diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md
new file mode 100644
index 000000000..fd8952e44
--- /dev/null
+++ b/CONTRIBUTING.md
@@ -0,0 +1,32 @@
+# Contributing
+
+This is living document describing how to contribute to SeqViz.
+
+## Development
+
+The sections below describe setting up the development environment and opening a PR against the `develop` branch.
+
+### Setup
+
+Before making or PR'ing changes, please set up and experiment with the demo application. Steps for doing that are described below.
+
+Install `seqviz` packages in the repository and repository's demo directories:
+
+```bash
+# seqviz
+npm i
+cd ./demo
+npm i
+```
+
+Start the demo application:
+
+```bash
+npm run start
+```
+
+Visit the demo application at [http://localhost:3010](http://localhost:3010) and experiment with sequence selection, clicking annotations, rotating the circular viewer, etc. As much as possible, try to validate that your change does not break existing functionality. The testing of `seqviz` is sparse; we rely on the demo application to catch regressions.
+
+### PR
+
+After making a change, open a PR against the `develop` branch and get it approved and merged by someone who works at Lattice Automation or [@jjti](https://github.com/jjti). They will merge it and cut a release.
diff --git a/README.md b/README.md
index 7377fc72a..cec262ac8 100644
--- a/README.md
+++ b/README.md
@@ -18,6 +18,8 @@
+
+ 
## Table of Contents
diff --git a/demo/lib/App.tsx b/demo/lib/App.tsx
index c787f118b..6d041eccc 100644
--- a/demo/lib/App.tsx
+++ b/demo/lib/App.tsx
@@ -87,14 +87,6 @@ export default class App extends React.Component {
name: "pLtetO-1 rev primer",
start: 512,
},
- {
- color: chooseRandomColor(),
- direction: -1,
- end: 535,
- id: "52792saf3582",
- name: "pLtetO-1 rev primer",
- start: 512,
- },
],
search: { query: "ttnnnaat" },
searchResults: {},
diff --git a/demo/package-lock.json b/demo/package-lock.json
index a0619409b..ffde8f9f8 100644
--- a/demo/package-lock.json
+++ b/demo/package-lock.json
@@ -634,9 +634,9 @@
}
},
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diff --git a/demo/public/logos-betteromics.png b/demo/public/logos-betteromics.png
new file mode 100644
index 000000000..0d7d2732a
Binary files /dev/null and b/demo/public/logos-betteromics.png differ
diff --git a/package-lock.json b/package-lock.json
index 07b380678..f3f111c6b 100644
--- a/package-lock.json
+++ b/package-lock.json
@@ -33,6 +33,7 @@
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"jest": "^28.0.0",
"jest-environment-jsdom": "^28.1.3",
+ "next": "^14.1.0",
"path-browserify": "^1.0.1",
"prettier": "^2.5.1",
"react": "^18.0.0",
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+ "cpu": [
+ "x64"
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@@ -1600,6 +1751,15 @@
"@sinonjs/commons": "^1.7.0"
}
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@@ -3378,6 +3550,12 @@
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@@ -7731,6 +7909,24 @@
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},
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+ "resolved": "https://registry.npmjs.org/styled-jsx/-/styled-jsx-5.1.1.tgz",
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@@ -10919,9 +11230,9 @@
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"dev": true
},
