mirror of
https://github.com/chanzuckerberg/cellxgene.git
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3660a6cc27
* icons, partway * redux for values * onChange * cancel * annotations lifecycle for category names * copy categorical * edit category * add Dataframe.withColsFrom * render user annotations; default add/delete annotation category * add label name to actions * category name edit * error checking improvements * change schema field isUserAnnotation to writable * always have an unassigned label; implement delete label * implement add new label and edit label name * label current cell selection * fix select exact bug in crossfilter * clean up categorical reducer * fix tests * remove debugging printf * implement subset/reset for user annotations * undo redo support for user annotations * remove duplicate button from categories * add modal * remove obsolete duplicate annotation reducers * remove old debugging printf * connect modal to annotation create and dup * initial full-stack wiring * finish up end-to-end wiring * fix existing unit tests * fix pytests to match new schema API * remove debugging printfs * add label file rotation * remove obsolete comment * add fbs encode/decode tests * add tests for writable annotations * simplify code * fix hashing bug with FBS encoding * lint * fix smoke tests * improve error checking in Dataframe.withColsFrom * add unit test for Dataframe.withColsFrom * add unit test for Dataframe.columns and Dataframe.renameCol * fix bug in FBS encode, add better error checks, refactor * add FBS encode/decode test * add clarifying comment * clean up action type names; fix state inconsistency in crossfilter update * change autosave timer to 2.5sec * sort categorical metadata render order so it remains consistent * add temporary autogenerated label for add-new-label operation * fix hover-over label menu interference with cell highlighting * remove debugging code * add missing reducer cases & fix typo * make dataframe memoize more general purpose * add dev mode for annos * fix error on select duplicate * handle zero occupancy categories * correctly maintain unclipped AND clipped world * correctly handle zero length FBS matrix and label files * ensure all writable categorical schema contains an unassigned category * handle case where building occupancy stack for category with no members * dialog for creating label, disable button if duplicate or empty * visually separate writeable * edit category * fix edit category name * remove debugging code * fix edit annotation label * visually define unassigned, change options * Pull in requirements.txt from `master` * label currently selected cells * duplicate label * lint * fix pytest merge issues * rename --label-file to --experimental-label-file * remove debugging console log * spelling error fix; fix bug found in PR review. * lint
148 lines
5.0 KiB
JSON
148 lines
5.0 KiB
JSON
{
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"name": "cellxgene",
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"version": "0.11.0",
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"license": "MIT",
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"description": "cellxgene is a web application for the interactive exploration of single cell sequence data.",
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"repository": "https://github.com/chanzuckerberg/cellxgene",
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"scripts": {
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"backend-dev": "python3.6 -m venv cellxgene && source cellxgene/bin/activate && yes | pip uninstall cellxgene || true && pip install -e .. && cellxgene launch ",
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"backend-dev-anno": "python3.6 -m venv cellxgene && source cellxgene/bin/activate && yes | pip uninstall cellxgene || true && pip install -e .. && cellxgene launch --experimental-label-file labels.csv ",
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"build": "npm run clean && webpack --config configuration/webpack/webpack.config.prod.js",
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"clean": "rimraf build",
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"dev": "npm run clean && webpack --config configuration/webpack/webpack.config.dev.js",
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"e2e": "node node_modules/jest/bin/jest.js --verbose false --config __tests__/e2e/e2eJestConfig.json e2e/e2e.test.js",
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"lint": "eslint src",
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"smoke-test": "start-server-and-test start-server-for-test :5000 e2e",
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"start": "node server/development.js",
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"start-server-for-test": "cellxgene launch -p 5000 ../example-dataset/pbmc3k.h5ad",
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"test": "node node_modules/jest/bin/jest.js",
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"unit-test": "node node_modules/jest/bin/jest.js --testPathIgnorePatterns e2e"
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},
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"engineStrict": true,
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"engines": {
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"npm": ">=3.0.0"
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},
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"eslintConfig": {
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"extends": "./configuration/eslint/eslint.js"
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},
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"eslintIgnore": [
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"src/util/stateManager/matrix_generated.js"
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],
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"resolutions": {
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"eslint-scope": "3.7.1"
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},
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"dependencies": {
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"@blueprintjs/core": "^3.18.1",
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"@blueprintjs/icons": "^3.10.0",
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"@blueprintjs/select": "^3.10.0",
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"d3": "^4.10.0",
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"d3-scale-chromatic": "^1.5.0",
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"flatbuffers": "^1.11.0",
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"fuzzysort": "^1.1.4",
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"gl-mat4": "^1.1.4",
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"gl-matrix": "^3.1.0",
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"gl-vec3": "^1.1.3",
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"is-number": "^7.0.0",
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"lodash": "^4.17.15",
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"memoize-one": "^5.1.1",
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"react": "^16.9.0",
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"react-autocomplete": "^1.7.2",
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"react-dom": "^16.9.0",
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"react-helmet": "^5.2.1",
