Mercurial > repos > johnheap > vapper
view VAP.xml @ 13:8c210b4ad003 draft
Uploaded
| author | johnheap |
|---|---|
| date | Mon, 03 Jun 2019 14:29:04 -0400 |
| parents | 6450a72e8f6b |
| children | 7d1f86b4718d |
line wrap: on
line source
<!DOCTYPE html> <html lang="en"> <head> <meta charset="utf-8"> <link rel="dns-prefetch" href="https://github.githubassets.com"> <link rel="dns-prefetch" href="https://avatars0.githubusercontent.com"> <link rel="dns-prefetch" href="https://avatars1.githubusercontent.com"> <link rel="dns-prefetch" href="https://avatars2.githubusercontent.com"> <link rel="dns-prefetch" href="https://avatars3.githubusercontent.com"> <link rel="dns-prefetch" href="https://github-cloud.s3.amazonaws.com"> <link rel="dns-prefetch" href="https://user-images.githubusercontent.com/"> <link crossorigin="anonymous" media="all" integrity="sha512-3+HOqCwtQal5hOJQ+mdxiq5zmGOTjF6RhjDsPLxbKDYgGlLFeCwzoIanb7j5IiCuXKUqyC2q8FdkC4nmx2P2rA==" rel="stylesheet" href="https://github.githubassets.com/assets/frameworks-a2fba223d5af91496cac70d4ec3624df.css" /> <link crossorigin="anonymous" media="all" integrity="sha512-MRlTIqIyb8caK5+o8llXVntXovciHyAM4qE3kWU2S7SIjAPDxYp4mE0jQp4kP5UYegy+lG9y1I6VlsdzEjb5Qw==" rel="stylesheet" href="https://github.githubassets.com/assets/site-294181adec18ed639e160b96b45d17ac.css" /> <link crossorigin="anonymous" media="all" integrity="sha512-XjvAy/mMWN5aOA+pyb/FgAgcVgJkPkwTCwvFK07Ez/H44lvl55ZLGwtpyL4MaMrwDE8QYO+1VYljKFjqr4/iJA==" rel="stylesheet" href="https://github.githubassets.com/assets/github-5b066aa36cc405c9cbcbadf1bde399ed.css" /> <meta name="viewport" content="width=device-width"> <title>VAPPER-Galaxy/VAP.xml at master · johnheap/VAPPER-Galaxy · GitHub</title> <meta name="description" content="Contribute to johnheap/VAPPER-Galaxy development by creating an account on GitHub."> <link rel="search" type="application/opensearchdescription+xml" href="/opensearch.xml" title="GitHub"> <link rel="fluid-icon" href="https://github.com/fluidicon.png" title="GitHub"> <meta property="fb:app_id" content="1401488693436528"> <meta name="twitter:image:src" content="https://avatars0.githubusercontent.com/u/24318980?s=400&v=4" /><meta name="twitter:site" content="@github" /><meta name="twitter:card" content="summary" /><meta name="twitter:title" content="johnheap/VAPPER-Galaxy" /><meta name="twitter:description" content="Contribute to johnheap/VAPPER-Galaxy development by creating an account on GitHub." /> <meta property="og:image" content="https://avatars0.githubusercontent.com/u/24318980?s=400&v=4" /><meta property="og:site_name" content="GitHub" /><meta property="og:type" content="object" /><meta property="og:title" content="johnheap/VAPPER-Galaxy" /><meta property="og:url" content="https://github.com/johnheap/VAPPER-Galaxy" /><meta property="og:description" content="Contribute to johnheap/VAPPER-Galaxy development by creating an account on GitHub." /> <link rel="assets" href="https://github.githubassets.com/"> <meta name="pjax-timeout" content="1000"> <meta name="request-id" content="99EF:3DF4:A496E:120BBA:5CF562BE" data-pjax-transient> <meta name="selected-link" value="repo_source" data-pjax-transient> <meta name="google-site-verification" content="KT5gs8h0wvaagLKAVWq8bbeNwnZZK1r1XQysX3xurLU"> <meta name="google-site-verification" content="ZzhVyEFwb7w3e0-uOTltm8Jsck2F5StVihD0exw2fsA"> <meta name="google-site-verification" content="GXs5KoUUkNCoaAZn7wPN-t01Pywp9M3sEjnt_3_ZWPc"> <meta