1915 lines
44 KiB
HTML
1915 lines
44 KiB
HTML
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<html lang="en" class="no-js">
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<link rel="canonical" href="https://www.rapids.science/1.2/setup/execution/">
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<meta name="generator" content="mkdocs-1.1.2, mkdocs-material-7.1.6+insiders-2.9.1">
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<title>Execution - RAPIDS</title>
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<link rel="stylesheet" href="https://fonts.googleapis.com/css?family=Roboto:300,400,400i,700%7CRoboto+Mono&display=fallback">
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<style>:root{--md-text-font-family:"Roboto";--md-code-font-family:"Roboto Mono"}</style>
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<link rel="stylesheet" href="../../stylesheets/extra.css">
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</head>
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<body dir="ltr" data-md-color-scheme="default" data-md-color-primary="blue" data-md-color-accent="blue">
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<script>function __scope(t,e="../.."){return new URL(e,location).pathname+"."+t}function __get(t,e=localStorage,n){return JSON.parse(e.getItem(__scope(t,n)))}function __set(t,e,n=localStorage,o){try{n.setItem(__scope(t,o),JSON.stringify(e))}catch(t){}}</script>
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<script>var palette=__get("__palette");if(palette&&"object"==typeof palette.color)for(var[key,value]of Object.entries(palette.color))document.body.setAttribute("data-md-color-"+key,value)</script>
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<label class="md-overlay" for="__drawer"></label>
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<div data-md-component="skip">
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<a href="#execution" class="md-skip">
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Skip to content
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<div data-md-component="announce">
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<div data-md-component="outdated" hidden>
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<aside class="md-banner md-banner--warning">
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<div class="md-banner__inner md-grid md-typeset">
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You're not viewing the latest stable version of RAPIDS.
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<a href="https://rapids.science/latest/">
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<strong> Click here to go to latest. </strong>
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<header class="md-header" data-md-component="header">
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<nav class="md-header__inner md-grid" aria-label="Header">
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<a href="../.." title="RAPIDS" class="md-header__button md-logo" aria-label="RAPIDS" data-md-component="logo">
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<img src="../../img/logo.png" alt="logo">
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</a>
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<label class="md-header__button md-icon" for="__drawer">
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<div class="md-header__title" data-md-component="header-title">
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<div class="md-header__ellipsis">
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<div class="md-header__topic">
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<span class="md-ellipsis">
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RAPIDS
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</span>
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</div>
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<div class="md-header__topic" data-md-component="header-topic">
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<span class="md-ellipsis">
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Execution
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<form class="md-header__option" data-md-component="palette">
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<label class="md-header__button md-icon" title="Switch to light mode" for="__palette_2" hidden>
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<input class="md-option" data-md-color-media="" data-md-color-scheme="slate" data-md-color-primary="blue" data-md-color-accent="blue" type="radio" name="__palette" id="__palette_2">
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<label class="md-header__button md-icon" title="Switch to dark mode" for="__palette_1" hidden>
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</form>
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<label class="md-header__button md-icon" for="__search">
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5z"/></svg>
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<div class="md-search__inner" role="search">
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<form class="md-search__form" name="search">
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<input type="text" class="md-search__input" name="query" aria-label="Search" placeholder="Search" autocapitalize="off" autocorrect="off" autocomplete="off" spellcheck="false" data-md-component="search-query" required>
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<nav class="md-search__options" aria-label="Search">
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</button>
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</nav>
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<div class="md-search__suggest" data-md-component="search-suggest"></div>
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</form>
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<div class="md-search__output">
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<div class="md-search__scrollwrap" data-md-scrollfix>
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<div class="md-search-result" data-md-component="search-result">
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<div class="md-search-result__meta">
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Initializing search
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</div>
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<ol class="md-search-result__list"></ol>
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</div>
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</div>
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</div>
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</div>
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</div>
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<div class="md-header__source">
