diff --git a/package-lock.json b/package-lock.json
index 842d8a76..3c74d93f 100644
--- a/package-lock.json
+++ b/package-lock.json
@@ -30,14 +30,14 @@
         "web-tree-sitter": "^0.26.13"
       },
       "bin": {
-        "graft": "dist/cli.js"
+        "graft": "dist/bin/graft.js"
       },
       "devDependencies": {
         "@types/d3-force": "^3.0.10",
         "@types/node": "^26.1.0",
         "d3-force": "^3.0.0",
         "esbuild": "^0.28.1",
-        "node-gyp": "^12.4.0",
+        "node-gyp": "^13.1.0",
         "tsx": "^4.22.4",
         "typescript": "^6.0.3"
       },
@@ -554,13 +554,13 @@
       }
     },
     "node_modules/abbrev": {
-      "version": "4.0.0",
-      "resolved": "https://registry.npmjs.org/abbrev/-/abbrev-4.0.0.tgz",
-      "integrity": "sha512-a1wflyaL0tHtJSmLSOVybYhy22vRih4eduhhrkcjgrWGnRfrZtovJ2FRjxuTtkkj47O/baf0R86QU5OuYpz8fA==",
+      "version": "5.0.0",
+      "resolved": "https://registry.npmjs.org/abbrev/-/abbrev-5.0.0.tgz",
+      "integrity": "sha512-/XrFJgzQQQHpti1raDJC6m4ws6aNktmjBlhk8Fdlk7LwCEuDoieEJJY9OFHjfiFJFFRM2tK+Ky/IsfbbmlMu1w==",
       "dev": true,
       "license": "ISC",
       "engines": {
-        "node": "^20.17.0 || >=22.9.0"
+        "node": "^22.22.2 || ^24.15.0 || >=26.0.0"
       }
     },
     "node_modules/argparse": {
@@ -886,28 +886,28 @@
       }
     },
     "node_modules/node-gyp": {
-      "version": "12.4.0",
-      "resolved": "https://registry.npmjs.org/node-gyp/-/node-gyp-12.4.0.tgz",
-      "integrity": "sha512-OMcPNvqTCFUnNaBlmdgq+lfNqY7gTiSmNRDjY3uAXRyudeKZEZxu3CLtjMQrx4zZxCX2b/mpNqTtwuCJgXhHkw==",
+      "version": "13.1.0",
+      "resolved": "https://registry.npmjs.org/node-gyp/-/node-gyp-13.1.0.tgz",
+      "integrity": "sha512-FpNzOLFACKG0oRBYbZ5WOeWD1EqRTIWX90MaRIWTO18lVYPx8fqIjrdS3pihjnCkSmgop6zVGkSqg1vXZLksuw==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
         "env-paths": "^2.2.0",
         "exponential-backoff": "^3.1.1",
         "graceful-fs": "^4.2.6",
-        "nopt": "^9.0.0",
-        "proc-log": "^6.0.0",
+        "nopt": "^10.0.0",
+        "proc-log": "^7.0.0",
         "semver": "^7.3.5",
-        "tar": "^7.5.4",
+        "tar": "^7.5.7",
         "tinyglobby": "^0.2.12",
-        "undici": "^6.25.0",
-        "which": "^6.0.0"
+        "undici": "^8.4.1",
+        "which": "^7.0.0"
       },
       "bin": {
         "node-gyp": "bin/node-gyp.js"
       },
       "engines": {
-        "node": "^20.17.0 || >=22.9.0"
+        "node": "^22.22.2 || ^24.15.0 || >=26.0.0"
       }
     },
     "node_modules/node-gyp-build": {
@@ -922,19 +922,19 @@
       }
     },
     "node_modules/nopt": {
-      "version": "9.0.0",
-      "resolved": "https://registry.npmjs.org/nopt/-/nopt-9.0.0.tgz",
-      "integrity": "sha512-Zhq3a+yFKrYwSBluL4H9XP3m3y5uvQkB/09CwDruCiRmR/UJYnn9W4R48ry0uGC70aeTPKLynBtscP9efFFcPw==",
+      "version": "10.0.1",
+      "resolved": "https://registry.npmjs.org/nopt/-/nopt-10.0.1.tgz",