name="octolytics-host" content="collector.githubapp.com" /><meta name="octolytics-app-id" content="github" /><meta name="octolytics-event-url" content="https://collector.githubapp.com/github-external/browser_event" /><meta name="octolytics-dimension-request_id" content="99EF:3DF4:A496E:120BBA:5CF562BE" /><meta name="octolytics-dimension-region_edge" content="iad" /><meta name="octolytics-dimension-region_render" content="iad" /> <meta name="analytics-location" content="/<user-name>/<repo-name>/blob/show" data-pjax-transient="true" /> <meta name="google-analytics" content="UA-3769691-2"> <meta class="js-ga-set" name="dimension1" content="Logged Out"> <meta name="hostname" content="github.com"> <meta name="user-login" content=""> <meta name="expected-hostname" content="github.com"> <meta name="js-proxy-site-detection-payload" content="YjkwYmU3NjQ0NmUzNDk5OThjZDQ3YTcxMWY2OTkyZjI0MmU5ZmM4MWY4YjdlZDRmMmJiOTkxZTkxMmVhYzc4OHx7InJlbW90ZV9hZGRyZXNzIjoiMTI4LjExOC4yNTAuNSIsInJlcXVlc3RfaWQiOiI5OUVGOjNERjQ6QTQ5NkU6MTIwQkJBOjVDRjU2MkJFIiwidGltZXN0YW1wIjoxNTU5NTg1NDcyLCJob3N0IjoiZ2l0aHViLmNvbSJ9"> <meta name="enabled-features" content="UNIVERSE_BANNER,MARKETPLACE_INVOICED_BILLING,MARKETPLACE_SOCIAL_PROOF_CUSTOMERS,MARKETPLACE_TRENDING_SOCIAL_PROOF,MARKETPLACE_RECOMMENDATIONS"> <meta name="html-safe-nonce" content="f197dc179b86163d4e90bff793e327611b043451"> <meta http-equiv="x-pjax-version" content="af1499c2254d0582d0a98af1dfd7f11b"> <link href="https://github.com/johnheap/VAPPER-Galaxy/commits/master.atom" rel="alternate" title="Recent Commits to VAPPER-Galaxy:master" type="application/atom+xml"> <meta name="go-import" content="github.com/johnheap/VAPPER-Galaxy git https://github.com/johnheap/VAPPER-Galaxy.git"> <meta name="octolytics-dimension-user_id" content="24318980" /><meta name="octolytics-dimension-user_login" content="johnheap" /><meta name="octolytics-dimension-repository_id" content="139730674" /><meta name="octolytics-dimension-repository_nwo" content="johnheap/VAPPER-Galaxy" /><meta name="octolytics-dimension-repository_public" content="true" /><meta name="octolytics-dimension-repository_is_fork" content="false" /><meta name="octolytics-dimension-repository_network_root_id" content="139730674" /><meta name="octolytics-dimension-repository_network_root_nwo" content="johnheap/VAPPER-Galaxy" /><meta name="octolytics-dimension-repository_explore_github_marketplace_ci_cta_shown" content="false" /> <link rel="canonical" href="https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml" data-pjax-transient> <meta name="browser-stats-url" content="https://api.github.com/_private/browser/stats"> <meta name="browser-errors-url" content="https://api.github.com/_private/browser/errors"> <link rel="mask-icon" href="https://github.githubassets.com/pinned-octocat.svg" color="#000000"> <link rel="icon" type="image/x-icon" class="js-site-favicon" href="https://github.githubassets.com/favicon.ico"> <meta name="theme-color" content="#1e2327"> <link rel="manifest" href="/manifest.json" crossOrigin="use-credentials"> </head> <body class="logged-out env-production page-responsive page-blob"> <div class="position-relative js-header-wrapper "> <a href="#start-of-content" tabindex="1" class="px-2 py-4 bg-blue text-white show-on-focus js-skip-to-content">Skip to content</a> <div id="js-pjax-loader-bar" class="pjax-loader-bar"><div class="progress"></div></div> <header class="Header-old header-logged-out js-details-container Details position-relative f4 