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"react-icons": "^3.7.0",
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"react-redux": "^7.1.1",
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"redux": "^4.0.4",
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"redux-thunk": "^2.2.0",
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"regl": "^1.3.13"
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},
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"devDependencies": {
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"@babel/core": "^7.6.0",
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"@babel/plugin-proposal-class-properties": "^7.5.5",
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"@babel/plugin-proposal-decorators": "^7.6.0",
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"@babel/plugin-proposal-export-namespace-from": "^7.5.2",
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"@babel/plugin-proposal-function-bind": "^7.2.0",
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"@babel/plugin-proposal-nullish-coalescing-operator": "^7.4.4",
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"@babel/plugin-proposal-optional-chaining": "^7.6.0",
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"@babel/plugin-transform-react-constant-elements": "^7.6.0",
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"@babel/plugin-transform-runtime": "^7.6.0",
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"@babel/preset-env": "^7.6.0",
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"@babel/preset-react": "^7.0.0",
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"@babel/register": "^7.6.0",
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"@babel/runtime": "^7.6.0",
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"babel-eslint": "^10.0.3",
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"babel-jest": "^24.9.0",
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"babel-loader": "^8.0.6",
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"babel-preset-modern-browsers": "^14.0.0",
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"chalk": "^2.4.2",
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"connect-history-api-fallback": "^1.6.0",
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"copy-webpack-plugin": "^5.0.4",
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"css-loader": "^3.2.0",
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"eslint": "^6.4.0",
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"eslint-config-airbnb": "^18.0.1",
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"eslint-config-prettier": "^6.3.0",
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"eslint-loader": "^3.0.0",
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"eslint-plugin-filenames": "^1.3.2",
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"eslint-plugin-import": "^2.18.2",
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"eslint-plugin-jest": "^22.17.0",
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"eslint-plugin-jsx-a11y": "^6.2.3",
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"eslint-plugin-react": "^7.14.3",
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"express": "^4.17.1",
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"file-loader": "^4.2.0",
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"html-webpack-inline-source-plugin": "0.0.10",
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"html-webpack-plugin": "^3.2.0",
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"jest": "^24.9.0",
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"jest-puppeteer": "^4.3.0",
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"json-loader": "^0.5.4",
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"mini-css-extract-plugin": "^0.8.0",
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"puppeteer": "^1.20.0",
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"rimraf": "^3.0.0",
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"serve-favicon": "^2.3.0",
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"start-server-and-test": "^1.10.2",
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"style-loader": "^1.0.0",
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"sw-precache-webpack-plugin": "^0.11.5",
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"url-loader": "^2.1.0",
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"webpack": "^4.40.2",
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"webpack-cli": "^3.3.8",
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"webpack-dev-middleware": "^3.7.1"
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},
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"jest": {
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"testMatch": [
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"**/__tests__/**/?(*.)(spec|test).js?(x)"
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],
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"testURL": "http://localhost/",
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"setupFiles": [
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"./__tests__/setupMissingGlobals.js"
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]
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},
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"babel": {
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"env": {
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"test": {
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"presets": [
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"@babel/preset-env",
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"@babel/preset-react"
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],
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"plugins": [
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"@babel/plugin-proposal-function-bind",
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[
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"@babel/plugin-proposal-decorators",
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{
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"legacy": true
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}
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],
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[
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"@babel/plugin-proposal-class-properties",
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{
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"loose": true
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}
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],
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"@babel/plugin-proposal-export-namespace-from",
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"@babel/plugin-transform-react-constant-elements",
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"@babel/plugin-transform-runtime",
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"@babel/plugin-proposal-optional-chaining",
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"@babel/plugin-proposal-nullish-coalescing-operator"
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]
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}
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}
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}
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}
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