0] - 2025-12-12
+### Added
+- ORCID OpenID Connect login support with JWT token verification
+- `CORSFilter` response filter for cross-origin resource sharing on static assets
+- Cache invalidation (BAN requests) for agent and user account lookup queries
+- New `Application::normalizeOrigin` method for origin normalization
+- `ldh:parent-origin` XPath function for parent origin retrieval
+- HTTP tests for CORS functionality, internal IP blocking, and form proxying
+- `ForbiddenExceptionMapper` for handling forbidden exceptions
+- `Content-Security-Policy` header for uploaded files to prevent XSS attacks
+- Sticky left and right navigation panels
+- Support for recursive content blocks
+- Docker volume for Varnish cache file persistence
+
+### Changed
+- **BREAKING**: Admin application moved from `/admin/` path to `admin.` subdomain
+- **BREAKING**: Replaced `ldt:base` with `ldh:origin` in configuration (now uses absolute URIs with full domain names)
+- Refactored OAuth2 authentication with extracted base classes `AuthorizeBase`, `LoginBase`, and `JWTVerifier`
+- Provider-specific implementations for Google and ORCID OAuth flows in separate packages
+- Authorization queries now isolated by dataspace using `FILTER(strstarts(str(?g), str($base)))`
+- Optimized Varnish caching for authenticated requests with proper cache bypass for user-specific content
+- Root domain extraction logic replaced with configured `BASE_URI` from `Application.getBaseURI()`
+- Eliminated unnecessary wrapper methods (`getRootContextURI()`) in favor of direct `getSystem().getBaseURI()` calls
+- Client-side XSLT now uses `ldt:base()` function instead of `$ldt:base` parameter
+- OAuth and access request endpoints moved to end-user dataspace (no longer extend `GraphStoreImpl` or `SPARQLEndpointImpl`)
+- ID tokens now returned via URL fragment instead of query parameters
+- CLI scripts refactored: `--fragment` parameter renamed to `--uri`
+- Nginx configuration now exempts internal requests from rate limiting
+- Parameterized nginx and Varnish configurations for better flexibility
+- Improved `ClientUriRewriteFilter` to use configured host instead of hardcoded localhost
+- Agent metadata and authorizations now managed per-app in entrypoint.sh
+- Separated templates for owner and secretary authorizations
+- Fuseki data directory changed in Docker configuration
+- `$ORIGIN` environment variable now excludes default ports (80/443)
+- WYMEditor cross-origin compatibility fixes
+- Replaced `ldh:new` with `ixsl:new` in client-side code
+
+### Fixed
+- Fixed security vulnerability [LNK-002 (cache poisoning)](https://github.com/AtomGraph/LinkedDataHub/issues/253)
+- Fixed security vulnerability [LNK-004 (path traversal)](https://github.com/AtomGraph/LinkedDataHub/issues/252)
+- Fixed security vulnerability [LNK-009 (SSRF - internal IP address proxying)](https://github.com/AtomGraph/LinkedDataHub/issues/250)
+- Fixed security vulnerability [LNK-011 (XSS via uploaded files)](https://github.com/AtomGraph/LinkedDataHub/issues/254)
+- Fixed Billion Laughs [XML entity expansion exploit](https://github.com/AtomGraph/LinkedDataHub/issues/249) by excluding Xerces dependency
+- Fixed OpenLayers map dragging functionality
+- Fixed graph layout rendering issues
+- Fixed SPARQL update and `application/x-www-form-urlencoded` proxying
+- Fixed access request URL building and modal form display
+- Fixed `ldh:Shape` mode in XSLT
+- Fixed HTML reloading after OAuth login
+- Improved SHACL support in UI with better form controls
+- Fixed performance regression in `ClientUriRewriteFilter` for production deployments
+- Fixed agent and user account duplicate creation via proper cache invalidation
+- Fixed same-site URI resolution for XSLT document loading across subdomains
+- Fixed entrypoint to load datasets for all configured apps
+- Fixed authorization filter to handle non-existent dataspaces (throws `NotFoundException`)
+
+### Removed
+- Removed `RequestAccess` resource from admin package (moved to end-user)
+- Removed `admin/oauth2` package (OAuth moved to end-user dataspace)
+- Removed XOM dependency
+- Removed rate limiting tests from HTTP test suite
+- Removed debug output from entrypoint and test scripts
+- Removed unused namespace declarations
+
 ## [5.0.23] - 2025-09-11
 ### Added
 - Drag handles for content blocks - blocks can now only be dragged by their dedicated drag handles

Dockerfile

@@ -22,7 +22,7 @@ RUN mvn -Pstandalone clean install
 
 # ==============================
 
-FROM atomgraph/letsencrypt-tomcat:10.1.34
+FROM atomgraph/letsencrypt-tomcat:10.1.46
 