py-2" role="banner"> <div class="container-lg d-lg-flex flex-items-center p-responsive"> <div class="d-flex flex-justify-between flex-items-center"> <a class="mr-4" href="https://github.com/" aria-label="Homepage" data-ga-click="(Logged out) Header, go to homepage, icon:logo-wordmark"> <svg height="32" class="octicon octicon-mark-github text-white" viewBox="0 0 16 16" version="1.1" width="32" aria-hidden="true"><path fill-rule="evenodd" d="M8 0C3.58 0 0 3.58 0 8c0 3.54 2.29 6.53 5.47 7.59.4.07.55-.17.55-.38 0-.19-.01-.82-.01-1.49-2.01.37-2.53-.49-2.69-.94-.09-.23-.48-.94-.82-1.13-.28-.15-.68-.52-.01-.53.63-.01 1.08.58 1.23.82.72 1.21 1.87.87 2.33.66.07-.52.28-.87.51-1.07-1.78-.2-3.64-.89-3.64-3.95 0-.87.31-1.59.82-2.15-.08-.2-.36-1.02.08-2.12 0 0 .67-.21 2.2.82.64-.18 1.32-.27 2-.27.68 0 1.36.09 2 .27 1.53-1.04 2.2-.82 2.2-.82.44 1.1.16 1.92.08 2.12.51.56.82 1.27.82 2.15 0 3.07-1.87 3.75-3.65 3.95.29.25.54.73.54 1.48 0 1.07-.01 1.93-.01 2.2 0 .21.15.46.55.38A8.013 8.013 0 0 0 16 8c0-4.42-3.58-8-8-8z"/></svg> </a> <div class="d-lg-none css-truncate css-truncate-target width-fit p-2"> <svg class="octicon octicon-repo" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M4 9H3V8h1v1zm0-3H3v1h1V6zm0-2H3v1h1V4zm0-2H3v1h1V2zm8-1v12c0 .55-.45 1-1 1H6v2l-1.5-1.5L3 16v-2H1c-.55 0-1-.45-1-1V1c0-.55.45-1 1-1h10c.55 0 1 .45 1 1zm-1 10H1v2h2v-1h3v1h5v-2zm0-10H2v9h9V1z"/></svg> <a class="Header-link" href="/johnheap">johnheap</a> / <a class="Header-link" href="/johnheap/VAPPER-Galaxy">VAPPER-Galaxy</a> </div> <div class="d-flex flex-items-center"> <a class="d-inline-block d-lg-none f5 text-white no-underline border border-gray-dark rounded-2 px-2 py-1 mr-3 mr-sm-5" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"site header","repository_id":null,"auth_type":"SIGN_UP","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="dc2d3f518443a055ecc06e37252fb1d5e28cfb306cdc8b0d47d7c0622f57f251" data-ga-click="(Logged out) Header, clicked Sign up, text:sign-up" href="/join?source=header-repo"> Sign up </a> <button class="btn-link d-lg-none mt-1 js-details-target" type="button" aria-label="Toggle navigation" aria-expanded="false"> <svg height="24" class="octicon octicon-three-bars text-white" viewBox="0 0 12 16" version="1.1" width="18" aria-hidden="true"><path fill-rule="evenodd" d="M11.41 9H.59C0 9 0 8.59 0 8c0-.59 0-1 .59-1H11.4c.59 0 .59.41.59 1 0 .59 0 1-.59 1h.01zm0-4H.59C0 5 0 4.59 0 4c0-.59 0-1 .59-1H11.4c.59 0 .59.41.59 1 0 .59 0 1-.59 1h.01zM.59 11H11.4c.59 0 .59.41.59 1 0 .59 0 1-.59 1H.59C0 13 0 12.59 0 12c0-.59 0-1 .59-1z"/></svg> </button> </div> </div> <div class="HeaderMenu HeaderMenu--logged-out position-fixed top-0 right-0 bottom-0 height-fit position-lg-relative d-lg-flex flex-justify-between flex-items-center flex-auto"> <div class="d-flex d-lg-none flex-justify-end border-bottom bg-gray-light p-3"> <button class="btn-link js-details-target" type="button" aria-label="Toggle navigation" aria-expanded="false"> <svg height="24" class="octicon octicon-x text-gray" viewBox="0 0 12 16" version="1.1" width="18" aria-hidden="true"><path fill-rule="evenodd" d="M7.48 8l3.75 3.75-1.48 1.48L6 9.48l-3.75 3.75-1.48-1.48L4.52 8 .77 4.25l1.48-1.48L6 6.52l3.75-3.75 1.48 1.48L7.48 8z"/></svg> </button> </div> <nav class="mt-0 px-3 px-lg-0 mb-5 mb-lg-0" aria-label="Global"> <ul class="d-lg-flex list-style-none"> <li class="d-block d-lg-flex flex-lg-nowrap flex-lg-items-center border-bottom border-lg-bottom-0 mr-0 mr-lg-3 edge-item-fix