From fd5e49de4e9d49b49630de4c7f696d3328a8d108 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Thu, 11 Jan 2024 16:09:59 -0500 Subject: [PATCH 01/15] Initial Preactectomy. --- README.md | 2 +- index.html | 2 +- package-lock.json | 479 +++++++++++++++------------------------------- package.json | 7 +- src/app.tsx | 16 +- src/main.tsx | 6 +- src/scene.tsx | 59 +++--- tsconfig.json | 5 - vite.config.ts | 5 +- 9 files changed, 211 insertions(+), 370 deletions(-) diff --git a/README.md b/README.md index 9b1b3108..96c9cc44 100644 --- a/README.md +++ b/README.md @@ -1,4 +1,4 @@ -This is TypeScript, using [Preact](https://preactjs.com/) bundled with [Vite](https://vitejs.dev/). +This is TypeScript, using [React](https://react.dev/) bundled with [Vite](https://vitejs.dev/). Install with `npm install` diff --git a/index.html b/index.html index 40366c3e..990e82da 100644 --- a/index.html +++ b/index.html @@ -4,7 +4,7 @@ - Vite + Preact + TS + Vite + React + TS
diff --git a/package-lock.json b/package-lock.json index f4715629..bc2706b7 100644 --- a/package-lock.json +++ b/package-lock.json @@ -8,12 +8,15 @@ "name": "three-experiments", "version": "0.0.0", "dependencies": { - "preact": "^10.19.3", + "@vitejs/plugin-react": "^4.2.1", + "react": "^18.2.0", + "react-dom": "^18.2.0", "three": "^0.159.0", "zarr": "^0.6.2" }, "devDependencies": { - "@preact/preset-vite": "^2.7.0", + "@types/react": "^18.2.47", + "@types/react-dom": "^18.2.18", "@types/three": "^0.159.0", "typescript": "^5.2.2", "vite": "^5.0.8" @@ -23,7 +26,6 @@ "version": "2.2.1", "resolved": "https://registry.npmjs.org/@ampproject/remapping/-/remapping-2.2.1.tgz", "integrity": "sha512-lFMjJTrFL3j7L9yBxwYfCq2k6qqwHyzuUl/XBnif78PWTJYyL/dfowQHWE3sp6U6ZzqWiiIZnpTMO96zhkjwtg==", - "dev": true, "dependencies": { "@jridgewell/gen-mapping": "^0.3.0", "@jridgewell/trace-mapping": "^0.3.9" @@ -36,7 +38,6 @@ "version": "7.23.5", "resolved": "https://registry.npmjs.org/@babel/code-frame/-/code-frame-7.23.5.tgz", "integrity": "sha512-CgH3s1a96LipHCmSUmYFPwY7MNx8C3avkq7i4Wl3cfa662ldtUe4VM1TPXX70pfmrlWTb6jLqTYrZyT2ZTJBgA==", - "dev": true, "dependencies": { "@babel/highlight": "^7.23.4", "chalk": "^2.4.2" @@ -49,7 +50,6 @@ "version": "7.23.5", "resolved": "https://registry.npmjs.org/@babel/compat-data/-/compat-data-7.23.5.tgz", "integrity": "sha512-uU27kfDRlhfKl+w1U6vp16IuvSLtjAxdArVXPa9BvLkrr7CYIsxH5adpHObeAGY/41+syctUWOZ140a2Rvkgjw==", - "dev": true, "engines": { "node": ">=6.9.0" } @@ -58,7 +58,6 @@ "version": "7.23.6", "resolved": "https://registry.npmjs.org/@babel/core/-/core-7.23.6.tgz", "integrity": "sha512-FxpRyGjrMJXh7X3wGLGhNDCRiwpWEF74sKjTLDJSG5Kyvow3QZaG0Adbqzi9ZrVjTWpsX+2cxWXD71NMg93kdw==", - "dev": true, "dependencies": { "@ampproject/remapping": "^2.2.0", "@babel/code-frame": "^7.23.5", @@ -88,7 +87,6 @@ "version": "7.23.6", "resolved": "https://registry.npmjs.org/@babel/generator/-/generator-7.23.6.tgz", "integrity": "sha512-qrSfCYxYQB5owCmGLbl8XRpX1ytXlpueOb0N0UmQwA073KZxejgQTzAmJezxvpwQD9uGtK2shHdi55QT+MbjIw==", - "dev": true, "dependencies": { "@babel/types": "^7.23.6", "@jridgewell/gen-mapping": "^0.3.2", @@ -99,23 +97,10 @@ "node": ">=6.9.0" } }, - "node_modules/@babel/helper-annotate-as-pure": { - "version": "7.22.5", - "resolved": "https://registry.npmjs.org/@babel/helper-annotate-as-pure/-/helper-annotate-as-pure-7.22.5.tgz", - "integrity": "sha512-LvBTxu8bQSQkcyKOU+a1btnNFQ1dMAd0R6PyW3arXes06F6QLWLIrd681bxRPIXlrMGR3XYnW9JyML7dP3qgxg==", - "dev": true, - "dependencies": { - "@babel/types": "^7.22.5" - }, - "engines": { - "node": ">=6.9.0" - } - }, "node_modules/@babel/helper-compilation-targets": { "version": "7.23.6", "resolved": "https://registry.npmjs.org/@babel/helper-compilation-targets/-/helper-compilation-targets-7.23.6.tgz", "integrity": "sha512-9JB548GZoQVmzrFgp8o7KxdgkTGm6xs9DW0o/Pim72UDjzr5ObUQ6ZzYPqA+g9OTS2bBQoctLJrky0RDCAWRgQ==", - "dev": true, "dependencies": { "@babel/compat-data": "^7.23.5", "@babel/helper-validator-option": "^7.23.5", @@ -131,7 +116,6 @@ "version": "7.22.20", "resolved": "https://registry.npmjs.org/@babel/helper-environment-visitor/-/helper-environment-visitor-7.22.20.tgz", "integrity": "sha512-zfedSIzFhat/gFhWfHtgWvlec0nqB9YEIVrpuwjruLlXfUSnA8cJB0miHKwqDnQ7d32aKo2xt88/xZptwxbfhA==", - "dev": true, "engines": { "node": ">=6.9.0" } @@ -140,7 +124,6 @@ "version": "7.23.0", "resolved": "https://registry.npmjs.org/@babel/helper-function-name/-/helper-function-name-7.23.0.tgz", "integrity": "sha512-OErEqsrxjZTJciZ4Oo+eoZqeW9UIiOcuYKRJA4ZAgV9myA+pOXhhmpfNCKjEH/auVfEYVFJ6y1Tc4r0eIApqiw==", - "dev": true, "dependencies": { "@babel/template": "^7.22.15", "@babel/types": "^7.23.0" @@ -153,7 +136,6 @@ "version": "7.22.5", "resolved": "https://registry.npmjs.org/@babel/helper-hoist-variables/-/helper-hoist-variables-7.22.5.tgz", "integrity": "sha512-wGjk9QZVzvknA6yKIUURb8zY3grXCcOZt+/7Wcy8O2uctxhplmUPkOdlgoNhmdVee2c92JXbf1xpMtVNbfoxRw==", - "dev": true, "dependencies": { "@babel/types": "^7.22.5" }, @@ -165,7 +147,6 @@ "version": "7.22.15", "resolved": "https://registry.npmjs.org/@babel/helper-module-imports/-/helper-module-imports-7.22.15.tgz", "integrity": "sha512-0pYVBnDKZO2fnSPCrgM/6WMc7eS20Fbok+0r88fp+YtWVLZrp4CkafFGIp+W0VKw4a22sgebPT99y+FDNMdP4w==", - "dev": true, "dependencies": { "@babel/types": "^7.22.15" }, @@ -177,7 +158,6 @@ "version": "7.23.3", "resolved": "https://registry.npmjs.org/@babel/helper-module-transforms/-/helper-module-transforms-7.23.3.tgz", "integrity": "sha512-7bBs4ED9OmswdfDzpz4MpWgSrV7FXlc3zIagvLFjS5H+Mk7Snr21vQ6QwrsoCGMfNC4e4LQPdoULEt4ykz0SRQ==", - "dev": true, "dependencies": { "@babel/helper-environment-visitor": "^7.22.20", "@babel/helper-module-imports": "^7.22.15", @@ -196,7 +176,6 @@ "version": "7.22.5", "resolved": "https://registry.npmjs.org/@babel/helper-plugin-utils/-/helper-plugin-utils-7.22.5.tgz", "integrity": "sha512-uLls06UVKgFG9QD4OeFYLEGteMIAa5kpTPcFL28yuCIIzsf6ZyKZMllKVOCZFhiZ5ptnwX4mtKdWCBE/uT4amg==", - "dev": true, "engines": { "node": ">=6.9.0" } @@ -205,7 +184,6 @@ "version": "7.22.5", "resolved": "https://registry.npmjs.org/@babel/helper-simple-access/-/helper-simple-access-7.22.5.tgz", "integrity": "sha512-n0H99E/K+Bika3++WNL17POvo4rKWZ7lZEp1Q+fStVbUi8nxPQEBOlTmCOxW/0JsS56SKKQ+ojAe2pHKJHN35w==", - "dev": true, "dependencies": { "@babel/types": "^7.22.5" }, @@ -217,7 +195,6 @@ "version": "7.22.6", "resolved": "https://registry.npmjs.org/@babel/helper-split-export-declaration/-/helper-split-export-declaration-7.22.6.tgz", "integrity": "sha512-AsUnxuLhRYsisFiaJwvp1QF+I3KjD5FOxut14q/GzovUe6orHLesW2C7d754kRm53h5gqrz6sFl6sxc4BVtE/g==", - "dev": true, "dependencies": { "@babel/types": "^7.22.5" }, @@ -229,7 +206,6 @@ "version": "7.23.4", "resolved": "https://registry.npmjs.org/@babel/helper-string-parser/-/helper-string-parser-7.23.4.tgz", "integrity": "sha512-803gmbQdqwdf4olxrX4AJyFBV/RTr3rSmOj0rKwesmzlfhYNDEs+/iOcznzpNWlJlIlTJC2QfPFcHB6DlzdVLQ==", - "dev": true, "engines": { "node": ">=6.9.0" } @@ -238,7 +214,6 @@ "version": "7.22.20", "resolved": "https://registry.npmjs.org/@babel/helper-validator-identifier/-/helper-validator-identifier-7.22.20.tgz", "integrity": "sha512-Y4OZ+ytlatR8AI+8KZfKuL5urKp7qey08ha31L8b3BwewJAoJamTzyvxPR/5D+KkdJCGPq/+8TukHBlY10FX9A==", - "dev": true, "engines": { "node": ">=6.9.0" } @@ -247,7 +222,6 @@ "version": "7.23.5", "resolved": "https://registry.npmjs.org/@babel/helper-validator-option/-/helper-validator-option-7.23.5.tgz", "integrity": "sha512-85ttAOMLsr53VgXkTbkx8oA6YTfT4q7/HzXSLEYmjcSTJPMPQtvq1BD79Byep5xMUYbGRzEpDsjUf3dyp54IKw==", - "dev": true, "engines": { "node": ">=6.9.0" } @@ -256,7 +230,6 @@ "version": "7.23.6", "resolved": "https://registry.npmjs.org/@babel/helpers/-/helpers-7.23.6.tgz", "integrity": "sha512-wCfsbN4nBidDRhpDhvcKlzHWCTlgJYUUdSJfzXb2NuBssDSIjc3xcb+znA7l+zYsFljAcGM0aFkN40cR3lXiGA==", - "dev": true, "dependencies": { "@babel/template": "^7.22.15", "@babel/traverse": "^7.23.6", @@ -270,7 +243,6 @@ "version": "7.23.4", "resolved": "https://registry.npmjs.org/@babel/highlight/-/highlight-7.23.4.tgz", "integrity": "sha512-acGdbYSfp2WheJoJm/EBBBLh/ID8KDc64ISZ9DYtBmC8/Q204PZJLHyzeB5qMzJ5trcOkybd78M4x2KWsUq++A==", - "dev": true, "dependencies": { "@babel/helper-validator-identifier": "^7.22.20", "chalk": "^2.4.2", @@ -284,7 +256,6 @@ "version": "7.23.6", "resolved": "https://registry.npmjs.org/@babel/parser/-/parser-7.23.6.tgz", "integrity": "sha512-Z2uID7YJ7oNvAI20O9X0bblw7Qqs8Q2hFy0R9tAfnfLkp5MW0UH9eUvnDSnFwKZ0AvgS1ucqR4KzvVHgnke1VQ==", - "dev": true, "bin": { "parser": "bin/babel-parser.js" }, @@ -292,11 +263,10 @@ "node": ">=6.0.0" } }, - "node_modules/@babel/plugin-syntax-jsx": { + "node_modules/@babel/plugin-transform-react-jsx-self": { "version": "7.23.3", - "resolved": "https://registry.npmjs.org/@babel/plugin-syntax-jsx/-/plugin-syntax-jsx-7.23.3.tgz", - "integrity": "sha512-EB2MELswq55OHUoRZLGg/zC7QWUKfNLpE57m/S2yr1uEneIgsTgrSzXP3NXEsMkVn76OlaVVnzN+ugObuYGwhg==", - 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} - }, - "node_modules/@babel/plugin-transform-react-jsx-development": { - "version": "7.22.5", - "resolved": "https://registry.npmjs.org/@babel/plugin-transform-react-jsx-development/-/plugin-transform-react-jsx-development-7.22.5.tgz", - "integrity": "sha512-bDhuzwWMuInwCYeDeMzyi7TaBgRQei6DqxhbyniL7/VG4RSS7HtSL2QbY4eESy1KJqlWt8g3xeEBGPuo+XqC8A==", - "dev": true, + "node_modules/@babel/plugin-transform-react-jsx-source": { + "version": "7.23.3", + "resolved": "https://registry.npmjs.org/@babel/plugin-transform-react-jsx-source/-/plugin-transform-react-jsx-source-7.23.3.tgz", + "integrity": "sha512-91RS0MDnAWDNvGC6Wio5XYkyWI39FMFO+JK9+4AlgaTH+yWwVTsw7/sn6LK0lH7c5F+TFkpv/3LfCJ1Ydwof/g==", "dependencies": { - "@babel/plugin-transform-react-jsx": "^7.22.5" + "@babel/helper-plugin-utils": "^7.22.5" }, "engines": { "node": ">=6.9.0" @@ -345,7 +295,6 @@ "version": "7.22.15", "resolved": "https://registry.npmjs.org/@babel/template/-/template-7.22.15.tgz", "integrity": "sha512-QPErUVm4uyJa60rkI73qneDacvdvzxshT3kksGqlGWYdOTIUOwJ7RDUL8sGqslY1uXWSL6xMFKEXDS3ox2uF0w==", - 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"dev": true, "optional": true, "os": [ "android" @@ -461,7 +404,6 @@ "cpu": [ "arm64" ], - "dev": true, "optional": true, "os": [ "darwin" @@ -477,7 +419,6 @@ "cpu": [ "x64" ], - "dev": true, "optional": true, "os": [ "darwin" @@ -493,7 +434,6 @@ "cpu": [ "arm64" ], - "dev": true, "optional": true, "os": [ "freebsd" @@ -509,7 +449,6 @@ "cpu": [ "x64" ], - "dev": true, "optional": true, "os": [ "freebsd" @@ -525,7 +464,6 @@ "cpu": [ "arm" ], - "dev": true, "optional": true, "os": [ "linux" @@ -541,7 +479,6 @@ "cpu": [ "arm64" ], - "dev": true, "optional": true, "os": [ "linux" @@ -557,7 +494,6 @@ "cpu": [ "ia32" ], - "dev": true, "optional": true, "os": [ "linux" @@ -573,7 +509,6 @@ "cpu": [ "loong64" ], - "dev": true, "optional": true, "os": [ "linux" @@ -589,7 +524,6 @@ "cpu": [ "mips64el" ], - "dev": true, "optional": true, "os": [ "linux" @@ -605,7 +539,6 @@ "cpu": [ "ppc64" ], - "dev": true, "optional": true, "os": [ "linux" @@ -621,7 +554,6 @@ "cpu": [ "riscv64" ], - "dev": true, "optional": true, "os": [ "linux" @@ -637,7 +569,6 @@ "cpu": [ "s390x" ], - 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"dev": true, "funding": [ { "type": "opencollective", @@ -1515,37 +1357,41 @@ "node": "^10 || ^12 || >=14" } }, - "node_modules/preact": { - "version": "10.19.3", - "resolved": "https://registry.npmjs.org/preact/-/preact-10.19.3.tgz", - "integrity": "sha512-nHHTeFVBTHRGxJXKkKu5hT8C/YWBkPso4/Gad6xuj5dbptt9iF9NZr9pHbPhBrnT2klheu7mHTxTZ/LjwJiEiQ==", - "funding": { - "type": "opencollective", - "url": "https://opencollective.com/preact" + "node_modules/react": { + "version": "18.2.0", + "resolved": "https://registry.npmjs.org/react/-/react-18.2.0.tgz", + "integrity": "sha512-/3IjMdb2L9QbBdWiW5e3P2/npwMBaU9mHCSCUzNln0ZCYbcfTsGbTJrU/kGemdH2IWmB2ioZ+zkxtmq6g09fGQ==", + "dependencies": { + "loose-envify": "^1.1.0" + }, + "engines": { + "node": ">=0.10.0" } }, - "node_modules/resolve": { - "version": "1.22.8", - "resolved": "https://registry.npmjs.org/resolve/-/resolve-1.22.8.tgz", - "integrity": "sha512-oKWePCxqpd6FlLvGV1VU0x7bkPmmCNolxzjMf4NczoDnQcIWrAF+cPtZn5i6n+RfD2d9i0tzpKnG6Yk168yIyw==", - "dev": true, + "node_modules/react-dom": { + "version": "18.2.0", + "resolved": "https://registry.npmjs.org/react-dom/-/react-dom-18.2.0.tgz", + "integrity": "sha512-6IMTriUmvsjHUjNtEDudZfuDQUoWXVxKHhlEGSk81n4YFS+r/Kl99wXiwlVXtPBtJenozv2P+hxDsw9eA7Xo6g==", "dependencies": { - "is-core-module": "^2.13.0", - "path-parse": "^1.0.7", - "supports-preserve-symlinks-flag": "^1.0.0" + "loose-envify": "^1.1.0", + "scheduler": "^0.23.0" }, - "bin": { - "resolve": "bin/resolve" - }, - "funding": { - "url": "https://github.com/sponsors/ljharb" + "peerDependencies": { + "react": "^18.2.0" + } + }, + "node_modules/react-refresh": { + "version": "0.14.0", + "resolved": "https://registry.npmjs.org/react-refresh/-/react-refresh-0.14.0.tgz", + "integrity": "sha512-wViHqhAd8OHeLS/IRMJjTSDHF3U9eWi62F/MledQGPdJGDhodXJ9PBLNGr6WWL7qlH12Mt3TyTpbS+hGXMjCzQ==", + "engines": { + "node": ">=0.10.0" } }, "node_modules/rollup": { "version": "4.9.1", "resolved": "https://registry.npmjs.org/rollup/-/rollup-4.9.1.tgz", "integrity": "sha512-pgPO9DWzLoW/vIhlSoDByCzcpX92bKEorbgXuZrqxByte3JFk2xSW2JEeAcyLc9Ru9pqcNNW+Ob7ntsk2oT/Xw==", - "dev": true, "bin": { "rollup": "dist/bin/rollup" }, @@ -1570,11 +1416,18 @@ "fsevents": "~2.3.2" } }, + "node_modules/scheduler": { + "version": "0.23.0", + "resolved": "https://registry.npmjs.org/scheduler/-/scheduler-0.23.0.tgz", + "integrity": "sha512-CtuThmgHNg7zIZWAXi3AsyIzA3n4xx7aNyjwC2VJldO2LMVDhFK+63xGqq6CsJH4rTAt6/M+N4GhZiDYPx9eUw==", + "dependencies": { + "loose-envify": "^1.1.0" + } + }, "node_modules/semver": { "version": "6.3.1", "resolved": "https://registry.npmjs.org/semver/-/semver-6.3.1.tgz", "integrity": "sha512-BR7VvDCVHO+q2xBEWskxS6DJE1qRnb7DxzUrogb71CWoSficBxYsiAGd+Kl0mmq/MprG9yArRkyrQxTO6XjMzA==", - "dev": true, "bin": { "semver": "bin/semver.js" } @@ -1583,7 +1436,6 @@ "version": "1.0.2", "resolved": "https://registry.npmjs.org/source-map-js/-/source-map-js-1.0.2.tgz", "integrity": "sha512-R0XvVJ9WusLiqTCEiGCmICCMplcCkIwwR11mOSD9CR5u+IXYdiseeEuXCVAjS54zqwkLcPNnmU4OeJ6tUrWhDw==", - "dev": true, "engines": { "node": ">=0.10.0" } @@ -1592,7 +1444,6 @@ "version": "5.5.0", "resolved": "https://registry.npmjs.org/supports-color/-/supports-color-5.5.0.tgz", "integrity": "sha512-QjVjwdXIt408MIiAqCX4oUKsgU2EqAGzs2Ppkm4aQYbjm+ZEWEcW4SfFNTr4uMNZma0ey4f5lgLrkB0aX0QMow==", - "dev": true, "dependencies": { "has-flag": "^3.0.0" }, @@ -1600,18 +1451,6 @@ "node": ">=4" } }, - "node_modules/supports-preserve-symlinks-flag": { - "version": "1.0.0", - "resolved": "https://registry.npmjs.org/supports-preserve-symlinks-flag/-/supports-preserve-symlinks-flag-1.0.0.tgz", - "integrity": "sha512-ot0WnXS9fgdkgIcePe6RHNk1WA8+muPa6cSjeR3V8K27q9BB1rTE3R1p7Hv0z1ZyAc8s6Vvv8DIyWf681MAt0w==", - "dev": true, - "engines": { - "node": ">= 0.4" - }, - "funding": { - "url": "https://github.com/sponsors/ljharb" - } - }, "node_modules/three": { "version": "0.159.0", "resolved": "https://registry.npmjs.org/three/-/three-0.159.0.tgz", @@ -1621,7 +1460,6 @@ "version": "2.0.0", "resolved": "https://registry.npmjs.org/to-fast-properties/-/to-fast-properties-2.0.0.tgz", "integrity": "sha512-/OaKK0xYrs3DmxRYqL/yDc+FxFUVYhDlXMhRmv3z915w2HF1tnN1omB354j8VUGO/hbRzyD6Y3sA7v7GS/ceog==", - "dev": true, "engines": { "node": ">=4" } @@ -1643,7 +1481,6 @@ "version": "1.0.13", "resolved": "https://registry.npmjs.org/update-browserslist-db/-/update-browserslist-db-1.0.13.tgz", "integrity": "sha512-xebP81SNcPuNpPP3uzeW1NYXxI3rxyJzF3pD6sH4jE7o/IX+WtSpwnVU+qIsDPyk0d3hmFQ7mjqc6AtV604hbg==", - "dev": true, "funding": [ { "type": "opencollective", @@ -1673,7 +1510,6 @@ "version": "5.0.10", "resolved": "https://registry.npmjs.org/vite/-/vite-5.0.10.tgz", "integrity": "sha512-2P8J7WWgmc355HUMlFrwofacvr98DAjoE52BfdbwQtyLH06XKwaL/FMnmKM2crF0iX4MpmMKoDlNCB1ok7zHCw==", - "dev": true, "dependencies": { "esbuild": "^0.19.3", "postcss": "^8.4.32", @@ -1727,8 +1563,7 @@ "node_modules/yallist": { "version": "3.1.1", "resolved": "https://registry.npmjs.org/yallist/-/yallist-3.1.1.tgz", - "integrity": "sha512-a4UGQaWPH59mOXUYnAG2ewncQS4i4F43Tv3JoAM+s2VDAmS9NsK8GpDMLrCHPksFT7h3K6TOoUNn2pb7RoXx4g==", - "dev": true + "integrity": "sha512-a4UGQaWPH59mOXUYnAG2ewncQS4i4F43Tv3JoAM+s2VDAmS9NsK8GpDMLrCHPksFT7h3K6TOoUNn2pb7RoXx4g==" }, "node_modules/zarr": { "version": "0.6.2", diff --git a/package.json b/package.json index 2c08897b..2fec1c28 100644 --- a/package.json +++ b/package.json @@ -9,12 +9,15 @@ "preview": "vite preview" }, "dependencies": { - "preact": "^10.19.3", + "react": "^18.2.0", + "react-dom": "^18.2.0", "three": "^0.159.0", "zarr": "^0.6.2" }, "devDependencies": { - "@preact/preset-vite": "^2.7.0", + "@vitejs/plugin-react": "^4.2.1", + "@types/react": "^18.2.47", + "@types/react-dom": "^18.2.18", "@types/three": "^0.159.0", "typescript": "^5.2.2", "vite": "^5.0.8" diff --git a/src/app.tsx b/src/app.tsx index 1e9eb931..34c26cda 100644 --- a/src/app.tsx +++ b/src/app.tsx @@ -1,21 +1,22 @@ -import { Component } from 'preact'; +import { Component } from 'react'; import './app.css' import Scene from './scene.tsx' const aspectRatio = 4 / 3; +interface AppProps {} + interface AppState { renderWidth: number; } class App extends Component { - state: AppState; + state: AppState = { + renderWidth: 800, + } - constructor() { - super(); - this.state = { - renderWidth: this.calculateRenderWidth(), - }; + constructor(props: AppProps) { + super(props); } calculateRenderWidth() { @@ -38,6 +39,7 @@ class App extends Component { componentDidMount() { const handleWindowResize = this.handleWindowResize.bind(this); window.addEventListener('resize', handleWindowResize); + this.handleWindowResize(); } handleWindowResize() { diff --git a/src/main.tsx b/src/main.tsx index c4d1f78a..7a85169e 100644 --- a/src/main.tsx +++ b/src/main.tsx @@ -1,5 +1,7 @@ -import { render } from 'preact' +import { createRoot } from 'react-dom/client' import App from './app.tsx' import './index.css' -render(, document.getElementById('app')!) +const domNode = document.getElementById('app')! +const root = createRoot(domNode); +root.render(); diff --git a/src/scene.tsx b/src/scene.tsx index 5454df27..7ed6b73d 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -1,5 +1,4 @@ -import { Component } from 'preact'; -import { ChangeEvent } from 'preact/compat'; +import { Component, ChangeEvent } from 'react'; import * as THREE from 'three'; import { OrbitControls } from 'three/addons/controls/OrbitControls.js'; import { EffectComposer } from 'three/addons/postprocessing/EffectComposer.js'; @@ -33,6 +32,7 @@ class Scene extends Component { private path: string; private selectionHelper: SelectionHelper; private selectionBox: PointSelectionBox; + private node: HTMLDivElement | null = null; state = { numTimes: 0, @@ -106,8 +106,6 @@ class Scene extends Component { const pathParts = url.pathname.split('/'); this.path = pathParts.pop() || ""; this.store = url.origin + pathParts.join('/'); - - this.setControlCamera(true); } handlePointerUp() { @@ -223,11 +221,11 @@ class Scene extends Component { } } - render(props: SceneProps) { - console.debug("Scene.render", props); - if (props.renderWidth && props.renderHeight) { - this.renderer.setSize(props.renderWidth, props.renderHeight); - this.composer.setSize(props.renderWidth, props.renderHeight); + render() { + console.debug("Scene.render", this.props); + if (this.props.renderWidth && this.props.renderHeight) { + this.renderer.setSize(this.props.renderWidth, this.props.renderHeight); + this.composer.setSize(this.props.renderWidth, this.props.renderHeight); this.rerender(); } let handleTimeChange = this.handleTimeChange.bind(this); @@ -238,22 +236,24 @@ class Scene extends Component { const playLabel = this.state.autoRotate ? "Stop" : "Spin"; const controlLabel = this.state.controlCamera ? "Camera" : "Select"; return ( -
- - - - - +
this.node = node}> +
+ + + + + +
); } @@ -276,11 +276,14 @@ class Scene extends Component { this.rerender(); - setTimeout(() => { - this.base?.appendChild(this.renderer.domElement); - }, 1); + this.node.appendChild(this.renderer.domElement); + // setTimeout(() => { + // this.base?.appendChild(this.renderer.domElement); + // }, 1); this.fetchPointsAtTime(0); + + this.setControlCamera(true); } async loadArray() { diff --git a/tsconfig.json b/tsconfig.json index d1324579..e8146352 100644 --- a/tsconfig.json +++ b/tsconfig.json @@ -5,10 +5,6 @@ "module": "ESNext", "lib": ["ES2020", "DOM", "DOM.Iterable"], "skipLibCheck": true, - "paths": { - "react": ["./node_modules/preact/compat/"], - "react-dom": ["./node_modules/preact/compat/"] - }, /* Bundler mode */ "moduleResolution": "bundler", @@ -17,7 +13,6 @@ "isolatedModules": true, "noEmit": true, "jsx": "react-jsx", - "jsxImportSource": "preact", /* Linting */ "strict": true, diff --git a/vite.config.ts b/vite.config.ts index 29b326fa..962333c5 100644 --- a/vite.config.ts +++ b/vite.config.ts @@ -1,7 +1,8 @@ import { defineConfig } from 'vite' -import preact from '@preact/preset-vite' +import react from '@vitejs/plugin-react' // https://vitejs.dev/config/ export default defineConfig({ - plugins: [preact()], + plugins: [react()], }) + From a65a5ed69215c2fcf26f641f2444bf98c7e94031 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Thu, 11 Jan 2024 16:22:51 -0500 Subject: [PATCH 02/15] Fix TS error --- src/scene.tsx | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/scene.tsx b/src/scene.tsx index 7ed6b73d..716c30d6 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -276,7 +276,7 @@ class Scene extends Component { this.rerender(); - this.node.appendChild(this.renderer.domElement); + this.node?.appendChild(this.renderer.domElement); // setTimeout(() => { // this.base?.appendChild(this.renderer.domElement); // }, 1); From bf4d00e86068e9401a585d804026226a5377c4d3 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Fri, 12 Jan 2024 11:46:58 -0500 Subject: [PATCH 03/15] Refactor App component to be a function. --- src/app.tsx | 61 +++++++++++++++++++---------------------------------- 1 file changed, 22 insertions(+), 39 deletions(-) diff --git a/src/app.tsx b/src/app.tsx index 34c26cda..d4132c14 100644 --- a/src/app.tsx +++ b/src/app.tsx @@ -1,27 +1,17 @@ -import { Component } from 'react'; +import { useState, useEffect } from 'react'; import './app.css' import Scene from './scene.tsx' const aspectRatio = 4 / 3; -interface AppProps {} +export default function App() { + const [renderWidth, setRenderWidth] = useState(800); -interface AppState { - renderWidth: number; -} - -class App extends Component { - state: AppState = { - renderWidth: 800, - } - - constructor(props: AppProps) { - super(props); - } - - calculateRenderWidth() { + function handleWindowResize() { const windowWidth = window.innerWidth; - const appPadding = parseFloat(getComputedStyle(document.documentElement).getPropertyValue('--app-padding')); + const appPadding = parseFloat( + getComputedStyle(document.documentElement).getPropertyValue('--app-padding') + ); let w: number; if (windowWidth < 800) { w = windowWidth; @@ -32,31 +22,24 @@ class App extends Component { } else { w = 1200; } - const renderWidth = w - appPadding * 2; - return renderWidth < 0 ? windowWidth : renderWidth; + let renderWidth = w - appPadding * 2; + renderWidth = renderWidth < 0 ? windowWidth : renderWidth; + setRenderWidth(renderWidth); } - componentDidMount() { - const handleWindowResize = this.handleWindowResize.bind(this); + useEffect(() => { + handleWindowResize(); window.addEventListener('resize', handleWindowResize); - this.handleWindowResize(); - } + return () => { + window.removeEventListener('resize', handleWindowResize); + } + }, [renderWidth]); - handleWindowResize() { - this.setState({ - renderWidth: this.calculateRenderWidth(), - }); - } - render() { - const renderWidth = this.state.renderWidth || 800; - const renderHeight = renderWidth / aspectRatio; - return ( - <> - - - ) - } -} + return ( + <> + + + ) -export default App; +} From 65b3196c439e83d5b8d1aa58f844d0636c61bcfe Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Fri, 12 Jan 2024 14:09:30 -0500 Subject: [PATCH 04/15] Basic Three.js canvas component w/ dummy visualization. Also adding some ESLint configs for React. --- .eslintrc.json | 3 + package-lock.json | 7339 +++++++++++++++++++++++++++++++++++++++------ package.json | 4 +- src/scene.tsx | 393 +-- 4 files changed, 6479 insertions(+), 1260 deletions(-) create mode 100644 .eslintrc.json diff --git a/.eslintrc.json b/.eslintrc.json new file mode 100644 index 00000000..5e603ecd --- /dev/null +++ b/.eslintrc.json @@ -0,0 +1,3 @@ +{ + "extends": "react-app" +} diff --git a/package-lock.json b/package-lock.json index bc2706b7..362cf4b6 100644 --- a/package-lock.json +++ b/package-lock.json @@ -8,7 +8,6 @@ "name": "three-experiments", "version": "0.0.0", "dependencies": { - "@vitejs/plugin-react": "^4.2.1", "react": "^18.2.0", "react-dom": "^18.2.0", "three": "^0.159.0", @@ -18,14 +17,27 @@ "@types/react": "^18.2.47", "@types/react-dom": "^18.2.18", "@types/three": "^0.159.0", + "@vitejs/plugin-react": "^4.2.1", + "eslint": "^8.56.0", + "eslint-config-react-app": "^7.0.1", "typescript": "^5.2.2", "vite": "^5.0.8" } }, + "node_modules/@aashutoshrathi/word-wrap": { + "version": "1.2.6", + "resolved": "https://registry.npmjs.org/@aashutoshrathi/word-wrap/-/word-wrap-1.2.6.tgz", + "integrity": "sha512-1Yjs2SvM8TflER/OD3cOjhWWOZb58A2t7wpE2S9XfBYTiIl+XFhQG2bjy4Pu1I+EAlCNUzRDYDdFwFYUKvXcIA==", + "dev": true, + "engines": { + "node": ">=0.10.0" + } + }, "node_modules/@ampproject/remapping": { "version": "2.2.1", "resolved": "https://registry.npmjs.org/@ampproject/remapping/-/remapping-2.2.1.tgz", "integrity": "sha512-lFMjJTrFL3j7L9yBxwYfCq2k6qqwHyzuUl/XBnif78PWTJYyL/dfowQHWE3sp6U6ZzqWiiIZnpTMO96zhkjwtg==", + "dev": true, "dependencies": { "@jridgewell/gen-mapping": "^0.3.0", "@jridgewell/trace-mapping": "^0.3.9" @@ -38,6 +50,7 @@ "version": "7.23.5", "resolved": "https://registry.npmjs.org/@babel/code-frame/-/code-frame-7.23.5.tgz", "integrity": "sha512-CgH3s1a96LipHCmSUmYFPwY7MNx8C3avkq7i4Wl3cfa662ldtUe4VM1TPXX70pfmrlWTb6jLqTYrZyT2ZTJBgA==", + "dev": true, "dependencies": { 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"^5.0.8" } diff --git a/src/scene.tsx b/src/scene.tsx index 716c30d6..4e102817 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -1,365 +1,68 @@ -import { Component, ChangeEvent } from 'react'; +import { useEffect, useRef } from 'react'; import * as THREE from 'three'; import { OrbitControls } from 'three/addons/controls/OrbitControls.js'; -import { EffectComposer } from 'three/addons/postprocessing/EffectComposer.js'; -import { RenderPass } from 'three/addons/postprocessing/RenderPass.js'; -import { OutputPass } from 'three/addons/postprocessing/OutputPass.js'; -import { UnrealBloomPass } from 'three/addons/postprocessing/UnrealBloomPass.js'; -import { SelectionHelper } from 'three/addons/interactive/SelectionHelper.js'; -import { PointSelectionBox } from './PointSelectionBox'; - -// @ts-expect-error -import { ZarrArray, slice, openArray } from "zarr"; - - -const DEFAULT_ZARR_URL = "https://public.czbiohub.org/royerlab/zebrahub/imaging/single-objective/tracks_benchmark/ZSNS001_nodes.zarr" interface SceneProps { renderWidth?: number; renderHeight?: number; } -class Scene extends Component { - - private renderer: THREE.WebGLRenderer; - private scene: THREE.Scene; - private camera: THREE.OrthographicCamera | THREE.PerspectiveCamera; - private controls: OrbitControls; - private points: THREE.Points; - private composer: EffectComposer; - private array: ZarrArray; - private store: string; - private path: string; - private selectionHelper: SelectionHelper; - private selectionBox: PointSelectionBox; - private node: HTMLDivElement | null = null; - - state = { - numTimes: 0, - curTime: 0, - autoRotate: false, - controlCamera: true, - }; - - constructor(props: SceneProps) { - super(props); - console.debug("Scene.constructor", props); - - const renderWidth = props.renderWidth || 800; - const renderHeight = props.renderHeight || 600; - - // bind so that "this" refers to the class instance - const rerender = this.rerender.bind(this); - - this.renderer = new THREE.WebGLRenderer(); - this.renderer.setSize(renderWidth, renderHeight); +export default function Scene(props: SceneProps) { + + const renderWidth = props.renderWidth || 800; + const renderHeight = props.renderHeight || 600; + + // Use references here to avoid adding dependencies in the below useEffect + const divRef: React.RefObject = useRef(null); + const renderer = useRef(); + const scene = useRef(); + const camera = useRef(); + const controls = useRef(); + const aspect = useRef(renderWidth / renderHeight); + + // useEffect here is intended to make this part run only on mount + useEffect(() => { + // Initialize renderer + renderer.current = new THREE.WebGLRenderer(); + divRef.current?.appendChild(renderer.current.domElement); + scene.current = new THREE.Scene(); + camera.current = new THREE.PerspectiveCamera( + 35, // FOV + aspect.current, // Aspect + 0.1, // Near + 10000 // Far + ); - this.scene = new THREE.Scene(); + scene.current.add(new THREE.AxesHelper(128)); // Default position from interacting with ZSNS001 + // TODO: this should be reset when the data URI changes const target = new THREE.Vector3(500, 500, 250); - this.camera = new THREE.PerspectiveCamera( - 35, // FOV - renderWidth / renderHeight, // Aspect - 0.1, // Near - 10000 // Far - ); - this.camera.position.set(target.x, target.y, target.z - 1500); - this.camera.lookAt(target.x, target.y, target.z); - - this.controls = new OrbitControls(this.camera, this.renderer.domElement); - this.controls.target.set(target.x, target.y, target.z); - this.controls.autoRotate = this.state.autoRotate; - this.controls.autoRotateSpeed = 4; - this.controls.update(); - this.controls.addEventListener('change', rerender); - - // postprocessing - const renderModel = new RenderPass(this.scene, this.camera); - const bloomPass = new UnrealBloomPass( - new THREE.Vector2(renderWidth, renderHeight), // resolution - 0.5, // strength - 0, // radius - 0 // threshold - ); - const outputPass = new OutputPass(); - this.composer = new EffectComposer(this.renderer); - this.composer.addPass(renderModel); - this.composer.addPass(bloomPass); - this.composer.addPass(outputPass); - - const geometry = new THREE.BufferGeometry(); - const material = new THREE.PointsMaterial({ size: 5.0, vertexColors: true }); - this.points = new THREE.Points(geometry, material); - - // From https://github.com/mrdoob/three.js/blob/master/examples/misc_boxselection.html - this.selectionHelper = new SelectionHelper(this.renderer, 'selectBox'); - this.selectionBox = new PointSelectionBox(this.camera, this.scene); - const handlePointerUp = this.handlePointerUp.bind(this); - const handleKeyDown = this.handleKeyDown.bind(this); - const handleKeyUp = this.handleKeyUp.bind(this); - document.addEventListener('pointerup', handlePointerUp); - document.addEventListener('keydown', handleKeyDown); - document.addEventListener('keyup', handleKeyUp); - - const url = new URL(DEFAULT_ZARR_URL); - const pathParts = url.pathname.split('/'); - this.path = pathParts.pop() || ""; - this.store = url.origin + pathParts.join('/'); - } - - handlePointerUp() { - if (this.selectionHelper.enabled) { - // Mouse to normalized render/canvas coords from: - // https://codepen.io/boytchev/pen/NWOMrxW?editors=0011 - const canvas = this.renderer.domElement.getBoundingClientRect(); - - const topLeft = this.selectionHelper.pointTopLeft; - const left = (topLeft.x - canvas.left) / canvas.width * 2 - 1; - const top = - (topLeft.y - canvas.top) / canvas.height * 2 + 1; - - const bottomRight = this.selectionHelper.pointBottomRight; - const right = (bottomRight.x - canvas.left) / canvas.width * 2 - 1; - const bottom = - (bottomRight.y - canvas.top) / canvas.height * 2 + 1; - console.debug( - 'selectionHelper, top = %f, left = %f, bottom = %f, right = %f', - top, left, bottom, right, - ); - - // TODO: check the z-value of these points - this.selectionBox.startPoint.set(left, top, 0.5); - this.selectionBox.endPoint.set(right, bottom, 0.5); - - // TODO: consider restricting selection to a specific object - const selection = this.selectionBox.select(); - console.debug("selected points:", selection); - - if (this.points.id in selection) { - const geometry = this.points.geometry as THREE.BufferGeometry; - const colors = geometry.getAttribute('color') as THREE.BufferAttribute; - const color = new THREE.Color(0xffffff); - for (const i of selection[this.points.id]) { - colors.setXYZ(i, color.r, color.g, color.b); - } - colors.needsUpdate = true; - this.rerender(); - } - } - } + camera.current.position.set(target.x, target.y, target.z - 1500); + camera.current.lookAt(target.x, target.y, target.z); - handleKeyUp(event: KeyboardEvent) { - console.debug('handleKeyUp: %s', event.key); - if (event.key === "Shift") { - this.setControlCamera(true); - } - } + // Set up controls + controls.current = new OrbitControls(camera.current, renderer.current.domElement); + controls.current.target.set(target.x, target.y, target.z); - handleKeyDown(event: KeyboardEvent) { - console.debug('handleKeyDown: %s', event.key); - if (event.key === "Shift") { - this.setControlCamera(false); - } - } + // Animation function + const animate = () => { + requestAnimationFrame(animate); - handleTimeChange(event: ChangeEvent) { - console.log('handleTimeChange: %s', event); - const slider = event.target as HTMLInputElement; - const timeIndex = Math.floor(Number(slider.value)); - this.fetchPointsAtTime(timeIndex); - } + // Render the scene + if (scene.current && camera.current) { + renderer.current?.render(scene.current, camera.current); + } + controls.current?.update(); + }; - handleURLChange(event: ChangeEvent) { - console.log('handleURLChange: %s', event); - const input = event.target as HTMLInputElement; - const url = input.value; - this.setStoreAndPath(new URL(url)); - const timeSlider = document.getElementById("timeSlider") as HTMLInputElement; - const t = Math.floor(Number(timeSlider.value)); - this.fetchPointsAtTime(t); - } + animate() + }, [/* no dependencies so this only runs on mount */]); - nearToFar(near: THREE.Vector3, cameraPos: THREE.Vector3) { - const far = new THREE.Vector3(); - far.copy(near); - far.sub(cameraPos); - far.normalize(); - far.multiplyScalar(Number.MAX_VALUE) - far.add(cameraPos); - return far; - } - handleControlClick() { - console.log('handleControlClick'); - this.setControlCamera(!this.controls.enabled) - } + renderer.current?.setSize(renderWidth, renderHeight); - handlePlayClick() { - console.log('handlePlayClick'); - this.setAutoRotate(!this.state.autoRotate); - this.animate(); - } - - setControlCamera(value: boolean) { - this.controls.enabled = value; - this.selectionHelper.enabled = !value; - this.setState({ controlCamera: value }); - } - - setAutoRotate(value: boolean) { - this.controls.autoRotate = value; - this.setState({ autoRotate: value }); - } - - setStoreAndPath(url: URL) { - const pathParts = url.pathname.split('/'); - const newPath = pathParts.pop() || ""; - const newStore = url.origin + pathParts.join('/'); - if (newStore !== this.store || newPath !== this.path) { - this.store = newStore; - this.path = newPath; - this.array = undefined; - } - } - - render() { - console.debug("Scene.render", this.props); - if (this.props.renderWidth && this.props.renderHeight) { - this.renderer.setSize(this.props.renderWidth, this.props.renderHeight); - this.composer.setSize(this.props.renderWidth, this.props.renderHeight); - this.rerender(); - } - let handleTimeChange = this.handleTimeChange.bind(this); - let handleURLChange = this.handleURLChange.bind(this); - let handlePlayClick = this.handlePlayClick.bind(this); - let handleControlClick = this.handleControlClick.bind(this); - let url = this.store + '/' + this.path; - const playLabel = this.state.autoRotate ? "Stop" : "Spin"; - const controlLabel = this.state.controlCamera ? "Camera" : "Select"; - return ( -