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<a href="https://github.com/carissalow/rapids/" title="Go to repository" class="md-source" data-md-component="source">
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
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</div>
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<div class="md-source__repository">
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carissalow/rapids
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</div>
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</a>
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</div>
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</nav>
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</header>
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<div class="md-container" data-md-component="container">
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<main class="md-main" data-md-component="main">
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<div class="md-main__inner md-grid">
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<div class="md-sidebar md-sidebar--primary" data-md-component="sidebar" data-md-type="navigation" >
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<div class="md-sidebar__scrollwrap">
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<div class="md-sidebar__inner">
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<nav class="md-nav md-nav--primary" aria-label="Navigation" data-md-level="0">
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<label class="md-nav__title" for="__drawer">
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<a href="../.." title="RAPIDS" class="md-nav__button md-logo" aria-label="RAPIDS" data-md-component="logo">
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<img src="../../img/logo.png" alt="logo">
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</a>
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RAPIDS
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</label>
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<div class="md-nav__source">
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<a href="https://github.com/carissalow/rapids/" title="Go to repository" class="md-source" data-md-component="source">
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<div class="md-source__icon md-icon">
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
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</div>
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<div class="md-source__repository">
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carissalow/rapids
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</div>
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</a>
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</div>
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<ul class="md-nav__list" data-md-scrollfix>
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<li class="md-nav__item">
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<a href="../.." class="md-nav__link">
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Home
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</a>
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<li class="md-nav__item">
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<a href="../overview/" class="md-nav__link">
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Overview
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</a>
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</li>
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<li class="md-nav__item">
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<a href="../../workflow-examples/minimal/" class="md-nav__link">
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Minimal Example
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</a>
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</li>
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<li class="md-nav__item">
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<a href="../../citation/" class="md-nav__link">
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Citation
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</a>
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</li>
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<li class="md-nav__item">
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<a href="../../contributing/" class="md-nav__link">
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Contributing
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</a>
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</li>
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<li class="md-nav__item md-nav__item--active md-nav__item--section md-nav__item--nested">
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<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_6" type="checkbox" id="__nav_6" checked>
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<label class="md-nav__link" for="__nav_6">
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Setup
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<span class="md-nav__icon md-icon"></span>
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</label>
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<nav class="md-nav" aria-label="Setup" data-md-level="1">
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<label class="md-nav__title" for="__nav_6">
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<span class="md-nav__icon md-icon"></span>
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Setup
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</label>
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<ul class="md-nav__list" data-md-scrollfix>
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<li class="md-nav__item">
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<a href="../installation/" class="md-nav__link">
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Installation
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</a>
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<li class="md-nav__item">
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<a href="../configuration/" class="md-nav__link">
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Configuration
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</a>
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<li class="md-nav__item md-nav__item--active">
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<input class="md-nav__toggle md-toggle" data-md-toggle="toc" type="checkbox" id="__toc">
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<a href="./" class="md-nav__link md-nav__link--active">
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Execution
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</a>
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</li>