+      "integrity": "sha512-df3sBr/6ax9hSGuC3CspvLlbnX8cP5L5nZwXF8cGN8l0zSWR6BvzmQ6jPUKjvo6+/xdpkNvEcucBNUdBeeV13g==",
       "dev": true,
       "license": "ISC",
       "dependencies": {
-        "abbrev": "^4.0.0"
+        "abbrev": "^5.0.0"
       },
       "bin": {
         "nopt": "bin/nopt.js"
       },
       "engines": {
-        "node": "^20.17.0 || >=22.9.0"
+        "node": "^22.22.2 || ^24.15.0 || >=26.0.0"
       }
     },
     "node_modules/openai": {
@@ -988,13 +988,13 @@
       }
     },
     "node_modules/proc-log": {
-      "version": "6.1.0",
-      "resolved": "https://registry.npmjs.org/proc-log/-/proc-log-6.1.0.tgz",
-      "integrity": "sha512-iG+GYldRf2BQ0UDUAd6JQ/RwzaQy6mXmsk/IzlYyal4A4SNFw54MeH4/tLkF4I5WoWG9SQwuqWzS99jaFQHBuQ==",
+      "version": "7.0.0",
+      "resolved": "https://registry.npmjs.org/proc-log/-/proc-log-7.0.0.tgz",
+      "integrity": "sha512-FYgfaA69XZ93zaXLoMNQ+ViDXGGBgR8aLh03txzcFhV+9xOXx7+8DLCULrKKpR9+GsH9ZfHm82aSUPpozX0Ztg==",
       "dev": true,
       "license": "ISC",
       "engines": {
-        "node": "^20.17.0 || >=22.9.0"
+        "node": "^22.22.2 || ^24.15.0 || >=26.0.0"
       }
     },
     "node_modules/section-matter": {
@@ -1354,13 +1354,13 @@
       }
     },
     "node_modules/undici": {
-      "version": "6.28.0",
-      "resolved": "https://registry.npmjs.org/undici/-/undici-6.28.0.tgz",
-      "integrity": "sha512-LIY910g9TI13YS95lrMFrs8Rm/u/irgHeTWoKCoteeJ04CUJ92eEfj0rVn+7VKMPBpUPiUoBKfhNyLI23EE/KA==",
+      "version": "8.11.2",
+      "resolved": "https://registry.npmjs.org/undici/-/undici-8.11.2.tgz",
+      "integrity": "sha512-u4UB2/IrKdU6lFxumHmmo1a3fCQO5tzQllRorfoRS63txhrB7xTpSn1PftwC4qEHkOaqP95fCWW4lJzwErwzhQ==",
       "devOptional": true,
       "license": "MIT",
       "engines": {
-        "node": ">=18.17"
+        "node": ">=22.19.0"
       }
     },
     "node_modules/undici-types": {
@@ -1411,9 +1411,9 @@
       "license": "MIT"
     },
     "node_modules/which": {
-      "version": "6.0.1",
-      "resolved": "https://registry.npmjs.org/which/-/which-6.0.1.tgz",
-      "integrity": "sha512-oGLe46MIrCRqX7ytPUf66EAYvdeMIZYn3WaocqqKZAxrBpkqHfL/qvTyJ/bTk5+AqHCjXmrv3CEWgy368zhRUg==",
+      "version": "7.0.0",
+      "resolved": "https://registry.npmjs.org/which/-/which-7.0.0.tgz",
+      "integrity": "sha512-RancgH2dmbLdHl6LRhEqvklWMgl/Hdnun0Y90KhBOLkMefg8Qa7/Zel8Sm+8HEcP6DEjzsWzpkuBQEZok58isA==",
       "dev": true,
       "license": "ISC",
       "dependencies": {
@@ -1423,7 +1423,7 @@
         "node-which": "bin/which.js"
       },
       "engines": {
-        "node": "^20.17.0 || >=22.9.0"
+        "node": "^22.22.2 || ^24.15.0 || >=26.0.0"
       }
     },
     "node_modules/yallist": {
diff --git a/package.json b/package.json
index 98e6d94e..c92fbbef 100644
--- a/package.json
+++ b/package.json
@@ -79,7 +79,7 @@
     "@types/node": "^26.1.0",
     "d3-force": "^3.0.0",
     "esbuild": "^0.28.1",
-    "node-gyp": "^12.4.0",
+    "node-gyp": "^13.1.0",
     "tsx": "^4.22.4",
     "typescript": "^6.0.3"
   },