this.node = node}> -
- - - - - -
-
- ); - } - - rerender() { - this.composer.render(); - } - - animate() { - if (this.controls.autoRotate) { - const animate = this.animate.bind(this); - requestAnimationFrame(animate); - this.controls.update(); - this.rerender(); - } - } - - componentDidMount() { - this.scene.add(this.points); - - this.rerender(); - - this.node?.appendChild(this.renderer.domElement); - // setTimeout(() => { - // this.base?.appendChild(this.renderer.domElement); - // }, 1); - - this.fetchPointsAtTime(0); - - this.setControlCamera(true); - } - - async loadArray() { - console.log('loadArray'); - try { - this.array = await openArray({ - store: this.store, - path: this.path, - mode: "r" - }); - } catch (err) { - console.error("Error opening array: %s", err); - this.array = undefined; - } - const numTimes = this.array?.shape[0] ?? 0; - this.setState({ numTimes: numTimes }); - return numTimes > 0; - } - - async fetchPointsAtTime(timeIndex: number) { - this.setState({ curTime: timeIndex }); - console.log('fetchPointsAtTime: %d', timeIndex); - if (this.array === undefined && !(await this.loadArray())) { - return; - } - const array = this.array; - const maxPoints = array.shape[1] / 3; - // TODO: somewhat arbitrary right. Should calculate some number that would - // be reasonable for slow connections or use the chunk size. - const trackChunkSize = 100_000; - - // Initialize the geometry attributes. - const geometry = this.points.geometry; - const positions = new Float32Array(3 * maxPoints); - const colors = new Float32Array(3 * maxPoints); - geometry.setAttribute('position', new THREE.Float32BufferAttribute(positions, 3)); - geometry.setAttribute('color', new THREE.Float32BufferAttribute(colors, 3)); - geometry.setDrawRange(0, 0) - - // Initialize all the colors immediately. - const color = new THREE.Color(); - const colorAttribute = geometry.getAttribute('color'); - for (let i = 0; i < maxPoints; i++) { - const r = Math.random(); - const g = Math.random(); - const b = Math.random(); - color.setRGB(r, g, b, THREE.SRGBColorSpace); - colorAttribute.setXYZ(i, color.r, color.g, color.b); - } - colorAttribute.needsUpdate = true; - - // Load the positions progressively. - const positionAttribute = geometry.getAttribute('position'); - for (let i = 0, pointIndex = 0; i < maxPoints; i += trackChunkSize) { - const start = 3 * i; - const end = Math.min(array.shape[1], 3 * (i + trackChunkSize)); - const points = await array.get([timeIndex, slice(start, end)]); - const coords = points.data; - - for (let j = 0; j < coords.length; j += 3) { - // TODO: this seems to work for the int8 data, but not sure it's correct - if (coords[j] > -128) { - positionAttribute.setXYZ(pointIndex, coords[j], coords[j + 1], coords[j + 2]); - pointIndex++; - } - } - positionAttribute.needsUpdate = true; - - geometry.setDrawRange(0, pointIndex) - geometry.computeBoundingSphere(); - - this.rerender() - - console.log("added points up to %d as %d", i + trackChunkSize, pointIndex); - } - } + return ( +
+ ); } - -export default Scene; From 4cf208df17deee2623f162f6bfe6fced0ba8b0b7 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Fri, 12 Jan 2024 21:10:34 -0500 Subject: [PATCH 05/15] Loading a single frame --- src/scene.tsx | 359 ++++++++++++++++++++++++++++++++++++++++++++++++-- 1 file changed, 348 insertions(+), 11 deletions(-) diff --git a/src/scene.tsx b/src/scene.tsx index 4e102817..87ef3e89 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -1,6 +1,18 @@ -import { useEffect, useRef } from 'react'; +import { useEffect, useRef, useState } from 'react'; import * as THREE from 'three'; import { OrbitControls } from 'three/addons/controls/OrbitControls.js'; +// import { EffectComposer } from 'three/addons/postprocessing/EffectComposer.js'; +// import { RenderPass } from 'three/addons/postprocessing/RenderPass.js'; +// import { OutputPass } from 'three/addons/postprocessing/OutputPass.js'; +// import { UnrealBloomPass } from 'three/addons/postprocessing/UnrealBloomPass.js'; +// import { SelectionHelper } from 'three/addons/interactive/SelectionHelper.js'; +// import { PointSelectionBox } from './PointSelectionBox'; + +// @ts-expect-error +import { ZarrArray, slice, openArray } from "zarr"; + + +const DEFAULT_ZARR_URL = new URL("https://public.czbiohub.org/royerlab/zebrahub/imaging/single-objective/tracks_benchmark/ZSNS001_nodes.zarr"); interface SceneProps { renderWidth?: number; @@ -9,6 +21,13 @@ interface SceneProps { export default function Scene(props: SceneProps) { + // TODO: make this a state variable? + const array = useRef(); + const [dataUrl, setDataUrl] = useState(DEFAULT_ZARR_URL); + const [numTimes, setNumTimes] = useState(0); + const [curTime, setCurTime] = useState(0); + // const [autoRotate, setAutoRotate] = useState(false); + const renderWidth = props.renderWidth || 800; const renderHeight = props.renderHeight || 600; @@ -16,10 +35,12 @@ export default function Scene(props: SceneProps) { const divRef: React.RefObject = useRef(null); const renderer = useRef(); const scene = useRef(); + const points = useRef(); const camera = useRef(); const controls = useRef(); const aspect = useRef(renderWidth / renderHeight); + // useEffect here is intended to make this part run only on mount useEffect(() => { // Initialize renderer @@ -33,36 +54,352 @@ export default function Scene(props: SceneProps) { 10000 // Far ); + const geometry = new THREE.BufferGeometry(); + const material = new THREE.PointsMaterial({ size: 5.0, vertexColors: true }); + points.current = new THREE.Points(geometry, material); + scene.current.add(new THREE.AxesHelper(128)); + scene.current.add(points.current); // Default position from interacting with ZSNS001 - // TODO: this should be reset when the data URI changes + // TODO: this should be reset when the data changes const target = new THREE.Vector3(500, 500, 250); camera.current.position.set(target.x, target.y, target.z - 1500); camera.current.lookAt(target.x, target.y, target.z); + // TODO: add clean-up by returning another closure // Set up controls controls.current = new OrbitControls(camera.current, renderer.current.domElement); controls.current.target.set(target.x, target.y, target.z); + controls.current.autoRotateSpeed = 4; // Animation function const animate = () => { - requestAnimationFrame(animate); + requestAnimationFrame(animate); - // Render the scene - if (scene.current && camera.current) { - renderer.current?.render(scene.current, camera.current); - } - controls.current?.update(); + // Render the scene + if (scene.current && camera.current) { + renderer.current?.render(scene.current, camera.current); + } + controls.current?.update(); }; - animate() - }, [/* no dependencies so this only runs on mount */]); + // TODO: add clean-up by returning another closure + }, []); // dependency array must be empty to run only on mount! + + // update the array when the dataUrl changes + useEffect(() => { + console.log('load data from %s', dataUrl); + const pathParts = dataUrl.pathname.split('/'); + const path = pathParts.pop() || ""; + const store = dataUrl.origin + pathParts.join('/'); + array.current = loadArray(store, path); + // TODO: add clean-up by returning another closure + array.current?.then((array: ZarrArray) => { + setNumTimes(array.shape[0]); + setCurTime(0); + }); + }, [dataUrl]); + + // update the points when the array or timepoint changes + useEffect(() => { + array.current.then((array: ZarrArray) => { + fetchPointsAtTime(array, curTime, points.current!); + }); + // TODO: add clean-up by returning another closure + }, [numTimes, curTime]); renderer.current?.setSize(renderWidth, renderHeight); return ( -
+
+
+ setDataUrl(() => new URL(event.target.value))} + // style={{ color: array.current ? "black" : "red" }} + /> +
+
); } +// // postprocessing +// const renderModel = new RenderPass(this.scene, this.camera); +// const bloomPass = new UnrealBloomPass( +// new THREE.Vector2(renderWidth, renderHeight), // resolution +// 0.5, // strength +// 0, // radius +// 0 // threshold +// ); +// const outputPass = new OutputPass(); +// this.composer = new EffectComposer(this.renderer); +// this.composer.addPass(renderModel); +// this.composer.addPass(bloomPass); +// this.composer.addPass(outputPass); +// +// +// // From https://github.com/mrdoob/three.js/blob/master/examples/misc_boxselection.html +// this.selectionHelper = new SelectionHelper(this.renderer, 'selectBox'); +// this.selectionBox = new PointSelectionBox(this.camera, this.scene); +// const handlePointerUp = this.handlePointerUp.bind(this); +// const handleKeyDown = this.handleKeyDown.bind(this); +// const handleKeyUp = this.handleKeyUp.bind(this); +// document.addEventListener('pointerup', handlePointerUp); +// document.addEventListener('keydown', handleKeyDown); +// document.addEventListener('keyup', handleKeyUp); +// +// const url = new URL(DEFAULT_ZARR_URL); +// const pathParts = url.pathname.split('/'); +// this.path = pathParts.pop() || ""; +// this.store = url.origin + pathParts.join('/'); +// } +// +// handlePointerUp() { +// if (this.selectionHelper.enabled) { +// // Mouse to normalized render/canvas coords from: +// // https://codepen.io/boytchev/pen/NWOMrxW?editors=0011 +// const canvas = this.renderer.domElement.getBoundingClientRect(); +// +// const topLeft = this.selectionHelper.pointTopLeft; +// const left = (topLeft.x - canvas.left) / canvas.width * 2 - 1; +// const top = - (topLeft.y - canvas.top) / canvas.height * 2 + 1; +// +// const bottomRight = this.selectionHelper.pointBottomRight; +// const right = (bottomRight.x - canvas.left) / canvas.width * 2 - 1; +// const bottom = - (bottomRight.y - canvas.top) / canvas.height * 2 + 1; +// console.debug( +// 'selectionHelper, top = %f, left = %f, bottom = %f, right = %f', +// top, left, bottom, right, +// ); +// +// // TODO: check the z-value of these points +// this.selectionBox.startPoint.set(left, top, 0.5); +// this.selectionBox.endPoint.set(right, bottom, 0.5); +// +// // TODO: consider restricting selection to a specific object +// const selection = this.selectionBox.select(); +// console.debug("selected points:", selection); +// +// if (this.points.id in selection) { +// const geometry = this.points.geometry as THREE.BufferGeometry; +// const colors = geometry.getAttribute('color') as THREE.BufferAttribute; +// const color = new THREE.Color(0xffffff); +// for (const i of selection[this.points.id]) { +// colors.setXYZ(i, color.r, color.g, color.b); +// } +// colors.needsUpdate = true; +// this.rerender(); +// } +// } +// } +// +// handleKeyUp(event: KeyboardEvent) { +// console.debug('handleKeyUp: %s', event.key); +// if (event.key === "Shift") { +// this.setControlCamera(true); +// } +// } +// +// handleKeyDown(event: KeyboardEvent) { +// console.debug('handleKeyDown: %s', event.key); +// if (event.key === "Shift") { +// this.setControlCamera(false); +// } +// } +// +// handleTimeChange(event: ChangeEvent) { +// console.log('handleTimeChange: %s', event); +// const slider = event.target as HTMLInputElement; +// const timeIndex = Math.floor(Number(slider.value)); +// this.fetchPointsAtTime(timeIndex); +// } +// +// handleURLChange(event: ChangeEvent) { +// console.log('handleURLChange: %s', event); +// const input = event.target as HTMLInputElement; +// const url = input.value; +// this.setStoreAndPath(new URL(url)); +// const timeSlider = document.getElementById("timeSlider") as HTMLInputElement; +// const t = Math.floor(Number(timeSlider.value)); +// this.fetchPointsAtTime(t); +// } +// +// nearToFar(near: THREE.Vector3, cameraPos: THREE.Vector3) { +// const far = new THREE.Vector3(); +// far.copy(near); +// far.sub(cameraPos); +// far.normalize(); +// far.multiplyScalar(Number.MAX_VALUE) +// far.add(cameraPos); +// return far; +// } +// +// handleControlClick() { +// console.log('handleControlClick'); +// this.setControlCamera(!this.controls.enabled) +// } +// +// handlePlayClick() { +// console.log('handlePlayClick'); +// this.setAutoRotate(!this.state.autoRotate); +// this.animate(); +// } +// +// setControlCamera(value: boolean) { +// this.controls.enabled = value; +// this.selectionHelper.enabled = !value; +// this.setState({ controlCamera: value }); +// } +// +// setAutoRotate(value: boolean) { +// this.controls.autoRotate = value; +// this.setState({ autoRotate: value }); +// } +// +// setStoreAndPath(url: URL) { +// const pathParts = url.pathname.split('/'); +// const newPath = pathParts.pop() || ""; +// const newStore = url.origin + pathParts.join('/'); +// if (newStore !== this.store || newPath !== this.path) { +// this.store = newStore; +// this.path = newPath; +// this.array = undefined; +// } +// } +// +// render() { +// console.debug("Scene.render", this.props); +// if (this.props.renderWidth && this.props.renderHeight) { +// this.renderer.setSize(this.props.renderWidth, this.props.renderHeight); +// this.composer.setSize(this.props.renderWidth, this.props.renderHeight); +// this.rerender(); +// } +// let handleTimeChange = this.handleTimeChange.bind(this); +// let handleURLChange = this.handleURLChange.bind(this); +// let handlePlayClick = this.handlePlayClick.bind(this); +// let handleControlClick = this.handleControlClick.bind(this); +// let url = this.store + '/' + this.path; +// const playLabel = this.state.autoRotate ? "Stop" : "Spin"; +// const controlLabel = this.state.controlCamera ? "Camera" : "Select"; +// return ( +//
this.node = node}> +//
+// +// +// +// +// +//
+//
+// ); +// } +// +// rerender() { +// this.composer.render(); +// } +// +// animate() { +// if (this.controls.autoRotate) { +// const animate = this.animate.bind(this); +// requestAnimationFrame(animate); +// this.controls.update(); +// this.rerender(); +// } +// } +// +// componentDidMount() { +// this.scene.add(this.points); +// +// this.rerender(); +// +// this.node?.appendChild(this.renderer.domElement); +// // setTimeout(() => { +// // this.base?.appendChild(this.renderer.domElement); +// // }, 1); +// +// this.fetchPointsAtTime(0); +// +// this.setControlCamera(true); +// } +// + + +async function loadArray(store: string, path: string) { + let array; + try { + array = await openArray({ + store: store, + path: path, + mode: "r" + }); + } catch (err) { + console.error("Error opening array: %s", err); + array = undefined; + } + console.log('array: %s', array); + return array; +} + + +async function fetchPointsAtTime(array: ZarrArray, timeIndex: number, points: THREE.Points) { + console.log('fetchPointsAtTime: %d', timeIndex); + const maxPoints = array.shape[1] / 3; + // TODO: somewhat arbitrary right. Should calculate some number that would + // be reasonable for slow connections or use the chunk size. + const trackChunkSize = 100_000; + + // Initialize the geometry attributes. + const geometry = points.geometry; + const positions = new Float32Array(3 * maxPoints); + const colors = new Float32Array(3 * maxPoints); + geometry.setAttribute('position', new THREE.Float32BufferAttribute(positions, 3)); + geometry.setAttribute('color', new THREE.Float32BufferAttribute(colors, 3)); + geometry.setDrawRange(0, 0) + + // Initialize all the colors immediately. + const color = new THREE.Color(); + const colorAttribute = geometry.getAttribute('color'); + for (let i = 0; i < maxPoints; i++) { + const r = Math.random(); + const g = Math.random(); + const b = Math.random(); + color.setRGB(r, g, b, THREE.SRGBColorSpace); + colorAttribute.setXYZ(i, color.r, color.g, color.b); + } + colorAttribute.needsUpdate = true; + + // Load the positions progressively. + const positionAttribute = geometry.getAttribute('position'); + for (let i = 0, pointIndex = 0; i < maxPoints; i += trackChunkSize) { + const start = 3 * i; + const end = Math.min(array.shape[1], 3 * (i + trackChunkSize)); + const points = await array.get([timeIndex, slice(start, end)]); + const coords = points.data; + + for (let j = 0; j < coords.length; j += 3) { + // TODO: this seems to work for the int8 data, but not sure it's correct + if (coords[j] > -128) { + positionAttribute.setXYZ(pointIndex, coords[j], coords[j + 1], coords[j + 2]); + pointIndex++; + } + } + positionAttribute.needsUpdate = true; + + geometry.setDrawRange(0, pointIndex) + geometry.computeBoundingSphere(); + + console.log("added points up to %d as %d", i + trackChunkSize, pointIndex); + } +} From 6008e4257c3365cf12563fa15d037feb436cfb77 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Sat, 13 Jan 2024 08:09:16 -0500 Subject: [PATCH 06/15] Use state instead of ref for array --- src/scene.tsx | 22 +++++++++++++--------- 1 file changed, 13 insertions(+), 9 deletions(-) diff --git a/src/scene.tsx b/src/scene.tsx index 87ef3e89..7c464973 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -22,7 +22,7 @@ interface SceneProps { export default function Scene(props: SceneProps) { // TODO: make this a state variable? - const array = useRef(); + const [array, setArray] = useState(); const [dataUrl, setDataUrl] = useState(DEFAULT_ZARR_URL); const [numTimes, setNumTimes] = useState(0); const [curTime, setCurTime] = useState(0); @@ -31,7 +31,9 @@ export default function Scene(props: SceneProps) { const renderWidth = props.renderWidth || 800; const renderHeight = props.renderHeight || 600; - // Use references here to avoid adding dependencies in the below useEffect + // Use references here for two things: + // * to manage objects that should never change, even when the component re-renders + // * to avoid triggering re-renders when these change const divRef: React.RefObject = useRef(null); const renderer = useRef(); const scene = useRef(); @@ -40,8 +42,8 @@ export default function Scene(props: SceneProps) { const controls = useRef(); const aspect = useRef(renderWidth / renderHeight); - - // useEffect here is intended to make this part run only on mount + // this useEffect is intended to make this part run only on mount + // this requires keeping the dependency array empty useEffect(() => { // Initialize renderer renderer.current = new THREE.WebGLRenderer(); @@ -83,6 +85,7 @@ export default function Scene(props: SceneProps) { } controls.current?.update(); }; + // start animating - this keeps the scene rendering when controls change, etc. animate() // TODO: add clean-up by returning another closure @@ -94,9 +97,10 @@ export default function Scene(props: SceneProps) { const pathParts = dataUrl.pathname.split('/'); const path = pathParts.pop() || ""; const store = dataUrl.origin + pathParts.join('/'); - array.current = loadArray(store, path); + const array = loadArray(store, path); // TODO: add clean-up by returning another closure - array.current?.then((array: ZarrArray) => { + array.then((array: ZarrArray) => { + setArray(array); setNumTimes(array.shape[0]); setCurTime(0); }); @@ -104,11 +108,11 @@ export default function Scene(props: SceneProps) { // update the points when the array or timepoint changes useEffect(() => { - array.current.then((array: ZarrArray) => { + if (array) { fetchPointsAtTime(array, curTime, points.current!); - }); + } // TODO: add clean-up by returning another closure - }, [numTimes, curTime]); + }, [array, numTimes, curTime]); renderer.current?.setSize(renderWidth, renderHeight); From 66e02d663d2853c4e4cc23e272eb67943445566e Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Tue, 16 Jan 2024 11:56:16 -0500 Subject: [PATCH 07/15] Clean up old commented code. Set style on URL input. --- src/scene.tsx | 192 +------------------------------------------------- 1 file changed, 1 insertion(+), 191 deletions(-) diff --git a/src/scene.tsx b/src/scene.tsx index 7c464973..38ec1320 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -123,171 +123,12 @@ export default function Scene(props: SceneProps) { type="text" className="textinput" id="zarrURL" value={dataUrl.toString()} onChange={(event) => setDataUrl(() => new URL(event.target.value))} - // style={{ color: array.current ? "black" : "red" }} + style={{ color: array ? "black" : "red" }} />
); } -// // postprocessing -// const renderModel = new RenderPass(this.scene, this.camera); -// const bloomPass = new UnrealBloomPass( -// new THREE.Vector2(renderWidth, renderHeight), // resolution -// 0.5, // strength -// 0, // radius -// 0 // threshold -// ); -// const outputPass = new OutputPass(); -// this.composer = new EffectComposer(this.renderer); -// this.composer.addPass(renderModel); -// this.composer.addPass(bloomPass); -// this.composer.addPass(outputPass); -// -// -// // From https://github.com/mrdoob/three.js/blob/master/examples/misc_boxselection.html -// this.selectionHelper = new SelectionHelper(this.renderer, 'selectBox'); -// this.selectionBox = new PointSelectionBox(this.camera, this.scene); -// const handlePointerUp = this.handlePointerUp.bind(this); -// const handleKeyDown = this.handleKeyDown.bind(this); -// const handleKeyUp = this.handleKeyUp.bind(this); -// document.addEventListener('pointerup', handlePointerUp); -// document.addEventListener('keydown', handleKeyDown); -// document.addEventListener('keyup', handleKeyUp); -// -// const url = new URL(DEFAULT_ZARR_URL); -// const pathParts = url.pathname.split('/'); -// this.path = pathParts.pop() || ""; -// this.store = url.origin + pathParts.join('/'); -// } -// -// handlePointerUp() { -// if (this.selectionHelper.enabled) { -// // Mouse to normalized render/canvas coords from: -// // https://codepen.io/boytchev/pen/NWOMrxW?editors=0011 -// const canvas = this.renderer.domElement.getBoundingClientRect(); -// -// const topLeft = this.selectionHelper.pointTopLeft; -// const left = (topLeft.x - canvas.left) / canvas.width * 2 - 1; -// const top = - (topLeft.y - canvas.top) / canvas.height * 2 + 1; -// -// const bottomRight = this.selectionHelper.pointBottomRight; -// const right = (bottomRight.x - canvas.left) / canvas.width * 2 - 1; -// const bottom = - (bottomRight.y - canvas.top) / canvas.height * 2 + 1; -// console.debug( -// 'selectionHelper, top = %f, left = %f, bottom = %f, right = %f', -// top, left, bottom, right, -// ); -// -// // TODO: check the z-value of these points -// this.selectionBox.startPoint.set(left, top, 0.5); -// this.selectionBox.endPoint.set(right, bottom, 0.5); -// -// // TODO: consider restricting selection to a specific object -// const selection = this.selectionBox.select(); -// console.debug("selected points:", selection); -// -// if (this.points.id in selection) { -// const geometry = this.points.geometry as THREE.BufferGeometry; -// const