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</ul>
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</nav>
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</li>
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<li class="md-nav__item md-nav__item--section md-nav__item--nested">
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<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_7" type="checkbox" id="__nav_7" >
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<label class="md-nav__link" for="__nav_7">
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Data Streams
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<span class="md-nav__icon md-icon"></span>
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</label>
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<nav class="md-nav" aria-label="Data Streams" data-md-level="1">
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<label class="md-nav__title" for="__nav_7">
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<span class="md-nav__icon md-icon"></span>
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Data Streams
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</label>
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<ul class="md-nav__list" data-md-scrollfix>
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<li class="md-nav__item">
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<a href="../../datastreams/data-streams-introduction/" class="md-nav__link">
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Introduction
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</a>
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</li>
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<li class="md-nav__item md-nav__item--nested">
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<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_7_2" type="checkbox" id="__nav_7_2" >
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<label class="md-nav__link" for="__nav_7_2">
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Phone
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<span class="md-nav__icon md-icon"></span>
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</label>
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<nav class="md-nav" aria-label="Phone" data-md-level="2">
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<label class="md-nav__title" for="__nav_7_2">
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<span class="md-nav__icon md-icon"></span>
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Phone
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</label>
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<ul class="md-nav__list" data-md-scrollfix>
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<li class="md-nav__item">
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<a href="../../datastreams/aware-mysql/" class="md-nav__link">
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aware_mysql
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</a>
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</li>
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<li class="md-nav__item">
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<a href="../../datastreams/aware-csv/" class="md-nav__link">
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aware_csv
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</a>
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</li>
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<li class="md-nav__item">
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<a href="../../datastreams/aware-influxdb/" class="md-nav__link">
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aware_influxdb (beta)
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</a>
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</li>
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<li class="md-nav__item">
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<a href="../../datastreams/mandatory-phone-format/" class="md-nav__link">
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Mandatory Phone Format
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</a>
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</li>
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</ul>
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</nav>
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</li>
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<li class="md-nav__item md-nav__item--nested">
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<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_7_3" type="checkbox" id="__nav_7_3" >
|
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<label class="md-nav__link" for="__nav_7_3">
|
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Fitbit
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<span class="md-nav__icon md-icon"></span>
|
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</label>
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|
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<nav class="md-nav" aria-label="Fitbit" data-md-level="2">
|
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<label class="md-nav__title" for="__nav_7_3">
|
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<span class="md-nav__icon md-icon"></span>
|
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Fitbit
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</label>
|
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<ul class="md-nav__list" data-md-scrollfix>
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<li class="md-nav__item">
|
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<a href="../../datastreams/fitbitjson-mysql/" class="md-nav__link">
|
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fitbitjson_mysql
|
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</a>
|
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</li>
|
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<li class="md-nav__item">
|
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<a href="../../datastreams/fitbitjson-csv/" class="md-nav__link">
|
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fitbitjson_csv
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</a>
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</li>
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<li class="md-nav__item">
|
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<a href="../../datastreams/fitbitparsed-mysql/" class="md-nav__link">
|
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fitbitparsed_mysql
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</a>
|
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</li>
|
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<li class="md-nav__item">
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<a href="../../datastreams/fitbitparsed-csv/" class="md-nav__link">