position-relative flex-wrap flex-justify-between d-flex flex-items-center "> <details class="HeaderMenu-details details-overlay details-reset width-full"> <summary class="HeaderMenu-summary HeaderMenu-link px-0 py-3 border-0 no-wrap d-block d-lg-inline-block"> Why GitHub? <svg x="0px" y="0px" viewBox="0 0 14 8" xml:space="preserve" fill="none" class="icon-chevon-down-mktg position-absolute position-lg-relative"> <path d="M1,1l6.2,6L13,1"></path> </svg> </summary> <div class="dropdown-menu flex-auto rounded-1 bg-white px-0 mt-0 pb-4 p-lg-4 position-relative position-lg-absolute left-0 left-lg-n4"> <a href="/features" class="py-2 lh-condensed-ultra d-block link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Features">Features <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a> <ul class="list-style-none f5 pb-3"> <li class="edge-item-fix"><a href="/features/code-review/" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Code review">Code review</a></li> <li class="edge-item-fix"><a href="/features/project-management/" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Project management">Project management</a></li> <li class="edge-item-fix"><a href="/features/integrations" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Integrations">Integrations</a></li> <li class="edge-item-fix"><a href="/features/actions" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Actions">Actions</a> <li class="edge-item-fix"><a href="/features/package-registry" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Package Registry">Package registry</a> <li class="edge-item-fix"><a href="/features#team-management" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Team management">Team management</a></li> <li class="edge-item-fix"><a href="/features#social-coding" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Social coding">Social coding</a></li> <li class="edge-item-fix"><a href="/features#documentation" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Documentation">Documentation</a></li> <li class="edge-item-fix"><a href="/features#code-hosting" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Code hosting">Code hosting</a></li> </ul> <ul class="list-style-none mb-0 border-lg-top pt-lg-3"> <li class="edge-item-fix"><a href="/customer-stories" class="py-2 lh-condensed-ultra d-block no-underline link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Customer stories">Customer stories <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a></li> <li class="edge-item-fix"><a href="/security" class="py-2 lh-condensed-ultra d-block no-underline link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Security">Security <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a></li> </ul> </div> </details> </li> <li class="border-bottom border-lg-bottom-0 mr-0 mr-lg-3"> <a href="/enterprise" class="HeaderMenu-link no-underline py-3 d-block d-lg-inline-block" data-ga-click="(Logged out) Header, go to Enterprise">Enterprise</a> </li> <li class="d-block d-lg-flex flex-lg-nowrap flex-lg-items-center border-bottom border-lg-bottom-0 mr-0 mr-lg-3 edge-item-fix position-relative flex-wrap flex-justify-between d-flex flex-items-center "> <details class="HeaderMenu-details details-overlay details-reset width-full"> <summary class="HeaderMenu-summary HeaderMenu-link px-0 py-3 border-0 no-wrap d-block d-lg-inline-block"> Explore <svg x="0px" y="0px" viewBox="0 0 14 8" xml:space="preserve" fill="none" class="icon-chevon-down-mktg