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+ "resolved": "https://registry.npmjs.org/@next/env/-/env-14.1.0.tgz",
+ "integrity": "sha512-Py8zIo+02ht82brwwhTg36iogzFqGLPXlRGKQw5s+qP/kMNc4MAyDeEwBKDijk6zTIbegEgu8Qy7C1LboslQAw==",
+ "dev": true
+ },
+ "@next/swc-darwin-arm64": {
+ "version": "14.1.0",
+ "resolved": "https://registry.npmjs.org/@next/swc-darwin-arm64/-/swc-darwin-arm64-14.1.0.tgz",
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+ "dev": true,
+ "optional": true
+ },
+ "@next/swc-darwin-x64": {
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+ "resolved": "https://registry.npmjs.org/@next/swc-darwin-x64/-/swc-darwin-x64-14.1.0.tgz",
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+ "dev": true,
+ "optional": true
+ },
+ "@next/swc-linux-arm64-gnu": {
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+ "resolved": "https://registry.npmjs.org/@next/swc-linux-arm64-gnu/-/swc-linux-arm64-gnu-14.1.0.tgz",
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+ "dev": true,
+ "optional": true
+ },
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+ "resolved": "https://registry.npmjs.org/@next/swc-linux-arm64-musl/-/swc-linux-arm64-musl-14.1.0.tgz",
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+ "dev": true,
+ "optional": true
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+ "resolved": "https://registry.npmjs.org/@next/swc-linux-x64-gnu/-/swc-linux-x64-gnu-14.1.0.tgz",
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+ "dev": true,
+ "optional": true
+ },
+ "@next/swc-linux-x64-musl": {
+ "version": "14.1.0",
+ "resolved": "https://registry.npmjs.org/@next/swc-linux-x64-musl/-/swc-linux-x64-musl-14.1.0.tgz",
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+ "dev": true,
+ "optional": true
+ },
+ "@next/swc-win32-arm64-msvc": {
+ "version": "14.1.0",
+ "resolved": "https://registry.npmjs.org/@next/swc-win32-arm64-msvc/-/swc-win32-arm64-msvc-14.1.0.tgz",
+ "integrity": "sha512-o1N5TsYc8f/HpGt39OUQpQ9AKIGApd3QLueu7hXk//2xq5Z9OxmV6sQfNp8C7qYmiOlHYODOGqNNa0e9jvchGQ==",
+ "dev": true,
+ "optional": true
+ },
+ "@next/swc-win32-ia32-msvc": {
+ "version": "14.1.0",
+ "resolved": "https://registry.npmjs.org/@next/swc-win32-ia32-msvc/-/swc-win32-ia32-msvc-14.1.0.tgz",
+ "integrity": "sha512-XXIuB1DBRCFwNO6EEzCTMHT5pauwaSj4SWs7CYnME57eaReAKBXCnkUE80p/pAZcewm7hs+vGvNqDPacEXHVkw==",
+ "dev": true,
+ "optional": true
+ },
+ "@next/swc-win32-x64-msvc": {
+ "version": "14.1.0",
+ "resolved": "https://registry.npmjs.org/@next/swc-win32-x64-msvc/-/swc-win32-x64-msvc-14.1.0.tgz",
+ "integrity": "sha512-9WEbVRRAqJ3YFVqEZIxUqkiO8l1nool1LmNxygr5HWF8AcSYsEpneUDhmjUVJEzO2A04+oPtZdombzzPPkTtgg==",
+ "dev": true,
+ "optional": true
+ },
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"version": "2.1.5",
"resolved": "https://registry.npmjs.org/@nodelib/fs.scandir/-/fs.scandir-2.1.5.tgz",
@@ -12138,6 +12518,15 @@
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}
},
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+ "version": "0.5.2",
+ "resolved": "https://registry.npmjs.org/@swc/helpers/-/helpers-0.5.2.tgz",
+ "integrity": "sha512-E4KcWTpoLHqwPHLxidpOqQbcrZVgi0rsmmZXUle1jXmJfuIf/UWpczUJ7MZZ5tlxytgJXyp0w4PGkkeLiuIdZw==",
+ "dev": true,
+ "requires": {
+ "tslib": "^2.4.0"
+ }
+ },
"@testing-library/dom": {
"version": "8.19.0",