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fitbitparsed_csv
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</a>
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</li>
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<li class="md-nav__item">
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<a href="../../datastreams/mandatory-fitbit-format/" class="md-nav__link">
|
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Mandatory Fitbit Format
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</a>
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</li>
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</ul>
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</nav>
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</li>
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<li class="md-nav__item md-nav__item--nested">
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<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_7_4" type="checkbox" id="__nav_7_4" >
|
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<label class="md-nav__link" for="__nav_7_4">
|
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Empatica
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<span class="md-nav__icon md-icon"></span>
|
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</label>
|
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|
|
<nav class="md-nav" aria-label="Empatica" data-md-level="2">
|
|
<label class="md-nav__title" for="__nav_7_4">
|
|
<span class="md-nav__icon md-icon"></span>
|
|
Empatica
|
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</label>
|
|
<ul class="md-nav__list" data-md-scrollfix>
|
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<li class="md-nav__item">
|
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<a href="../../datastreams/empatica-zip/" class="md-nav__link">
|
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empatica_zip
|
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</a>
|
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</li>
|
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<li class="md-nav__item">
|
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<a href="../../datastreams/mandatory-empatica-format/" class="md-nav__link">
|
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Mandatory Empatica Format
|
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</a>
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</li>
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</ul>
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</nav>
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</li>
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<li class="md-nav__item">
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<a href="../../datastreams/add-new-data-streams/" class="md-nav__link">
|
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Add New Data Streams
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</a>
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</li>
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</ul>
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</nav>
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</li>
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<li class="md-nav__item md-nav__item--section md-nav__item--nested">
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<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_8" type="checkbox" id="__nav_8" >
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<label class="md-nav__link" for="__nav_8">
|
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Behavioral Features
|
|
<span class="md-nav__icon md-icon"></span>
|
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</label>
|
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|
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<nav class="md-nav" aria-label="Behavioral Features" data-md-level="1">
|
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<label class="md-nav__title" for="__nav_8">
|
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<span class="md-nav__icon md-icon"></span>
|
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Behavioral Features
|
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</label>
|
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<ul class="md-nav__list" data-md-scrollfix>
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<li class="md-nav__item">
|
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<a href="../../features/feature-introduction/" class="md-nav__link">
|
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Introduction
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</a>
|
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</li>
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<li class="md-nav__item md-nav__item--nested">
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<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_8_2" type="checkbox" id="__nav_8_2" >
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<label class="md-nav__link" for="__nav_8_2">
|
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Phone
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<span class="md-nav__icon md-icon"></span>
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</label>
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<nav class="md-nav" aria-label="Phone" data-md-level="2">
|
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<label class="md-nav__title" for="__nav_8_2">
|
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<span class="md-nav__icon md-icon"></span>
|
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Phone
|
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</label>
|
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<ul class="md-nav__list" data-md-scrollfix>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-accelerometer/" class="md-nav__link">
|
|
Phone Accelerometer
|
|
</a>
|
|
</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-activity-recognition/" class="md-nav__link">
|
|
Phone Activity Recognition
|
|
</a>
|
|
</li>
|
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<li class="md-nav__item">
|
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<a href="../../features/phone-applications-crashes/" class="md-nav__link">
|
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Phone Applications Crashes
|
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</a>
|
|
</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-applications-foreground/" class="md-nav__link">
|
|
Phone Applications Foreground
|
|
</a>
|
|
</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-applications-notifications/" class="md-nav__link">
|
|
Phone Applications Notifications
|
|
</a>
|
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</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-battery/" class="md-nav__link">