position-absolute position-lg-relative"> <path d="M1,1l6.2,6L13,1"></path> </svg> </summary> <div class="dropdown-menu flex-auto rounded-1 bg-white px-0 pt-2 pb-0 mt-0 pb-4 p-lg-4 position-relative position-lg-absolute left-0 left-lg-n4"> <ul class="list-style-none mb-3"> <li class="edge-item-fix"><a href="/explore" class="py-2 lh-condensed-ultra d-block link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Explore">Explore GitHub <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a></li> </ul> <h4 class="text-gray-light text-normal text-mono f5 mb-2 border-lg-top pt-lg-3">Learn & contribute</h4> <ul class="list-style-none mb-3"> <li class="edge-item-fix"><a href="/topics" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Topics">Topics</a></li> <li class="edge-item-fix"><a href="/collections" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Collections">Collections</a></li> <li class="edge-item-fix"><a href="/trending" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Trending">Trending</a></li> <li class="edge-item-fix"><a href="https://lab.github.com/" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Learning lab">Learning Lab</a></li> <li class="edge-item-fix"><a href="https://opensource.guide" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Open source guides">Open source guides</a></li> </ul> <h4 class="text-gray-light text-normal text-mono f5 mb-2 border-lg-top pt-lg-3">Connect with others</h4> <ul class="list-style-none mb-0"> <li class="edge-item-fix"><a href="https://github.com/events" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Events">Events</a></li> <li class="edge-item-fix"><a href="https://github.community" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Community forum">Community forum</a></li> <li class="edge-item-fix"><a href="https://education.github.com" class="py-2 pb-0 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to GitHub Education">GitHub Education</a></li> </ul> </div> </details> </li> <li class="border-bottom border-lg-bottom-0 mr-0 mr-lg-3"> <a href="/marketplace" class="HeaderMenu-link no-underline py-3 d-block d-lg-inline-block" data-ga-click="(Logged out) Header, go to Marketplace">Marketplace</a> </li> <li class="d-block d-lg-flex flex-lg-nowrap flex-lg-items-center border-bottom border-lg-bottom-0 mr-0 mr-lg-3 edge-item-fix position-relative flex-wrap flex-justify-between d-flex flex-items-center "> <details class="HeaderMenu-details details-overlay details-reset width-full"> <summary class="HeaderMenu-summary HeaderMenu-link px-0 py-3 border-0 no-wrap d-block d-lg-inline-block"> Pricing <svg x="0px" y="0px" viewBox="0 0 14 8" xml:space="preserve" fill="none" class="icon-chevon-down-mktg position-absolute position-lg-relative"> <path d="M1,1l6.2,6L13,1"></path> </svg> </summary> <div class="dropdown-menu flex-auto rounded-1 bg-white px-0 pt-2 pb-4 mt-0 p-lg-4 position-relative position-lg-absolute left-0 left-lg-n4"> <a href="/pricing" class="pb-2 lh-condensed-ultra d-block link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Pricing">Plans <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a> <ul class="list-style-none mb-3"> <li class="edge-item-fix"><a href="/pricing#feature-comparison" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Compare plans">Compare plans</a></li> <li class="edge-item-fix"><a href="https://enterprise.github.com/contact" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Contact Sales">Contact