"resolved": "https://registry.npmjs.org/@testing-library/dom/-/dom-8.19.0.tgz",
@@ -13415,6 +13804,15 @@
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"dev": true
},
+ "busboy": {
+ "version": "1.6.0",
+ "resolved": "https://registry.npmjs.org/busboy/-/busboy-1.6.0.tgz",
+ "integrity": "sha512-8SFQbg/0hQ9xy3UNTB0YEnsNBbWfhf7RtnzpL7TkBiTBRfrQ9Fxcnz7VJsleJpyp6rVLvXiuORqjlHi5q+PYuA==",
+ "dev": true,
+ "requires": {
+ "streamsearch": "^1.1.0"
+ }
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"bytes": {
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"resolved": "https://registry.npmjs.org/bytes/-/bytes-3.0.0.tgz",
@@ -13454,9 +13852,9 @@
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- "resolved": "https://registry.npmjs.org/caniuse-lite/-/caniuse-lite-1.0.30001486.tgz",
- "integrity": "sha512-uv7/gXuHi10Whlj0pp5q/tsK/32J2QSqVRKQhs2j8VsDCjgyruAh/eEXHF822VqO9yT6iZKw3nRwZRSPBE9OQg==",
+ "version": "1.0.30001587",
+ "resolved": "https://registry.npmjs.org/caniuse-lite/-/caniuse-lite-1.0.30001587.tgz",
+ "integrity": "sha512-HMFNotUmLXn71BQxg8cijvqxnIAofforZOwGsxyXJ0qugTdspUF4sPSJ2vhgprHCB996tIDzEq1ubumPDV8ULA==",
"dev": true
},
"chalk": {
@@ -13537,6 +13935,12 @@
}
}
},
+ "client-only": {
+ "version": "0.0.1",
+ "resolved": "https://registry.npmjs.org/client-only/-/client-only-0.0.1.tgz",
+ "integrity": "sha512-IV3Ou0jSMzZrd3pZ48nLkT9DA7Ag1pnPzaiQhpW7c3RbcqqzvzzVu+L8gfqMp/8IM2MQtSiqaCxrrcfu8I8rMA==",
+ "dev": true
+ },
"cliui": {
"version": "8.0.1",
"resolved": "https://registry.npmjs.org/cliui/-/cliui-8.0.1.tgz",
@@ -14781,9 +15185,9 @@
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},
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- "resolved": "https://registry.npmjs.org/follow-redirects/-/follow-redirects-1.15.2.tgz",
- "integrity": "sha512-VQLG33o04KaQ8uYi2tVNbdrWp1QWxNNea+nmIB4EVM28v0hmP17z7aG1+wAkNzVq4KeXTq3221ye5qTJP91JwA==",
+ "version": "1.15.4",
+ "resolved": "https://registry.npmjs.org/follow-redirects/-/follow-redirects-1.15.4.tgz",
+ "integrity": "sha512-Cr4D/5wlrb0z9dgERpUL3LrmPKVDsETIJhaCMeDfuFYcqa5bldGV6wBsAN6X/vxlXQtFBMrXdXxdL8CbDTGniw==",
"dev": true
},
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@@ -14947,9 +15351,9 @@
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"graceful-fs": {
- "version": "4.2.10",
- "resolved": "https://registry.npmjs.org/graceful-fs/-/graceful-fs-4.2.10.tgz",
- "integrity": "sha512-9ByhssR2fPVsNZj478qUUbKfmL0+t5BDVyjShtyZZLiK7ZDAArFFfopyOTj0M05wE2tJPisA4iTnnXl2YoPvOA==",
+ "version": "4.2.11",
+ "resolved": "https://registry.npmjs.org/graceful-fs/-/graceful-fs-4.2.11.tgz",
+ "integrity": "sha512-RbJ5/jmFcNNCcDV5o9eTnBLJ/HszWV0P73bc+Ff4nS/rJj+YaS6IGyiOL0VoBYX+l1Wrl3k63h/KrH+nhJ0XvQ==",
"dev": true
},
"grapheme-splitter": {
@@ -16800,6 +17204,12 @@
"thunky": "^1.0.2"
}
},
+ "nanoid": {
+ "version": "3.3.7",
+ "resolved": "https://registry.npmjs.org/nanoid/-/nanoid-3.3.7.tgz",
+ "integrity": "sha512-eSRppjcPIatRIMC1U6UngP8XFcz8MQWGQdt1MTBQ7NaAmvXDfvNxbvWV3x2y6CdEUciCSsDHDQZbhYaB8QEo2g==",
+ "dev": true
+ },
"natural-compare": {
"version": "1.4.0",
"resolved": "https://registry.npmjs.org/natural-compare/-/natural-compare-1.4.0.tgz",
@@ -16824,6 +17234,30 @@
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"dev": true
},
+ "next": {
+ "version": "14.1.0",
+ "resolved": "https://registry.npmjs.org/next/-/next-14.1.0.tgz",