|
|
Phone Battery
|
|
</a>
|
|
</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-bluetooth/" class="md-nav__link">
|
|
Phone Bluetooth
|
|
</a>
|
|
</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-calls/" class="md-nav__link">
|
|
Phone Calls
|
|
</a>
|
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</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-conversation/" class="md-nav__link">
|
|
Phone Conversation
|
|
</a>
|
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</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-data-yield/" class="md-nav__link">
|
|
Phone Data Yield
|
|
</a>
|
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</li>
|
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<li class="md-nav__item">
|
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<a href="../../features/phone-keyboard/" class="md-nav__link">
|
|
Phone Keyboard
|
|
</a>
|
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</li>
|
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|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-light/" class="md-nav__link">
|
|
Phone Light
|
|
</a>
|
|
</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-locations/" class="md-nav__link">
|
|
Phone Locations
|
|
</a>
|
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</li>
|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-log/" class="md-nav__link">
|
|
Phone Log
|
|
</a>
|
|
</li>
|
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|
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<li class="md-nav__item">
|
|
<a href="../../features/phone-messages/" class="md-nav__link">
|
|
Phone Messages
|
|
</a>
|
|
</li>
|
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|
|
<li class="md-nav__item">
|
|
<a href="../../features/phone-screen/" class="md-nav__link">
|
|
Phone Screen
|
|
</a>
|
|
</li>
|
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|
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|
|
<li class="md-nav__item">
|
|
<a href="../../features/phone-wifi-connected/" class="md-nav__link">
|
|
Phone WiFI Connected
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
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|
|
|
|
|
|
|
|
|
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|
|
<li class="md-nav__item">
|
|
<a href="../../features/phone-wifi-visible/" class="md-nav__link">
|
|
Phone WiFI Visible
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
</ul>
|
|
</nav>
|
|
</li>
|
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|
|
|
|
|
|
|
|
<li class="md-nav__item md-nav__item--nested">
|
|
|
|
|
|
<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_8_3" type="checkbox" id="__nav_8_3" >
|
|
|
|
|
|
|
|
|
|
<label class="md-nav__link" for="__nav_8_3">
|
|
Fitbit
|
|
<span class="md-nav__icon md-icon"></span>
|
|
</label>
|
|
|
|
<nav class="md-nav" aria-label="Fitbit" data-md-level="2">
|
|
<label class="md-nav__title" for="__nav_8_3">
|
|
<span class="md-nav__icon md-icon"></span>
|
|
Fitbit
|
|
</label>
|
|
<ul class="md-nav__list" data-md-scrollfix>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/fitbit-calories-intraday/" class="md-nav__link">
|
|
Fitbit Calories Intraday
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/fitbit-data-yield/" class="md-nav__link">
|
|
Fitbit Data Yield
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/fitbit-heartrate-summary/" class="md-nav__link">
|
|
Fitbit Heart Rate Summary
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/fitbit-heartrate-intraday/" class="md-nav__link">
|
|
Fitbit Heart Rate Intraday
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/fitbit-sleep-summary/" class="md-nav__link">
|
|
Fitbit Sleep Summary
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/fitbit-sleep-intraday/" class="md-nav__link">
|
|
Fitbit Sleep Intraday
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/fitbit-steps-summary/" class="md-nav__link">
|
|
Fitbit Steps Summary
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/fitbit-steps-intraday/" class="md-nav__link">
|
|
Fitbit Steps Intraday
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
</ul>
|
|
</nav>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item md-nav__item--nested">
|
|
|
|
|
|
<input class="md-nav__toggle md-toggle" data-md-toggle="__nav_8_4" type="checkbox" id="__nav_8_4" >
|
|
|
|
|
|
|
|
|
|
<label class="md-nav__link" for="__nav_8_4">
|
|
Empatica
|
|
<span class="md-nav__icon md-icon"></span>
|
|
</label>
|
|
|
|
<nav class="md-nav" aria-label="Empatica" data-md-level="2">
|
|
<label class="md-nav__title" for="__nav_8_4">
|
|
<span class="md-nav__icon md-icon"></span>
|
|
Empatica
|
|
</label>
|
|
<ul class="md-nav__list" data-md-scrollfix>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/empatica-accelerometer/" class="md-nav__link">
|
|
Empatica Accelerometer
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/empatica-heartrate/" class="md-nav__link">
|
|
Empatica Heart Rate
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/empatica-temperature/" class="md-nav__link">
|
|
Empatica Temperature
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/empatica-electrodermal-activity/" class="md-nav__link">
|
|
Empatica Electrodermal Activity
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/empatica-blood-volume-pulse/" class="md-nav__link">
|
|
Empatica Blood Volume Pulse
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/empatica-inter-beat-interval/" class="md-nav__link">
|
|
Empatica Inter Beat Interval
|
|
</a>
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li class="md-nav__item">
|
|
<a href="../../features/empatica-tags/" class="md-nav__link">
|
|
Empatica Tags
|
|
</a>
|
|
</li>
|
|
|
|
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<h1 id="execution">Execution<a class="headerlink" href="#execution" title="Permanent link">¶</a></h1>
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<p>After you have <a href="../installation">installed</a> and <a href="../configuration">configured</a> RAPIDS, use the following command to execute it.</p>
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<p>You can run RAPIDS over multiple cores by modifying the <code>-j</code> argument (e.g. use <code>-j8</code> to use 8 cores). <strong>However</strong>, take into account that this means multiple sensor datasets for different participants will be loaded in memory at the same time. If RAPIDS crashes because it ran out of memory, reduce the number of cores and try again.</p>
|
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<p>As reference, we have run RAPIDS over 12 cores and 32 Gb of RAM without problems for a study with 200 participants with 14 days of low-frequency smartphone data (no accelerometer, gyroscope, or magnetometer).</p>
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|
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|
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