Sales</a></li> </ul> <ul class="list-style-none mb-0 border-lg-top pt-lg-3"> <li class="edge-item-fix"><a href="/nonprofit" class="py-2 lh-condensed-ultra d-block no-underline link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Nonprofits">Nonprofit <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a></li> <li class="edge-item-fix"><a href="https://education.github.com" class="py-2 pb-0 lh-condensed-ultra d-block no-underline link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Education">Education <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a></li> </ul> </div> </details> </li> </ul> </nav> <div class="d-lg-flex flex-items-center px-3 px-lg-0 text-center text-lg-left"> <div class="d-lg-flex mb-3 mb-lg-0"> <div class="header-search flex-self-stretch flex-lg-self-auto mr-0 mr-lg-3 mb-3 mb-lg-0 scoped-search site-scoped-search js-site-search position-relative js-jump-to" role="combobox" aria-owns="jump-to-results" aria-label="Search or jump to" aria-haspopup="listbox" aria-expanded="false" > <div class="position-relative"> <!-- '"` --><!-- </textarea></xmp> --></option></form><form class="js-site-search-form" role="search" aria-label="Site" data-scope-type="Repository" data-scope-id="139730674" data-scoped-search-url="/johnheap/VAPPER-Galaxy/search" data-unscoped-search-url="/search" action="/johnheap/VAPPER-Galaxy/search" accept-charset="UTF-8" method="get"><input name="utf8" type="hidden" value="✓" /> <label class="form-control input-sm header-search-wrapper p-0 header-search-wrapper-jump-to position-relative d-flex flex-justify-between flex-items-center js-chromeless-input-container"> <input type="text" class="form-control input-sm header-search-input jump-to-field js-jump-to-field js-site-search-focus js-site-search-field is-clearable" data-hotkey="s,/" name="q" value="" placeholder="Search" data-unscoped-placeholder="Search GitHub" data-scoped-placeholder="Search" autocapitalize="off" aria-autocomplete="list" aria-controls="jump-to-results" aria-label="Search" data-jump-to-suggestions-path="/_graphql/GetSuggestedNavigationDestinations#csrf-token=KTCloZOsmcJnQG8+9Rpx1bhv3g0Y6RphAwXNxB0AQyG1y/I19pdeBJolo4nekuHBWhvAt65+3d/8rLCh6xmeUw==" spellcheck="false" autocomplete="off" > <input type="hidden" class="js-site-search-type-field" name="type" > <img src="https://github.githubassets.com/images/search-key-slash.svg" alt="" class="mr-2 header-search-key-slash"> <div class="Box position-absolute overflow-hidden d-none jump-to-suggestions js-jump-to-suggestions-container"> <ul class="d-none js-jump-to-suggestions-template-container"> <li class="d-flex flex-justify-start flex-items-center p-0 f5 navigation-item js-navigation-item js-jump-to-suggestion" role="option"> <a tabindex="-1" class="no-underline d-flex flex-auto flex-items-center jump-to-suggestions-path js-jump-to-suggestion-path js-navigation-open p-2" href=""> <div class="jump-to-octicon js-jump-to-octicon flex-shrink-0 mr-2 text-center d-none"> <svg height="16" width="16" class="octicon octicon-repo flex-shrink-0 js-jump-to-octicon-repo d-none" title="Repository" aria-label="Repository" viewBox="0 0 12 16" version="1.1" role="img"><path fill-rule="evenodd" d="M4 9H3V8h1v1zm0-3H3v1h1V6zm0-2H3v1h1V4zm0-2H3v1h1V2zm8-1v12c0 .55-.45 1-1 1H6v2l-1.5-1.5L3 16v-2H1c-.55 0-1-.45-1-1V1c0-.55.45-1 1-1h10c.55 0 1 .45 1 1zm-1 10H1v2h2v-1h3v1h5v-2zm0-10H2v9h9V1z"/></svg> <svg height="16" width="16" class="octicon octicon-project flex-shrink-0 