├── .babelrc ├── .dockerignore ├── .editorconfig ├── .eslintignore ├── .eslintrc ├── .github └── workflows │ ├── DEPLOYMENT_SETUP.md │ ├── build.yml │ └── deploy-to-aws.yml ├── .gitignore ├── .gitmodules ├── .npmignore ├── .prettierignore ├── .prettierrc ├── .travis.yml ├── CHANGELOG.md ├── Dockerfile ├── LICENSE.txt ├── Procfile ├── README.md ├── bin ├── aws_deploy.py ├── aws_download.py ├── aws_explore.py ├── aws_invalidate_cloudfront.py ├── check_invalidation_status.py ├── create-data-dir.sh ├── olmsted-server-local.sh ├── olmsted-server.sh └── postbuild.sh ├── docs ├── ancestral-sequences-section.png ├── clonal-families-section.png ├── clonal-family-details-section.png ├── datasets-section.png ├── facet.png ├── selected-clonal-families-section.png ├── splash-page-dataset-manager.png └── visualization-dataset-manager.png ├── eslint-local-rules.js ├── eslint-rules └── max-exported-classes-per-file.js ├── favicon.png ├── fix-destructuring.js ├── index.html ├── index.js ├── nextrain_favicon.png ├── package.json ├── requirements.txt ├── s3-current ├── dist │ └── bundle.js └── index.html ├── schema.html ├── scripts └── setup-eslint-plugin.js ├── server.js ├── src ├── Root.js ├── actions │ ├── clientDataLoader.js │ ├── explorer.js │ ├── loadData.js │ ├── navigation.js │ ├── recomputeReduxState.js │ └── types.js ├── components │ ├── explorer │ │ ├── app.js │ │ ├── downloadFasta.js │ │ ├── lineage.js │ │ ├── loadingTable.js │ │ ├── naive.js │ │ ├── scatterplot.js │ │ ├── table.js │ │ ├── tree.js │ │ └── vega │ │ │ ├── clonalFamilyDetails.js │ │ │ ├── facetScatterPlot.js │ │ │ └── naive.js │ ├── framework │ │ ├── flex.js │ │ ├── fun.js │ │ ├── monitor.js │ │ ├── nav-bar.js │ │ ├── sidebar-chevron.js │ │ ├── sidebar-toggle.js │ │ └── title.js │ ├── splash │ │ ├── availableDatasets.js │ │ ├── centerContent.js │ │ ├── displayError.js │ │ ├── fileUpload.js │ │ ├── index.js │ │ └── logos.js │ └── util │ │ ├── collapseHelpTitle.js │ │ ├── collapsibleSection.js │ │ ├── copy.js │ │ ├── downloadText.js │ │ ├── incomplete.js │ │ ├── loading.js │ │ └── resizableTable.js ├── css │ ├── bootstrapCustomized.css │ ├── browserCompatability.css │ ├── global.css │ └── static.css ├── globalStyles.js ├── images │ ├── fred-hutch-logo-small.png │ ├── fred-hutch-logo.png │ ├── github-logo-small.png │ ├── github-logo.png │ ├── nih-logo-small.png │ ├── nih-logo.jpg │ ├── olmsted.svg │ └── olmsted_logo.png ├── index.js ├── middleware │ ├── changeURL.js │ └── logActions.js ├── reducers │ ├── browserDimensions.js │ ├── clonalFamilies.js │ ├── datasets.js │ ├── index.js │ └── trees.js ├── selectors │ ├── clonalFamilies.js │ └── trees.js ├── server │ ├── charon.js │ ├── getFiles.js │ └── globals.js ├── store │ └── index.js ├── util │ ├── computeResponsive.js │ ├── globals.js │ ├── parseParams.js │ ├── perf.js │ ├── polyfills.js │ ├── sets.js │ └── stringHelpers.js └── utils │ ├── clientDataStore.js │ ├── errors.js │ ├── fileProcessor.js │ ├── olmstedDB.js │ └── 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