492 lines
13 KiB
HTML
492 lines
13 KiB
HTML
<!DOCTYPE html>
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<meta name="author" content="Clair Blacketer" />
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<meta name="date" content="2020-09-29" />
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<title>Example_Queries</title>
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.tabset-dropdown > .nav-tabs.nav-tabs-open > li {
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display: block;
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float: none;
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display: none;
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</style>
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</head>
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<body>
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<div class="container-fluid main-container">
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<div class="navbar navbar-default navbar-fixed-top" role="navigation">
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<div class="container">
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<div class="navbar-header">
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<button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-bs-toggle="collapse" data-target="#navbar" data-bs-target="#navbar">
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<span class="icon-bar"></span>
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<span class="icon-bar"></span>
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<span class="icon-bar"></span>
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</button>
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<a class="navbar-brand" href="index.html"><div><img src="ohdsi16x16.png"></img> OMOP Common Data Model </div></a>
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</div>
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<div id="navbar" class="navbar-collapse collapse">
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<ul class="nav navbar-nav">
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<a href="index.html">
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<li class="dropdown">
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<span class="fa fa-landmark"></span>
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Background
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<span class="caret"></span>
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</a>
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<ul class="dropdown-menu" role="menu">
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<li>
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<a href="background.html">Model Background</a>
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</li>
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<li>
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<a href="cdmRefreshProcess.html">CDM Refresh Process</a>
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</li>
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<li>
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<a href="vocabulary.html">How the Vocabulary is Built</a>
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</li>
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</ul>
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<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" data-bs-toggle="dropdown" aria-expanded="false">
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<span class="fa fa-list-alt"></span>
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Conventions
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<span class="caret"></span>
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</a>
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<ul class="dropdown-menu" role="menu">
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<li>
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<a href="dataModelConventions.html">General Conventions</a>
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</li>
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<li>
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<a href="ehrObsPeriods.html">Observation Periods for EHR Data</a>
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</li>
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<li>
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<a href="cdmPrivacy.html">Patient Privacy and OMOP</a>
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</li>
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<li>
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<a href="customConcepts.html">Custom Concepts</a>
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</li>
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</ul>
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<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" data-bs-toggle="dropdown" aria-expanded="false">
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<span class="fa fa-history"></span>
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CDM Versions
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<span class="caret"></span>
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</a>
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<ul class="dropdown-menu" role="menu">
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<li>
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<a href="cdm30.html">CDM v3.0</a>
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</li>
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<li>
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<a href="cdm53.html">CDM v5.3</a>
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<li class="dropdown-submenu">
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<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" data-bs-toggle="dropdown" aria-expanded="false">CDM v5.4</a>
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<ul class="dropdown-menu" role="menu">
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<a href="cdm54.html">CDM v5.4</a>
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<a href="cdm54Changes.html">Changes from CDM v5.3</a>
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</li>
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<li>
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<a href="cdm54erd.html">Entity Relationships</a>
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</li>
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<li>
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<a href="cdm54ToolingSupport.html">Detailed tooling support per CDM field</a>
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<span class="fa fa-plus-square"></span>
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CDM Additions
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<span class="caret"></span>
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</a>
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<ul class="dropdown-menu" role="menu">
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<li>
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<a href="typesOfAdditions.html">Types of CDM Additions</a>
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</li>
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<li>
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<a href="cdmRequestProcess.html">How to Propose Changes to the CDM</a>
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</li>
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<li class="dropdown-submenu">
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<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" data-bs-toggle="dropdown" aria-expanded="false">Accepted Changes</a>
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<ul class="dropdown-menu" role="menu">
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<li>
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<a href="https://github.com/OHDSI/CommonDataModel/tree/develop">CDM version in development</a>
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</li>
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</ul>
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</ul>
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<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" data-bs-toggle="dropdown" aria-expanded="false">
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<span class="fa fa-question"></span>
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How to
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<span class="caret"></span>
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</a>
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<ul class="dropdown-menu" role="menu">
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<li>
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<a href="download.html">Download the DDL</a>
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</li>
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<li>
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<a href="cdmRPackage.html">Use the CDM R Package</a>
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</li>
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<li>
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<a href="drug_dose.html">Calculate Drug Dose</a>
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</li>
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</ul>
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</li>
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<li class="dropdown">
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<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" data-bs-toggle="dropdown" aria-expanded="false">
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<span class="fa fa-life-ring"></span>
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Support
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<span class="caret"></span>
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</a>
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<ul class="dropdown-menu" role="menu">
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<li>
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<a href="cdmDecisionTree.html">Help! My Data Doesn't Fit!</a>
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</li>
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<li>
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<a href="faq.html">FAQ</a>
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</li>
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<li>
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<a href="sqlScripts.html">SQL Scripts</a>
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</li>
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<li>
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<a href="contribute.html">Ask a Question</a>
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</li>
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</ul>
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</li>
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</ul>
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<ul class="nav navbar-nav navbar-right">
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<li>
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<a href="https://github.com/OHDSI/CommonDataModel">
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<span class="fa fa-github"></span>
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</a>
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</li>
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</ul>
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</div><!--/.nav-collapse -->
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</div><!--/.container -->
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</div><!--/.navbar -->
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<div id="header">
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|
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|
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<h1 class="title toc-ignore">Example_Queries</h1>
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<h4 class="author">Clair Blacketer</h4>
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<h4 class="date">September 29, 2020</h4>
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</div>
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<p>The query below will find all standard concepts in the Visit domain
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that do not have any ancestors. These are considered “top-level” visit
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concepts and can be used to define categories of visits in cohort
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definitions. For example, the Inpatient Visit concept <a
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href="https://athena.ohdsi.org/search-terms/terms/9201">9201</a>
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subsumes the concepts for Inpatient Hospital and Inpatient in
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Psychiatric Facility. Instead of creating a concept set with all of
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these terms to define an inpatient visit you can use 9201 and all of
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it’s descendants, a concept found using the top-level query.</p>
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<p>WITH top_level AS (SELECT concept_id, concept_name FROM concept LEFT
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JOIN concept_ancestor ON concept_id=descendant_concept_id AND
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ancestor_concept_id!=descendant_concept_id WHERE domain_id=‘Visit’ AND
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standard_concept=‘S’ AND ancestor_concept_id IS NULL ) SELECT
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top_level.concept_id, top_level.concept_name, descendant.concept_id,
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descendant.concept_name FROM concept_ancestor JOIN top_level ON
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top_level.concept_id = ancestor_concept_id JOIN concept descendant ON
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descendant.concept_id = descendant_concept_id WHERE descendant.domain_id
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= ‘Visit’;</p>
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</div>
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|
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<script>
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// add bootstrap table styles to pandoc tables
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function bootstrapStylePandocTables() {
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$('tr.odd').parent('tbody').parent('table').addClass('table table-condensed');
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}
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$(document).ready(function () {
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bootstrapStylePandocTables();
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});
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</script>
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<script>
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$(document).ready(function () {
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window.buildTabsets("TOC");
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$('.tabset-dropdown > .nav-tabs > li').click(function () {
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$(this).parent().toggleClass('nav-tabs-open');
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