 LABEL maintainer="martynas@atomgraph.com"
 
@@ -72,14 +72,12 @@ ENV OWNER_CERT_ALIAS=root-owner
 ENV OWNER_KEYSTORE=/var/linkeddatahub/ssl/owner/keystore.p12
 ENV OWNER_CERT=/var/linkeddatahub/ssl/owner/cert.pem
 ENV OWNER_PUBLIC_KEY=/var/linkeddatahub/ssl/owner/public.pem
-ENV OWNER_PRIVATE_KEY=/var/linkeddatahub/ssl/owner/private.key
 
 ENV SECRETARY_COMMON_NAME=LinkedDataHub
 ENV SECRETARY_CERT_ALIAS=root-secretary
 ENV SECRETARY_KEYSTORE=/var/linkeddatahub/ssl/secretary/keystore.p12
 ENV SECRETARY_CERT=/var/linkeddatahub/ssl/secretary/cert.pem
 ENV SECRETARY_PUBLIC_KEY=/var/linkeddatahub/ssl/secretary/public.pem
-ENV SECRETARY_PRIVATE_KEY=/var/linkeddatahub/ssl/secretary/private.key
 
 ENV CLIENT_KEYSTORE_MOUNT=/var/linkeddatahub/ssl/secretary/keystore.p12
 ENV CLIENT_KEYSTORE="$CATALINA_HOME/webapps/ROOT/WEB-INF/keystore.p12"
@@ -147,12 +145,22 @@ COPY platform/import-letsencrypt-stg-roots.sh import-letsencrypt-stg-roots.sh
 
 COPY platform/select-root-services.rq select-root-services.rq
 
-# copy the metadata of the built-in secretary agent
+COPY platform/select-agent-metadata.rq select-agent-metadata.rq
+
+# copy the metadata of built-in agents
 
 COPY platform/root-secretary.trig.template root-secretary.trig.template
 
 COPY platform/root-owner.trig.template root-owner.trig.template
 
+COPY platform/root-secretary-authorization.trig.template root-secretary-authorization.trig.template
+
+COPY platform/root-owner-authorization.trig.template root-owner-authorization.trig.template
+
+# copy the metadata of the namespace ontology
+
+COPY platform/namespace-ontology.trig.template namespace-ontology.trig.template
+
 # copy default datasets
 
 COPY platform/datasets/admin.trig /var/linkeddatahub/datasets/admin.trig
@@ -197,7 +205,7 @@ RUN useradd --no-log-init -U ldh && \
 RUN ./import-letsencrypt-stg-roots.sh
 
 HEALTHCHECK --start-period=80s --retries=5 \
-    CMD curl -f -I "http://localhost:${HTTP_PORT}/ns" -H "Accept: application/n-triples" || exit 1 # relies on public access to the namespace document
+    CMD curl -f -I "http://localhost:7070/ns" -H "Accept: application/n-triples" || exit 1 # relies on public access to the namespace document
 
 USER ldh
 

README.md

@@ -28,10 +28,17 @@ It takes a few clicks and filling out a form to install the product into your ow
 ### Prerequisites
 
 * `bash` shell 4.x. It should be included by default on Linux. On Windows you can install the [Windows Subsystem for Linux](https://docs.microsoft.com/en-us/windows/wsl/install-win10).
-* [`openssl`](https://www.openssl.org/) available on `$PATH`
 * [Docker](https://docs.docker.com/install/) installed. At least 8GB of memory dedicated to Docker is recommended.
 * [Docker Compose](https://docs.docker.com/compose/install/) installed
 
+#### CLI scripts
+
+The following tools are required for CLI scripts in the `bin/` directory:
+
+* [`curl`](https://curl.se/)
+* [`openssl`](https://www.openssl.org/)
+* `python` 3.x
+
 ### Steps
 
   1. [Fork](https://guides.github.com/activities/forking/) this repository and clone the fork into a folder
@@ -270,11 +277,11 @@ LinkedDataHub includes an HTTP [test suite](https://github.com/AtomGraph/LinkedD
 * [SPARQLBuilder](https://github.com/AtomGraph/sparql-builder)
 * [OpenLayers](https://openlayers.org)
 * [Google Charts](https://developers.google.com/chart)
+* [xml-c14n-sync](https://github.com/AtomGraph/xml-c14n-sync)
 
