radial sugiyama positioning integration

docker-compose.yml

@@ -11,8 +11,22 @@ services:
     volumes:
       - ./data:/data:Z
 
+  radial_sugiyama:
+    profiles: ["radial"]
+    build: ./radial_sugiyama
+    working_dir: /workspace
+    env_file:
+      - ./radial_sugiyama/.env
+    volumes:
+      - ./radial_sugiyama:/workspace:Z
+    restart: "no"
+
   backend:
-    build: ./backend_go
+    build:
+      context: .
+      dockerfile: backend_go/Dockerfile
+    env_file:
+      - ./radial_sugiyama/.env
     ports:
       - "8000:8000"
     environment:
@@ -37,6 +51,11 @@ services:
       - EDGE_BATCH_SIZE=${EDGE_BATCH_SIZE:-100000}
       - FREE_OS_MEMORY_AFTER_SNAPSHOT=${FREE_OS_MEMORY_AFTER_SNAPSHOT:-false}
       - LOG_SNAPSHOT_TIMINGS=${LOG_SNAPSHOT_TIMINGS:-false}
+      - HIERARCHY_LAYOUT_ENGINE=${HIERARCHY_LAYOUT_ENGINE:-go}
+      - HIERARCHY_LAYOUT_BRIDGE_BIN=${HIERARCHY_LAYOUT_BRIDGE_BIN:-/app/radial_sugiyama_go_bridge}
+      - HIERARCHY_LAYOUT_BRIDGE_WORKDIR=${HIERARCHY_LAYOUT_BRIDGE_WORKDIR:-/workspace/radial_sugiyama}
+      - HIERARCHY_LAYOUT_TIMEOUT_S=${HIERARCHY_LAYOUT_TIMEOUT_S:-60}
+      - HIERARCHY_LAYOUT_ROOT_IRI=${HIERARCHY_LAYOUT_ROOT_IRI:-http://purl.obolibrary.org/obo/BFO_0000001}
     depends_on:
       owl_imports_combiner:
         condition: service_completed_successfully
@@ -44,6 +63,7 @@ services:
         condition: service_started
     volumes:
       - ./data:/data:Z
+      - ./radial_sugiyama:/workspace/radial_sugiyama:Z
     healthcheck:
       test: ["CMD", "curl", "-fsS", "http://localhost:8000/api/health"]
       interval: 5s
@@ -56,6 +76,18 @@ services:
       - "5173:5173"
     environment:
       - VITE_BACKEND_URL=${VITE_BACKEND_URL:-http://backend:8000}
+      - VITE_COSMOS_ENABLE_SIMULATION=${VITE_COSMOS_ENABLE_SIMULATION:-true}
+      - VITE_COSMOS_DEBUG_LAYOUT=${VITE_COSMOS_DEBUG_LAYOUT:-false}
+      - VITE_COSMOS_SPACE_SIZE=${VITE_COSMOS_SPACE_SIZE:-4096}
+      - VITE_COSMOS_CURVED_LINKS=${VITE_COSMOS_CURVED_LINKS:-true}
+      - VITE_COSMOS_FIT_VIEW_PADDING=${VITE_COSMOS_FIT_VIEW_PADDING:-0.12}
+      - VITE_COSMOS_SIMULATION_DECAY=${VITE_COSMOS_SIMULATION_DECAY:-5000}
+      - VITE_COSMOS_SIMULATION_GRAVITY=${VITE_COSMOS_SIMULATION_GRAVITY:-0}
+      - VITE_COSMOS_SIMULATION_CENTER=${VITE_COSMOS_SIMULATION_CENTER:-0.05}
+      - VITE_COSMOS_SIMULATION_REPULSION=${VITE_COSMOS_SIMULATION_REPULSION:-0.5}
+      - VITE_COSMOS_SIMULATION_LINK_SPRING=${VITE_COSMOS_SIMULATION_LINK_SPRING:-1}
+      - VITE_COSMOS_SIMULATION_LINK_DISTANCE=${VITE_COSMOS_SIMULATION_LINK_DISTANCE:-10}
+      - VITE_COSMOS_SIMULATION_FRICTION=${VITE_COSMOS_SIMULATION_FRICTION:-0.1}
     volumes:
       - ./frontend:/app
       - /app/node_modules
@@ -75,4 +107,4 @@ services:
       - ./data/app_home:/opt/anzograph/app-home:Z
       - ./data/persistence:/opt/anzograph/persistence:Z
       - ./data/config:/opt/anzograph/config:Z
-      - ./data/internal:/opt/anzograph/internal:Z
+      - ./data/internal:/opt/anzograph/internal:Z