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Brier","email":"t.o.brier@bham.ac.uk"},"license":"GPL-3.0-or-later","homepage":"https://github.com/CLIMB-TRE/onyx-gui","keywords":["gui","onyx","climb-tre","metadata","bioinformatics"],"repository":{"url":"git+https://github.com/CLIMB-TRE/onyx-gui.git","type":"git"},"description":"Onyx Graphical User Interface","contributors":[{"name":"Thomas Brier","email":"t.o.brier@bham.ac.uk"},{"name":"Neil Butcher","email":"n.a.butcher@bham.ac.uk"}],"maintainers":[{"email":"t.brier@outlook.com","name":"tombch"},{"email":"andysmith.d@gmail.com","name":"aresti"}],"readme":"![Onyx Banner Image](images/onyx.png)\n\n# Onyx Graphical User Interface\n\n## Overview\n\nA Graphical user interface for [Onyx](https://github.com/CLIMB-TRE/onyx), with functionality for browsing and filtering records/analyses, viewing their details and change history, exporting data, and a customisable dashboard for generating graphs of aggregated fields.\n\nThe Onyx GUI is currently available as an [npm package](https://www.npmjs.com/package/climb-onyx-gui) under the name `climb-onyx-gui`, and is implemented within the Onyx [JupyterLab extension](https://github.com/CLIMB-TRE/onyx-extension), as part of the [CLIMB-TRE](https://climb-tre.github.io) project.\n\n![Records in JupyterLab](images/onyx_records.png)\n![Graphs in JupyterLab](images/onyx_graphs.png)\n![Record in JupyterLab](images/onyx_record.png)\n\n## Setup\n\n### Install from [npm](https://www.npmjs.com/package/climb-onyx-gui)\n\n```\n$ npm install climb-onyx-gui\n```\n\nThe Onyx GUI can then be imported as a React component:\n\n```typescript\nimport React from \"react\";\nimport ReactDOM from \"react-dom\";\nimport Onyx from \"climb-onyx-gui\";\nimport \"climb-onyx-gui/dist/style.css\";\n\nReactDOM.render(\n  <React.StrictMode>\n    <Onyx\n      httpPathHandler={httpPathHandler}\n      s3PathHandler={s3PathHandler}\n      fileWriter={fileWriter}\n      extVersion={extVersion}\n      getItem={getItem}\n      setItem={setItem}\n      setTitle={setTitle}\n    />\n  </React.StrictMode>,\n  document.getElementById(\"root\")\n);\n```\n\nSee the [JupyterLab extension](https://github.com/CLIMB-TRE/onyx-extension/blob/main/src/onyxWidget.tsx) for an example implementation.\n\n### Local development\n\nClone the repository:\n\n```\n$ git clone https://github.com/CLIMB-TRE/onyx-gui\n$ cd onyx-gui/\n```\n\nCopy and edit `.env.local` with `VITE_ONYX_DOMAIN` and `VITE_ONYX_TOKEN` for your development instance of Onyx:\n\n```\n$ cp .env.local.example .env.local\n```\n\nInstall dependencies and run the development server:\n\n```\n$ npm install\n$ npm run dev\n```\n","readmeFilename":"README.md"}