 ### Java
 
 * [Jersey](https://eclipse-ee4j.github.io/jersey/)
-* [XOM](http://www.xom.nu)
 * [JavaMail](https://javaee.github.io/javamail/)
 * [Guava](https://github.com/google/guava)
 * [java-jwt](https://github.com/auth0/java-jwt)

bin/add-generic-service.sh

@@ -1,4 +1,5 @@
 #!/usr/bin/env bash
+set -eo pipefail
 
 print_usage()
 {
@@ -16,6 +17,7 @@ print_usage()
     printf "  --description DESCRIPTION            Description of the service (optional)\n"
     printf "  --slug SLUG                          String that will be used as URI path segment (optional)\n"
     printf "\n"
+    printf "  --uri URI                            URI of the service (optional)\n"
     printf "  --endpoint ENDPOINT_URI              Endpoint URI\n"
     printf "  --graph-store GRAPH_STORE_URI        Graph Store URI (optional)\n"
     printf "  --auth-user AUTH_USER                Authorization username (optional)\n"
@@ -43,6 +45,11 @@ do
         shift # past argument
         shift # past value
         ;;
+        --proxy)
+        proxy="$2"
+        shift # past argument
+        shift # past value
+        ;;
         --title)
         title="$2"
         shift # past argument
@@ -53,8 +60,8 @@ do
         shift # past argument
         shift # past value
         ;;
-        --fragment)
-        fragment="$2"
+        --uri)
+        uri="$2"
         shift # past argument
         shift # past value
         ;;
@@ -69,7 +76,8 @@ do
         shift # past value
         ;;
         --auth-user)
-        auth_user=true
+        auth_user="$2"
+        shift # past argument
         shift # past value
         ;;
         --auth-pwd)
@@ -85,6 +93,8 @@ do
 done
 set -- "${args[@]}" # restore args
 
+target="$1"
+
 if [ -z "$cert_pem_file" ] ; then
     print_usage
     exit 1
@@ -112,10 +122,13 @@ args+=("-p")
 args+=("$cert_password")
 args+=("-t")
 args+=("text/turtle") # content type
+if [ -n "$proxy" ]; then
+    args+=("--proxy")
+    args+=("$proxy")
+fi
 
-if [ -n "$fragment" ] ; then
-    # relative URI that will be resolved against the request URI
-    subject="<#${fragment}>"
+if [ -n "$uri" ] ; then
+    subject="<${uri}>"
 else
     subject="_:subject"
 fi
@@ -142,8 +155,8 @@ if [ -n "$auth_pwd" ] ; then
     turtle+="${subject} a:authPwd \"${auth_pwd}\" .\n"
 fi
 if [ -n "$description" ] ; then
-    turtle+="_:query dct:description \"${description}\" .\n"
+    turtle+="${subject} dct:description \"${description}\" .\n"
 fi
 
 # submit Turtle doc to the server
-echo -e "$turtle" | post.sh "${args[@]}"
+echo -e "$turtle" | turtle --base="$target" | post.sh "${args[@]}"

bin/add-result-set-chart.sh

@@ -1,4 +1,5 @@
 #!/usr/bin/env bash
+set -eo pipefail
 
 print_usage()
 {
@@ -14,7 +15,7 @@ print_usage()
     printf "\n"
     printf "  --title TITLE                        Title of the chart\n"
     printf "  --description DESCRIPTION            Description of the chart (optional)\n"
-    printf "  --fragment STRING                    String that will be used as URI fragment identifier (optional)\n"
+    printf "  --uri URI                            URI of the chart (optional)\n"
     printf "\n"
     printf "  --query QUERY_URI                    URI of the SELECT query\n"
     printf "  --chart-type TYPE_URI                URI of the chart type\n"
@@ -43,6 +44,11 @@ do
         shift # past argument
         shift # past value
         ;;
+        --proxy)
+        proxy="$2"
+        shift # past argument
+        shift # past value
+        ;;
         --title)
         title="$2"
         shift # past argument
@@ -53,8 +59,8 @@ do
         shift # past argument
         shift # past value
         ;;
-        --fragment)
-        fragment="$2"
+        --uri)
+        uri="$2"
         shift # past argument
         shift # past value
         ;;
@@ -86,6 +92,8 @@ do
 done
 set -- "${args[@]}" # restore args
 
+target="$1"
+
 if [ -z "$cert_pem_file" ] ; then
     print_usage
     exit 1
@@ -125,10 +133,13 @@ args+=("-p")
 args+=("$cert_password")
 args+=("-t")
 args+=("text/turtle") # content type
+if [ -n "$proxy" ]; then
+    args+=("--proxy")
+    args+=("$proxy")
+fi
 
-if [ -n "$fragment" ] ; then
-    # relative URI that will be resolved against the request URI
-    subject="<#${fragment}>"
+if [ -n "$uri" ] ; then
+    subject="<${uri}>"
 else
     subject="_:subject"
 fi
@@ -148,4 +159,4 @@ if [ -n "$description" ] ; then
 fi
 
 # submit Turtle doc to the server
-echo -e "$turtle" | post.sh "${args[@]}"
+echo -e "$turtle" | turtle --base="$target" | post.sh "${args[@]}"