colors = geometry.getAttribute('color') as THREE.BufferAttribute; -// const color = new THREE.Color(0xffffff); -// for (const i of selection[this.points.id]) { -// colors.setXYZ(i, color.r, color.g, color.b); -// } -// colors.needsUpdate = true; -// this.rerender(); -// } -// } -// } -// -// handleKeyUp(event: KeyboardEvent) { -// console.debug('handleKeyUp: %s', event.key); -// if (event.key === "Shift") { -// this.setControlCamera(true); -// } -// } -// -// handleKeyDown(event: KeyboardEvent) { -// console.debug('handleKeyDown: %s', event.key); -// if (event.key === "Shift") { -// this.setControlCamera(false); -// } -// } -// -// handleTimeChange(event: ChangeEvent) { -// console.log('handleTimeChange: %s', event); -// const slider = event.target as HTMLInputElement; -// const timeIndex = Math.floor(Number(slider.value)); -// this.fetchPointsAtTime(timeIndex); -// } -// -// handleURLChange(event: ChangeEvent) { -// console.log('handleURLChange: %s', event); -// const input = event.target as HTMLInputElement; -// const url = input.value; -// this.setStoreAndPath(new URL(url)); -// const timeSlider = document.getElementById("timeSlider") as HTMLInputElement; -// const t = Math.floor(Number(timeSlider.value)); -// this.fetchPointsAtTime(t); -// } -// -// nearToFar(near: THREE.Vector3, cameraPos: THREE.Vector3) { -// const far = new THREE.Vector3(); -// far.copy(near); -// far.sub(cameraPos); -// far.normalize(); -// far.multiplyScalar(Number.MAX_VALUE) -// far.add(cameraPos); -// return far; -// } -// -// handleControlClick() { -// console.log('handleControlClick'); -// this.setControlCamera(!this.controls.enabled) -// } -// -// handlePlayClick() { -// console.log('handlePlayClick'); -// this.setAutoRotate(!this.state.autoRotate); -// this.animate(); -// } -// -// setControlCamera(value: boolean) { -// this.controls.enabled = value; -// this.selectionHelper.enabled = !value; -// this.setState({ controlCamera: value }); -// } -// -// setAutoRotate(value: boolean) { -// this.controls.autoRotate = value; -// this.setState({ autoRotate: value }); -// } -// -// setStoreAndPath(url: URL) { -// const pathParts = url.pathname.split('/'); -// const newPath = pathParts.pop() || ""; -// const newStore = url.origin + pathParts.join('/'); -// if (newStore !== this.store || newPath !== this.path) { -// this.store = newStore; -// this.path = newPath; -// this.array = undefined; -// } -// } -// -// render() { -// console.debug("Scene.render", this.props); -// if (this.props.renderWidth && this.props.renderHeight) { -// this.renderer.setSize(this.props.renderWidth, this.props.renderHeight); -// this.composer.setSize(this.props.renderWidth, this.props.renderHeight); -// this.rerender(); -// } -// let handleTimeChange = this.handleTimeChange.bind(this); -// let handleURLChange = this.handleURLChange.bind(this); -// let handlePlayClick = this.handlePlayClick.bind(this); -// let handleControlClick = this.handleControlClick.bind(this); -// let url = this.store + '/' + this.path; -// const playLabel = this.state.autoRotate ? "Stop" : "Spin"; -// const controlLabel = this.state.controlCamera ? "Camera" : "Select"; -// return ( //
this.node = node}> //
// {this.state.curTime} / {this.state.numTimes} //
//
-// ); -// } -// -// rerender() { -// this.composer.render(); -// } -// -// animate() { -// if (this.controls.autoRotate) { -// const animate = this.animate.bind(this); -// requestAnimationFrame(animate); -// this.controls.update(); -// this.rerender(); -// } -// } -// -// componentDidMount() { -// this.scene.add(this.points); -// -// this.rerender(); -// -// this.node?.appendChild(this.renderer.domElement); -// // setTimeout(() => { -// // this.base?.appendChild(this.renderer.domElement); -// // }, 1); -// -// this.fetchPointsAtTime(0); -// -// this.setControlCamera(true); -// } -// async function loadArray(store: string, path: string) { From 4462bb1e22ad6a4ea9026a7dd189aa24df43f90a Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Wed, 17 Jan 2024 12:08:00 -0500 Subject: [PATCH 08/15] Add SDS + some controls. --- index.html | 5 + package-lock.json | 678 ++++++++++++++++++++++++++++++++++++++++++---- package.json | 9 + src/index.css | 50 +--- src/main.tsx | 19 +- src/scene.tsx | 166 ++++++++---- 6 files changed, 775 insertions(+), 152 deletions(-) diff --git a/index.html b/index.html index 990e82da..4ad1c503 100644 --- a/index.html +++ b/index.html @@ -4,6 +4,11 @@ + + Vite + React + TS diff --git a/package-lock.json b/package-lock.json index 362cf4b6..b763aeb5 100644 --- a/package-lock.json +++ b/package-lock.json @@ -8,6 +8,15 @@ "name": "three-experiments", "version": "0.0.0", "dependencies": { + "@czi-sds/components": "^19.2.0", + "@emotion/css": "^11.11.2", + "@emotion/react": "^11.11.3", + "@emotion/styled": "^11.11.0", + "@mui/base": "^5.0.0-beta.31", + "@mui/icons-material": "^5.15.4", + "@mui/lab": "^5.0.0-alpha.160", + "@mui/material": "^5.15.4", + "czifui": "^14.5.0", "react": "^18.2.0", "react-dom": "^18.2.0", "three": "^0.159.0", @@ -50,7 +59,6 @@ "version": "7.23.5", "resolved": "https://registry.npmjs.org/@babel/code-frame/-/code-frame-7.23.5.tgz", "integrity": 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"https://registry.npmjs.org/source-map-js/-/source-map-js-1.0.2.tgz", @@ -6600,11 +7169,15 @@ "url": "https://github.com/sponsors/sindresorhus" } }, + "node_modules/stylis": { + "version": "4.2.0", + "resolved": "https://registry.npmjs.org/stylis/-/stylis-4.2.0.tgz", + "integrity": "sha512-Orov6g6BB1sDfYgzWfTHDOxamtX1bE/zo104Dh9e6fqJ3PooipYyfJ0pUmrZO2wAvO8YbEyeFrkV91XTsGMSrw==" + }, "node_modules/supports-color": { "version": "5.5.0", "resolved": "https://registry.npmjs.org/supports-color/-/supports-color-5.5.0.tgz", "integrity": "sha512-QjVjwdXIt408MIiAqCX4oUKsgU2EqAGzs2Ppkm4aQYbjm+ZEWEcW4SfFNTr4uMNZma0ey4f5lgLrkB0aX0QMow==", - "dev": true, "dependencies": { "has-flag": "^3.0.0" }, @@ -6616,7 +7189,6 @@ "version": "1.0.0", "resolved": "https://registry.npmjs.org/supports-preserve-symlinks-flag/-/supports-preserve-symlinks-flag-1.0.0.tgz", "integrity": "sha512-ot0WnXS9fgdkgIcePe6RHNk1WA8+muPa6cSjeR3V8K27q9BB1rTE3R1p7Hv0z1ZyAc8s6Vvv8DIyWf681MAt0w==", - "dev": true, "engines": { "node": ">= 0.4" }, @@ -6639,7 +7211,6 @@ "version": "2.0.0", "resolved": "https://registry.npmjs.org/to-fast-properties/-/to-fast-properties-2.0.0.tgz", "integrity": "sha512-/OaKK0xYrs3DmxRYqL/yDc+FxFUVYhDlXMhRmv3z915w2HF1tnN1omB354j8VUGO/hbRzyD6Y3sA7v7GS/ceog==", - "dev": true, "engines": { "node": ">=4" } @@ -7059,7 +7630,6 @@ "version": "1.10.2", "resolved": "https://registry.npmjs.org/yaml/-/yaml-1.10.2.tgz", "integrity": "sha512-r3vXyErRCYJ7wg28yvBY5VSoAF8ZvlcW9/BwUzEtUsjvX/DKs24dIkuwjtuprwJJHsbyUbLApepYTR1BN4uHrg==", - "dev": true, "engines": { "node": ">= 6" } diff --git a/package.json b/package.json index 2d8cde52..b92913d7 100644 --- a/package.json +++ b/package.json @@ -9,6 +9,15 @@ "preview": "vite preview" }, "dependencies": { + "@czi-sds/components": "^19.2.0", + "@emotion/css": "^11.11.2", + "@emotion/react": "^11.11.3", + "@emotion/styled": "^11.11.0", + "@mui/base": "^5.0.0-beta.31", + "@mui/icons-material": "^5.15.4", + "@mui/lab": "^5.0.0-alpha.160", + "@mui/material": "^5.15.4", + "czifui": "^14.5.0", "react": "^18.2.0", "react-dom": "^18.2.0", "three": "^0.159.0", diff --git a/src/index.css b/src/index.css index ef9ebd6c..fdd6fe73 100644 --- a/src/index.css +++ b/src/index.css @@ -13,62 +13,16 @@ -moz-osx-font-smoothing: grayscale; } -a { - font-weight: 500; - color: #646cff; - text-decoration: inherit; -} -a:hover { - color: #535bf2; -} - -body { - margin: 0; - display: flex; - place-items: center; - min-width: 320px; - min-height: 100vh; -} - -h1 { - font-size: 3.2em; - line-height: 1.1; -} - -button { - border-radius: 8px; - border: 1px solid transparent; - padding: 0.6em 1.2em; - font-size: 1em; - font-weight: 500; - font-family: inherit; - background-color: #1a1a1a; - cursor: pointer; - transition: border-color 0.25s; -} -button:hover { - border-color: #646cff; -} -button:focus, -button:focus-visible { - outline: 4px auto -webkit-focus-ring-color; -} - @media (prefers-color-scheme: light) { :root { color: #213547; background-color: #ffffff; } - a:hover { - color: #747bff; - } - button { - background-color: #f9f9f9; - } } .inputcontainer { width: 100%; /* Width of the outside container */ + padding: 0.5em 0.5em 0.5em 0.5em; /* Add some padding */ } .textinput { @@ -86,4 +40,4 @@ button:focus-visible { border: 1px solid #ffffff; background-color: #ffffff55; position: fixed; -} \ No newline at end of file +} diff --git a/src/main.tsx b/src/main.tsx index 7a85169e..1d5abba2 100644 --- a/src/main.tsx +++ b/src/main.tsx @@ -1,7 +1,22 @@ -import { createRoot } from 'react-dom/client' +import React from "react"; +import { createRoot } from "react-dom/client"; +import { ThemeProvider as EmotionThemeProvider } from "@emotion/react"; +import { StyledEngineProvider, ThemeProvider } from "@mui/material/styles"; +import { defaultTheme } from "@czi-sds/components"; + import App from './app.tsx' import './index.css' const domNode = document.getElementById('app')! const root = createRoot(domNode); -root.render(); +root.render( + + + + + + + + + +); diff --git a/src/scene.tsx b/src/scene.tsx index 38ec1320..450c3894 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -1,4 +1,5 @@ import { useEffect, useRef, useState } from 'react'; +import { InputSlider, InputText, InputToggle } from "@czi-sds/components"; import * as THREE from 'three'; import { OrbitControls } from 'three/addons/controls/OrbitControls.js'; // import { EffectComposer } from 'three/addons/postprocessing/EffectComposer.js'; @@ -15,25 +16,25 @@ import { ZarrArray, slice, openArray } from "zarr"; const DEFAULT_ZARR_URL = new URL("https://public.czbiohub.org/royerlab/zebrahub/imaging/single-objective/tracks_benchmark/ZSNS001_nodes.zarr"); interface SceneProps { - renderWidth?: number; + renderWidth: number; renderHeight?: number; } export default function Scene(props: SceneProps) { - // TODO: make this a state variable? + const renderWidth = props.renderWidth || 800; + const renderHeight = props.renderHeight || 600; + const [array, setArray] = useState(); const [dataUrl, setDataUrl] = useState(DEFAULT_ZARR_URL); const [numTimes, setNumTimes] = useState(0); const [curTime, setCurTime] = useState(0); - // const [autoRotate, setAutoRotate] = useState(false); - - const renderWidth = props.renderWidth || 800; - const renderHeight = props.renderHeight || 600; + const [autoRotate, setAutoRotate] = useState(false); + const [playing, setPlaying] = useState(false); // Use references here for two things: - // * to manage objects that should never change, even when the component re-renders - // * to avoid triggering re-renders when these change + // * manage objects that should never change, even when the component re-renders + // * avoid triggering re-renders when these *do* change const divRef: React.RefObject = useRef(null); const renderer = useRef(); const scene = useRef(); @@ -45,9 +46,13 @@ export default function Scene(props: SceneProps) { // this useEffect is intended to make this part run only on mount // this requires keeping the dependency array empty useEffect(() => { + const divCurrent = divRef.current; // Initialize renderer - renderer.current = new THREE.WebGLRenderer(); - divRef.current?.appendChild(renderer.current.domElement); + const rendererCurrent = new THREE.WebGLRenderer(); + renderer.current = rendererCurrent; + // append renderer canvas + divCurrent?.appendChild(rendererCurrent.domElement); + scene.current = new THREE.Scene(); camera.current = new THREE.PerspectiveCamera( 35, // FOV @@ -71,9 +76,9 @@ export default function Scene(props: SceneProps) { // TODO: add clean-up by returning another closure // Set up controls - controls.current = new OrbitControls(camera.current, renderer.current.domElement); + controls.current = new OrbitControls(camera.current, rendererCurrent.domElement); controls.current.target.set(target.x, target.y, target.z); - controls.current.autoRotateSpeed = 4; + controls.current.autoRotateSpeed = 1; // Animation function const animate = () => { @@ -81,14 +86,17 @@ export default function Scene(props: SceneProps) { // Render the scene if (scene.current && camera.current) { - renderer.current?.render(scene.current, camera.current); + rendererCurrent?.render(scene.current, camera.current); } controls.current?.update(); }; // start animating - this keeps the scene rendering when controls change, etc. animate() - // TODO: add clean-up by returning another closure + return () => { + divCurrent?.removeChild(rendererCurrent?.domElement); + rendererCurrent?.dispose(); + } }, []); // dependency array must be empty to run only on mount! // update the array when the dataUrl changes @@ -106,48 +114,94 @@ export default function Scene(props: SceneProps) { }); }, [dataUrl]); + // set the controls to auto-rotate + useEffect(() => { + controls.current && (controls.current.autoRotate = autoRotate); + }, [autoRotate]); + + // playback time points + // TODO: this is basic and may drop frames + useEffect(() => { + if (playing) { + const frameDelay = 1000 / 8; // 1000 / fps + const interval = setInterval(() => { + setCurTime((curTime + 1) % numTimes); + }, frameDelay); + return () => { + clearInterval(interval) + }; + } + }, [numTimes, curTime, playing]); + // update the points when the array or timepoint changes useEffect(() => { - if (array) { + let ignore = false; + // TODO: this is a very basic attempt to prevent stale data, and I don't + // know it actually works given how the fetching and rendering are done + // together in `fetchPointsAtTime` + // instead, perhaps debounce the input and verify the data is current + // before rendering it + if (array && !ignore) { + console.log('fetch points at time %d', curTime); fetchPointsAtTime(array, curTime, points.current!); + } else { + console.log('IGNORE fetch points at time %d', curTime); } - // TODO: add clean-up by returning another closure - }, [array, numTimes, curTime]); + return () => { + ignore = true; + } + }, [array, curTime]); renderer.current?.setSize(renderWidth, renderHeight); + // set up marks for the time slider + const spacing = 100; + const marks = [...Array(Math.round(numTimes / spacing)).keys()].map((i) => ({ value: i * spacing, label: i * spacing })); + marks.push({ value: numTimes - 1, label: numTimes - 1 }); + return (
- setDataUrl(() => new URL(event.target.value))} - style={{ color: array ? "black" : "red" }} + onChange={e => setDataUrl(new URL(e.target.value))} + fullWidth={true} + intent={array ? "default" : "error"} + /> + setCurTime(value as number)} + marks={marks} + value={curTime} + /> + { + setAutoRotate((e.target as HTMLInputElement).checked) + }} + /> + { + setPlaying((e.target as HTMLInputElement).checked) + }} />
); } -//
this.node = node}> -//
-// -// -// -// -// -//
-//
async function loadArray(store: string, path: string) { @@ -168,6 +222,7 @@ async function loadArray(store: string, path: string) { async function fetchPointsAtTime(array: ZarrArray, timeIndex: number, points: THREE.Points) { + // TODO: split this function - it fetches points *and* renders them console.log('fetchPointsAtTime: %d', timeIndex); const maxPoints = array.shape[1] / 3; // TODO: somewhat arbitrary right. Should calculate some number that would @@ -176,11 +231,21 @@ async function fetchPointsAtTime(array: ZarrArray, timeIndex: number, points: TH // Initialize the geometry attributes. const geometry = points.geometry; - const positions = new Float32Array(3 * maxPoints); - const colors = new Float32Array(3 * maxPoints); - geometry.setAttribute('position', new THREE.Float32BufferAttribute(positions, 3)); - geometry.setAttribute('color', new THREE.Float32BufferAttribute(colors, 3)); - geometry.setDrawRange(0, 0) + if (!geometry.getAttribute('position')) { + geometry.setAttribute( + 'position', + new THREE.Float32BufferAttribute(new Float32Array(3 * maxPoints), 3), + ); + // prevent drawing uninitialized points at the origin + geometry.setDrawRange(0, 0) + } + if (!geometry.getAttribute('color')) { + geometry.setAttribute( + 'color', + new THREE.Float32BufferAttribute(new Float32Array(3 * maxPoints), 3), + ); + } + // don't reset draw range here, it causes flickering // Initialize all the colors immediately. const color = new THREE.Color(); @@ -199,6 +264,7 @@ async function fetchPointsAtTime(array: ZarrArray, timeIndex: number, points: TH for (let i = 0, pointIndex = 0; i < maxPoints; i += trackChunkSize) { const start = 3 * i; const end = Math.min(array.shape[1], 3 * (i + trackChunkSize)); + // TODO: try/catch here as some requests will fail const points = await array.get([timeIndex, slice(start, end)]); const coords = points.data; @@ -209,11 +275,15 @@ async function fetchPointsAtTime(array: ZarrArray, timeIndex: number, points: TH pointIndex++; } } - positionAttribute.needsUpdate = true; - geometry.setDrawRange(0, pointIndex) + positionAttribute.needsUpdate = true; geometry.computeBoundingSphere(); - console.log("added points up to %d as %d", i + trackChunkSize, pointIndex); + console.log( + "added points for timepoint %d, up to %d as %d", + timeIndex, + i + trackChunkSize, + pointIndex + ); } } From a4060d910c9601f18f307d38fb9b6766fb6ac4b5 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Thu, 18 Jan 2024 14:38:30 -0500 Subject: [PATCH 09/15] Add SelectionHelper --- src/scene.tsx | 33 +++++++++++++++++++++++++++++++-- 1 file changed, 31 insertions(+), 2 deletions(-) diff --git a/src/scene.tsx b/src/scene.tsx index 450c3894..59f33452 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -6,7 +6,7 @@ import { OrbitControls } from 'three/addons/controls/OrbitControls.js'; // import { RenderPass } from 'three/addons/postprocessing/RenderPass.js'; // import { OutputPass } from 'three/addons/postprocessing/OutputPass.js'; // import { UnrealBloomPass } from 'three/addons/postprocessing/UnrealBloomPass.js'; -// import { SelectionHelper } from 'three/addons/interactive/SelectionHelper.js'; +import { SelectionHelper } from 'three/addons/interactive/SelectionHelper.js'; // import { PointSelectionBox } from './PointSelectionBox'; // @ts-expect-error @@ -31,6 +31,7 @@ export default function Scene(props: SceneProps) { const [curTime, setCurTime] = useState(0); const [autoRotate, setAutoRotate] = useState(false); const [playing, setPlaying] = useState(false); + const [selecting, setSelecting] = useState(false); // Use references here for two things: // * manage objects that should never change, even when the component re-renders @@ -41,16 +42,18 @@ export default function Scene(props: SceneProps) { const points = useRef(); const camera = useRef(); const controls = useRef(); + const selectionHelper = useRef(); const aspect = useRef(renderWidth / renderHeight); // this useEffect is intended to make this part run only on mount // this requires keeping the dependency array empty useEffect(() => { - const divCurrent = divRef.current; // Initialize renderer const rendererCurrent = new THREE.WebGLRenderer(); renderer.current = rendererCurrent; + // append renderer canvas + const divCurrent = divRef.current; divCurrent?.appendChild(rendererCurrent.domElement); scene.current = new THREE.Scene(); @@ -61,6 +64,22 @@ export default function Scene(props: SceneProps) { 10000 // Far ); + selectionHelper.current = new SelectionHelper(rendererCurrent, 'selectBox'); + selectionHelper.current.enabled = false; + const keydown = (event) => { + if (event.repeat) { return; } // ignore repeats (key held down) + if (event.key === 's') { + setSelecting(true); + } + }; + const keyup = (event) => { + if (event.key === 's') { + setSelecting(false); + } + }; + document.addEventListener('keydown', keydown); + document.addEventListener('keyup', keyup); + const geometry = new THREE.BufferGeometry(); const material = new THREE.PointsMaterial({ size: 5.0, vertexColors: true }); points.current = new THREE.Points(geometry, material); @@ -96,9 +115,19 @@ export default function Scene(props: SceneProps) { return () => { divCurrent?.removeChild(rendererCurrent?.domElement); rendererCurrent?.dispose(); + points.current?.geometry.dispose(); + points.current?.material.dispose(); + selectionHelper.current?.dispose(); + document.removeEventListener('keydown', keydown); + document.removeEventListener('keyup', keyup); } }, []); // dependency array must be empty to run only on mount! + if (selectionHelper.current && controls.current) { + selectionHelper.current.enabled = selecting; + controls.current.enabled = !selecting; + } + // update the array when the dataUrl changes useEffect(() => { console.log('load data from %s', dataUrl); From e1d649a27195fbda188fc0da88358fda983788d4 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Fri, 19 Jan 2024 16:32:32 -0500 Subject: [PATCH 10/15] Add point selection --- src/scene.tsx | 98 +++++++++++++++++++++++++++++++++++++++------------ 1 file changed, 76 insertions(+), 22 deletions(-) diff --git a/src/scene.tsx b/src/scene.tsx index 59f33452..b1e1f602 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -7,7 +7,7 @@ import { OrbitControls } from 'three/addons/controls/OrbitControls.js'; // import { OutputPass } from 'three/addons/postprocessing/OutputPass.js'; // import { UnrealBloomPass } from 'three/addons/postprocessing/UnrealBloomPass.js'; import { SelectionHelper } from 'three/addons/interactive/SelectionHelper.js'; -// import { PointSelectionBox } from './PointSelectionBox'; +import { PointSelectionBox } from './PointSelectionBox'; // @ts-expect-error import { ZarrArray, slice, openArray } from "zarr"; @@ -43,6 +43,7 @@ export default function Scene(props: SceneProps) { const camera = useRef(); const controls = useRef(); const selectionHelper = useRef(); + const selectionBox = useRef(); const aspect = useRef(renderWidth / renderHeight); // this useEffect is intended to make this part run only on mount @@ -64,22 +65,6 @@ export default function Scene(props: SceneProps) { 10000 // Far ); - selectionHelper.current = new SelectionHelper(rendererCurrent, 'selectBox'); - selectionHelper.current.enabled = false; - const keydown = (event) => { - if (event.repeat) { return; } // ignore repeats (key held down) - if (event.key === 's') { - setSelecting(true); - } - }; - const keyup = (event) => { - if (event.key === 's') { - setSelecting(false); - } - }; - document.addEventListener('keydown', keydown); - document.addEventListener('keyup', keyup); - const geometry = new THREE.BufferGeometry(); const material = new THREE.PointsMaterial({ size: 5.0, vertexColors: true }); points.current = new THREE.Points(geometry, material); @@ -93,6 +78,68 @@ export default function Scene(props: SceneProps) { camera.current.position.set(target.x, target.y, target.z - 1500); camera.current.lookAt(target.x, target.y, target.z); + selectionHelper.current = new SelectionHelper(rendererCurrent, 'selectBox'); + selectionHelper.current.enabled = false; + const keyDown = (event: KeyboardEvent) => { + if (event.repeat) { return; } // ignore repeats (key held down) + if (event.key === 'Shift') { + setSelecting(true); + } + }; + const keyUp = (event: KeyboardEvent) => { + if (event.key === 'Shift') { + setSelecting(false); + } + }; + // key listeners are added to the document because we don't want the + // canvase to have to be selected prior to listening for them + document.addEventListener('keydown', keyDown); + document.addEventListener('keyup', keyUp); + selectionBox.current = new PointSelectionBox(camera.current, scene.current); + + const pointerUp = () => { + if ( + selectionBox.current + && selectionHelper.current + && selectionHelper.current.enabled + ) { + // Mouse to normalized render/canvas coords from: + // https://codepen.io/boytchev/pen/NWOMrxW?editors=0011 + const canvas = rendererCurrent.domElement.getBoundingClientRect(); + + const topLeft = selectionHelper.current.pointTopLeft; + const left = (topLeft.x - canvas.left) / canvas.width * 2 - 1; + const top = - (topLeft.y - canvas.top) / canvas.height * 2 + 1; + + const bottomRight = selectionHelper.current.pointBottomRight; + const right = (bottomRight.x - canvas.left) / canvas.width * 2 - 1; + const bottom = - (bottomRight.y - canvas.top) / canvas.height * 2 + 1; + console.debug( + 'selectionHelper, top = %f, left = %f, bottom = %f, right = %f', + top, left, bottom, right, + ); + + // TODO: check the z-value of these points + selectionBox.current.startPoint.set(left, top, 0.5); + selectionBox.current.endPoint.set(right, bottom, 0.5); + + // TODO: consider restricting selection to a specific object + const selection = selectionBox.current.select(); + console.debug("selected points:", selection); + + if (points.current && points.current.id in selection) { + const geometry = points.current.geometry as THREE.BufferGeometry; + const colors = geometry.getAttribute('color') as THREE.BufferAttribute; + const color = new THREE.Color(0xffffff); + for (const i of selection[points.current.id]) { + colors.setXYZ(i, color.r, color.g, color.b); + } + colors.needsUpdate = true; + } + } + } + rendererCurrent.domElement.addEventListener('pointerup', pointerUp); + // TODO: add clean-up by returning another closure // Set up controls controls.current = new OrbitControls(camera.current, rendererCurrent.domElement); @@ -113,13 +160,20 @@ export default function Scene(props: SceneProps) { animate() return () => { - divCurrent?.removeChild(rendererCurrent?.domElement); - rendererCurrent?.dispose(); + rendererCurrent.domElement.removeEventListener('pointerup', pointerUp); + rendererCurrent.domElement.remove(); + rendererCurrent.dispose(); points.current?.geometry.dispose(); - points.current?.material.dispose(); + if (Array.isArray(points.current?.material)) { + for (const material of points.current?.material) { + material.dispose(); + } + } else { + points.current?.material.dispose(); + } selectionHelper.current?.dispose(); - document.removeEventListener('keydown', keydown); - document.removeEventListener('keyup', keyup); + document.removeEventListener('keydown', keyDown); + document.removeEventListener('keyup', keyUp); } }, []); // dependency array must be empty to run only on mount! From db03bf4735e58e56e9f9930c30f9586d5ae8fccb Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Fri, 19 Jan 2024 16:33:20 -0500 Subject: [PATCH 11/15] Layout tweaks --- src/app.css | 5 ++++- src/index.css | 20 +++++++++++--------- src/scene.tsx | 36 +++++++++++++++++++----------------- 3 files changed, 34 insertions(+), 27 deletions(-) diff --git a/src/app.css b/src/app.css index f0346e70..02744844 100644 --- a/src/app.css +++ b/src/app.css @@ -6,5 +6,8 @@ max-width: 1280px; margin: 0 auto; padding: var(--app-padding); - text-align: center; + display: flex; + flex-direction: column; + justify-content: center; + align-items: center; } diff --git a/src/index.css b/src/index.css index fdd6fe73..d68fabc0 100644 --- a/src/index.css +++ b/src/index.css @@ -21,18 +21,20 @@ } .inputcontainer { - width: 100%; /* Width of the outside container */ - padding: 0.5em 0.5em 0.5em 0.5em; /* Add some padding */ -} - -.textinput { - font-size: 12pt; width: 100%; /* Full-width */ + margin: 1em 0; + display: flex; + gap: 1em; + flex-direction: column; } -.slider { - width: 80%; - vertical-align: middle; +.buttoncontainer { + width: 100%; /* Full-width */ + margin: 1em 0; + display: flex; + flex-direction: row; + gap: 1em; + justify-content: flex-start; } /* From https://github.com/mrdoob/three.js/blob/master/examples/misc_boxselection.html */ diff --git a/src/scene.tsx b/src/scene.tsx index b1e1f602..010b9119 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -73,7 +73,7 @@ export default function Scene(props: SceneProps) { scene.current.add(points.current); // Default position from interacting with ZSNS001 - // TODO: this should be reset when the data changes + // TODO: this should be set/reset when the data changes const target = new THREE.Vector3(500, 500, 250); camera.current.position.set(target.x, target.y, target.z - 1500); camera.current.lookAt(target.x, target.y, target.z); @@ -265,22 +265,24 @@ export default function Scene(props: SceneProps) { marks={marks} value={curTime} /> - { - setAutoRotate((e.target as HTMLInputElement).checked) - }} - /> - { - setPlaying((e.target as HTMLInputElement).checked) - }} - /> +
+ { + setAutoRotate((e.target as HTMLInputElement).checked) + }} + /> + { + setPlaying((e.target as HTMLInputElement).checked) + }} + /> +
); From b3e84b7fa33535d24581351e9198ed8ef9997cae Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Tue, 23 Jan 2024 14:29:39 -0500 Subject: [PATCH 12/15] Re-init in case of a new-size array --- src/scene.tsx | 10 ++++++++-- 1 file changed, 8 insertions(+), 2 deletions(-) diff --git a/src/scene.tsx b/src/scene.tsx index 010b9119..fe7243c5 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -316,7 +316,10 @@ async function fetchPointsAtTime(array: ZarrArray, timeIndex: number, points: TH // Initialize the geometry attributes. const geometry = points.geometry; - if (!geometry.getAttribute('position')) { + if ( + !geometry.getAttribute('position') + || geometry.getAttribute('position').count !== maxPoints + ) { geometry.setAttribute( 'position', new THREE.Float32BufferAttribute(new Float32Array(3 * maxPoints), 3), @@ -324,7 +327,10 @@ async function fetchPointsAtTime(array: ZarrArray, timeIndex: number, points: TH // prevent drawing uninitialized points at the origin geometry.setDrawRange(0, 0) } - if (!geometry.getAttribute('color')) { + if ( + !geometry.getAttribute('color') + || geometry.getAttribute('color').count !== maxPoints + ) { geometry.setAttribute( 'color', new THREE.Float32BufferAttribute(new Float32Array(3 * maxPoints), 3), From 10a7ac5b2e8a623daa9e9291dd9c9175f0cc8015 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Tue, 23 Jan 2024 21:22:31 -0500 Subject: [PATCH 13/15] Add a TODO on bad selection behavior --- src/scene.tsx | 3 +++ 1 file changed, 3 insertions(+) diff --git a/src/scene.tsx b/src/scene.tsx index fe7243c5..2913b967 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -97,6 +97,9 @@ export default function Scene(props: SceneProps) { document.addEventListener('keyup', keyUp); selectionBox.current = new PointSelectionBox(camera.current, scene.current); + // TODO: move this out of the component and improve the behavior when + // pressing/releasing the mouse and shift key in different orders + // note: this is a problem in the production version as well const pointerUp = () => { if ( selectionBox.current From df0f6c87bb7088989c80ab394357145f50c2a272 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Tue, 23 Jan 2024 21:38:32 -0500 Subject: [PATCH 14/15] Add effect composer + bloom effect --- src/scene.tsx | 33 +++++++++++++++++++++++++-------- 1 file changed, 25 insertions(+), 8 deletions(-) diff --git a/src/scene.tsx b/src/scene.tsx index 2913b967..6d72190d 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -2,10 +2,10 @@ import { useEffect, useRef, useState } from 'react'; import { InputSlider, InputText, InputToggle } from "@czi-sds/components"; import * as THREE from 'three'; import { OrbitControls } from 'three/addons/controls/OrbitControls.js'; -// import { EffectComposer } from 'three/addons/postprocessing/EffectComposer.js'; -// import { RenderPass } from 'three/addons/postprocessing/RenderPass.js'; -// import { OutputPass } from 'three/addons/postprocessing/OutputPass.js'; -// import { UnrealBloomPass } from 'three/addons/postprocessing/UnrealBloomPass.js'; +import { EffectComposer } from 'three/addons/postprocessing/EffectComposer.js'; +import { RenderPass } from 'three/addons/postprocessing/RenderPass.js'; +import { OutputPass } from 'three/addons/postprocessing/OutputPass.js'; +import { UnrealBloomPass } from 'three/addons/postprocessing/UnrealBloomPass.js'; import { SelectionHelper } from 'three/addons/interactive/SelectionHelper.js'; import { PointSelectionBox } from './PointSelectionBox'; @@ -38,9 +38,11 @@ export default function Scene(props: SceneProps) { // * avoid triggering re-renders when these *do* change const divRef: React.RefObject = useRef(null); const renderer = useRef(); + const composer = useRef(); + const bloomPass = useRef(); const scene = useRef(); - const points = useRef(); const camera = useRef(); + const points = useRef(); const controls = useRef(); const selectionHelper = useRef(); const selectionBox = useRef(); @@ -78,6 +80,19 @@ export default function Scene(props: SceneProps) { camera.current.position.set(target.x, target.y, target.z - 1500); camera.current.lookAt(target.x, target.y, target.z); + const renderModel = new RenderPass(scene.current, camera.current); + bloomPass.current = new UnrealBloomPass( + new THREE.Vector2(renderWidth, renderHeight), // resolution + 0.5, // strength + 0, // radius + 0 // threshold + ); + const outputPass = new OutputPass(); + composer.current = new EffectComposer(rendererCurrent); + composer.current.addPass(renderModel); + composer.current.addPass(bloomPass.current); + composer.current.addPass(outputPass); + selectionHelper.current = new SelectionHelper(rendererCurrent, 'selectBox'); selectionHelper.current.enabled = false; const keyDown = (event: KeyboardEvent) => { @@ -154,9 +169,7 @@ export default function Scene(props: SceneProps) { requestAnimationFrame(animate); // Render the scene - if (scene.current && camera.current) { - rendererCurrent?.render(scene.current, camera.current); - } + composer.current?.render(); controls.current?.update(); }; // start animating - this keeps the scene rendering when controls change, etc. @@ -238,7 +251,11 @@ export default function Scene(props: SceneProps) { } }, [array, curTime]); + // update the renderer and composer when the render size changes + // TODO: check performance and avoid if unchanged + bloomPass.current?.resolution.set(renderWidth, renderHeight); renderer.current?.setSize(renderWidth, renderHeight); + composer.current?.setSize(renderWidth, renderHeight); // set up marks for the time slider const spacing = 100; From 43ae860673eddb968daeb0b243e6c6e34a6c48b3 Mon Sep 17 00:00:00 2001 From: Ashley Anderson Date: Thu, 25 Jan 2024 16:40:39 -0500 Subject: [PATCH 15/15] Apply suggestions from code review Co-authored-by: Andy Sweet --- src/scene.tsx | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/src/scene.tsx b/src/scene.tsx index 6d72190d..959113c1 100644 --- a/src/scene.tsx +++ b/src/scene.tsx @@ -107,7 +107,7 @@ export default function Scene(props: SceneProps) { } }; // key listeners are added to the document because we don't want the - // canvase to have to be selected prior to listening for them + // canvas to have to be selected prior to listening for them document.addEventListener('keydown', keyDown); document.addEventListener('keyup', keyUp); selectionBox.current = new PointSelectionBox(camera.current, scene.current); @@ -173,7 +173,7 @@ export default function Scene(props: SceneProps) { controls.current?.update(); }; // start animating - this keeps the scene rendering when controls change, etc. - animate() + animate(); return () => { rendererCurrent.domElement.removeEventListener('pointerup', pointerUp);