js-jump-to-octicon-project d-none" title="Project" aria-label="Project" viewBox="0 0 15 16" version="1.1" role="img"><path fill-rule="evenodd" d="M10 12h3V2h-3v10zm-4-2h3V2H6v8zm-4 4h3V2H2v12zm-1 1h13V1H1v14zM14 0H1a1 1 0 0 0-1 1v14a1 1 0 0 0 1 1h13a1 1 0 0 0 1-1V1a1 1 0 0 0-1-1z"/></svg> <svg height="16" width="16" class="octicon octicon-search flex-shrink-0 js-jump-to-octicon-search d-none" title="Search" aria-label="Search" viewBox="0 0 16 16" version="1.1" role="img"><path fill-rule="evenodd" d="M15.7 13.3l-3.81-3.83A5.93 5.93 0 0 0 13 6c0-3.31-2.69-6-6-6S1 2.69 1 6s2.69 6 6 6c1.3 0 2.48-.41 3.47-1.11l3.83 3.81c.19.2.45.3.7.3.25 0 .52-.09.7-.3a.996.996 0 0 0 0-1.41v.01zM7 10.7c-2.59 0-4.7-2.11-4.7-4.7 0-2.59 2.11-4.7 4.7-4.7 2.59 0 4.7 2.11 4.7 4.7 0 2.59-2.11 4.7-4.7 4.7z"/></svg> </div> <img class="avatar mr-2 flex-shrink-0 js-jump-to-suggestion-avatar d-none" alt="" aria-label="Team" src="" width="28" height="28"> <div class="jump-to-suggestion-name js-jump-to-suggestion-name flex-auto overflow-hidden text-left no-wrap css-truncate css-truncate-target"> </div> <div class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none js-jump-to-badge-search"> <span class="js-jump-to-badge-search-text-default d-none" aria-label="in this repository"> In this repository </span> <span class="js-jump-to-badge-search-text-global d-none" aria-label="in all of GitHub"> All GitHub </span> <span aria-hidden="true" class="d-inline-block ml-1 v-align-middle">↵</span> </div> <div aria-hidden="true" class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none d-on-nav-focus js-jump-to-badge-jump"> Jump to <span class="d-inline-block ml-1 v-align-middle">↵</span> </div> </a> </li> </ul> <ul class="d-none js-jump-to-no-results-template-container"> <li class="d-flex flex-justify-center flex-items-center f5 d-none js-jump-to-suggestion p-2"> <span class="text-gray">No suggested jump to results</span> </li> </ul> <ul id="jump-to-results" role="listbox" class="p-0 m-0 js-navigation-container jump-to-suggestions-results-container js-jump-to-suggestions-results-container"> <li class="d-flex flex-justify-start flex-items-center p-0 f5 navigation-item js-navigation-item js-jump-to-scoped-search d-none" role="option"> <a tabindex="-1" class="no-underline d-flex flex-auto flex-items-center jump-to-suggestions-path js-jump-to-suggestion-path js-navigation-open p-2" href=""> <div class="jump-to-octicon js-jump-to-octicon flex-shrink-0 mr-2 text-center d-none"> <svg height="16" width="16" class="octicon octicon-repo flex-shrink-0 js-jump-to-octicon-repo d-none" title="Repository" aria-label="Repository" viewBox="0 0 12 16" version="1.1" role="img"><path fill-rule="evenodd" d="M4 9H3V8h1v1zm0-3H3v1h1V6zm0-2H3v1h1V4zm0-2H3v1h1V2zm8-1v12c0 .55-.45 1-1 1H6v2l-1.5-1.5L3 16v-2H1c-.55 0-1-.45-1-1V1c0-.55.45-1 1-1h10c.55 0 1 .45 1 1zm-1 10H1v2h2v-1h3v1h5v-2zm0-10H2v9h9V1z"/></svg> <svg height="16" width="16" class="octicon octicon-project flex-shrink-0 js-jump-to-octicon-project d-none" title="Project" aria-label="Project" viewBox="0 0 15 16" version="1.1" role="img"><path fill-rule="evenodd" d="M10 12h3V2h-3v10zm-4-2h3V2H6v8zm-4 4h3V2H2v12zm-1 1h13V1H1v14zM14 0H1a1 1 0 0 0-1 1v14a1 1 0 0 0 1 1h13a1 1 0 0 0 1-1V1a1 1 0 0 0-1-1z"/></svg> <svg height="16" width="16" class="octicon octicon-search flex-shrink-0 js-jump-to-octicon-search d-none" title="Search" aria-label="Search" viewBox="0 0 16 16" version="1.1" role="img"><path fill-rule="evenodd" d="M15.7 