+ "integrity": "sha512-wlzrsbfeSU48YQBjZhDzOwhWhGsy+uQycR8bHAOt1LY1bn3zZEcDyHQOEoN3aWzQ8LHCAJ1nqrWCc9XF2+O45Q==",
+ "dev": true,
+ "requires": {
+ "@next/env": "14.1.0",
+ "@next/swc-darwin-arm64": "14.1.0",
+ "@next/swc-darwin-x64": "14.1.0",
+ "@next/swc-linux-arm64-gnu": "14.1.0",
+ "@next/swc-linux-arm64-musl": "14.1.0",
+ "@next/swc-linux-x64-gnu": "14.1.0",
+ "@next/swc-linux-x64-musl": "14.1.0",
+ "@next/swc-win32-arm64-msvc": "14.1.0",
+ "@next/swc-win32-ia32-msvc": "14.1.0",
+ "@next/swc-win32-x64-msvc": "14.1.0",
+ "@swc/helpers": "0.5.2",
+ "busboy": "1.6.0",
+ "caniuse-lite": "^1.0.30001579",
+ "graceful-fs": "^4.2.11",
+ "postcss": "8.4.31",
+ "styled-jsx": "5.1.1"
+ }
+ },
"no-case": {
"version": "3.0.4",
"resolved": "https://registry.npmjs.org/no-case/-/no-case-3.0.4.tgz",
@@ -17243,6 +17677,17 @@
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}
},
+ "postcss": {
+ "version": "8.4.31",
+ "resolved": "https://registry.npmjs.org/postcss/-/postcss-8.4.31.tgz",
+ "integrity": "sha512-PS08Iboia9mts/2ygV3eLpY5ghnUcfLV/EXTOW1E2qYxJKGGBUtNjN76FYHnMs36RmARn41bC0AZmn+rR0OVpQ==",
+ "dev": true,
+ "requires": {
+ "nanoid": "^3.3.6",
+ "picocolors": "^1.0.0",
+ "source-map-js": "^1.0.2"
+ }
+ },
"prelude-ls": {
"version": "1.2.1",
"resolved": "https://registry.npmjs.org/prelude-ls/-/prelude-ls-1.2.1.tgz",
@@ -17918,6 +18363,12 @@
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"dev": true
},
+ "source-map-js": {
+ "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
+ },
"source-map-loader": {
"version": "1.1.3",
"resolved": "https://registry.npmjs.org/source-map-loader/-/source-map-loader-1.1.3.tgz",
@@ -18086,6 +18537,12 @@
}
}
},
+ "streamsearch": {
+ "version": "1.1.0",
+ "resolved": "https://registry.npmjs.org/streamsearch/-/streamsearch-1.1.0.tgz",
+ "integrity": "sha512-Mcc5wHehp9aXz1ax6bZUyY5afg9u2rv5cqQI3mRrYkGC8rW2hM02jWuwjtL++LS5qinSyhj2QfLyNsuc+VsExg==",
+ "dev": true
+ },
"string_decoder": {
"version": "1.3.0",
"resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-1.3.0.tgz",
@@ -18203,6 +18660,15 @@
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},
+ "styled-jsx": {
+ "version": "5.1.1",
+ "resolved": "https://registry.npmjs.org/styled-jsx/-/styled-jsx-5.1.1.tgz",
+ "integrity": "sha512-pW7uC1l4mBZ8ugbiZrcIsiIvVx1UmTfw7UkC3Um2tmfUq9Bhk8IiyEIPl6F8agHgjzku6j0xQEZbfA5uSgSaCw==",
+ "dev": true,
+ "requires": {
+ "client-only": "0.0.1"
+ }
+ },
"supports-color": {
"version": "7.2.0",
"resolved": "https://registry.npmjs.org/supports-color/-/supports-color-7.2.0.tgz",
diff --git a/package.json b/package.json
index 8424a98b2..67fc3d882 100644
--- a/package.json
+++ b/package.json
@@ -52,7 +52,6 @@
"webfontloader": "^1.6.28"
},
"devDependencies": {
- "csstype": "^3.1.2",
"@testing-library/jest-dom": "^5.16.5",
"@testing-library/react": "^13.4.0",
"@trivago/prettier-plugin-sort-imports": "^4.3.0",
@@ -62,6 +61,7 @@
"@types/xml2js": "^0.4.9",
"@typescript-eslint/eslint-plugin": "^5.10.1",
"@typescript-eslint/parser": "^5.10.1",
+ "csstype": "^3.1.2",
"eslint": "^8.8.0",
"eslint-plugin-react": "^7.28.0",
"eslint-plugin-react-hooks": "^4.6.0",
@@ -71,6 +71,7 @@
"html-webpack-plugin": "^5.5.0",
"jest": "^28.0.0",
"jest-environment-jsdom": "^28.1.3",
+ "next": "^14.1.0",
"path-browserify": "^1.0.1",
"prettier": "^2.5.1",
"react": "^18.0.0",