13.3l-3.81-3.83A5.93 5.93 0 0 0 13 6c0-3.31-2.69-6-6-6S1 2.69 1 6s2.69 6 6 6c1.3 0 2.48-.41 3.47-1.11l3.83 3.81c.19.2.45.3.7.3.25 0 .52-.09.7-.3a.996.996 0 0 0 0-1.41v.01zM7 10.7c-2.59 0-4.7-2.11-4.7-4.7 0-2.59 2.11-4.7 4.7-4.7 2.59 0 4.7 2.11 4.7 4.7 0 2.59-2.11 4.7-4.7 4.7z"/></svg> </div> <img class="avatar mr-2 flex-shrink-0 js-jump-to-suggestion-avatar d-none" alt="" aria-label="Team" src="" width="28" height="28"> <div class="jump-to-suggestion-name js-jump-to-suggestion-name flex-auto overflow-hidden text-left no-wrap css-truncate css-truncate-target"> </div> <div class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none js-jump-to-badge-search"> <span class="js-jump-to-badge-search-text-default d-none" aria-label="in this repository"> In this repository </span> <span class="js-jump-to-badge-search-text-global d-none" aria-label="in all of GitHub"> All GitHub </span> <span aria-hidden="true" class="d-inline-block ml-1 v-align-middle">↵</span> </div> <div aria-hidden="true" class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none d-on-nav-focus js-jump-to-badge-jump"> Jump to <span class="d-inline-block ml-1 v-align-middle">↵</span> </div> </a> </li> <li class="d-flex flex-justify-start flex-items-center p-0 f5 navigation-item js-navigation-item js-jump-to-global-search d-none" role="option"> <a tabindex="-1" class="no-underline d-flex flex-auto flex-items-center jump-to-suggestions-path js-jump-to-suggestion-path js-navigation-open p-2" href=""> <div class="jump-to-octicon js-jump-to-octicon flex-shrink-0 mr-2 text-center d-none"> <svg height="16" width="16" class="octicon octicon-repo flex-shrink-0 js-jump-to-octicon-repo d-none" title="Repository" aria-label="Repository" viewBox="0 0 12 16" version="1.1" role="img"><path fill-rule="evenodd" d="M4 9H3V8h1v1zm0-3H3v1h1V6zm0-2H3v1h1V4zm0-2H3v1h1V2zm8-1v12c0 .55-.45 1-1 1H6v2l-1.5-1.5L3 16v-2H1c-.55 0-1-.45-1-1V1c0-.55.45-1 1-1h10c.55 0 1 .45 1 1zm-1 10H1v2h2v-1h3v1h5v-2zm0-10H2v9h9V1z"/></svg> <svg height="16" width="16" class="octicon octicon-project flex-shrink-0 js-jump-to-octicon-project d-none" title="Project" aria-label="Project" viewBox="0 0 15 16" version="1.1" role="img"><path fill-rule="evenodd" d="M10 12h3V2h-3v10zm-4-2h3V2H6v8zm-4 4h3V2H2v12zm-1 1h13V1H1v14zM14 0H1a1 1 0 0 0-1 1v14a1 1 0 0 0 1 1h13a1 1 0 0 0 1-1V1a1 1 0 0 0-1-1z"/></svg> <svg height="16" width="16" class="octicon octicon-search flex-shrink-0 js-jump-to-octicon-search d-none" title="Search" aria-label="Search" viewBox="0 0 16 16" version="1.1" role="img"><path fill-rule="evenodd" d="M15.7 13.3l-3.81-3.83A5.93 5.93 0 0 0 13 6c0-3.31-2.69-6-6-6S1 2.69 1 6s2.69 6 6 6c1.3 0 2.48-.41 3.47-1.11l3.83 3.81c.19.2.45.3.7.3.25 0 .52-.09.7-.3a.996.996 0 0 0 0-1.41v.01zM7 10.7c-2.59 0-4.7-2.11-4.7-4.7 0-2.59 2.11-4.7 4.7-4.7 2.59 0 4.7 2.11 4.7 4.7 0 2.59-2.11 4.7-4.7 4.7z"/></svg> </div> <img class="avatar mr-2 flex-shrink-0 js-jump-to-suggestion-avatar d-none" alt="" aria-label="Team" src="" width="28" height="28"> <div class="jump-to-suggestion-name js-jump-to-suggestion-name flex-auto overflow-hidden text-left no-wrap css-truncate css-truncate-target"> </div> <div class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none js-jump-to-badge-search"> <span class="js-jump-to-badge-search-text-default d-none" aria-label="in this repository"> In this repository </span> <span class="js-jump-to-badge-search-text-global d-none" aria-label="in all of GitHub"> All GitHub </span> <span aria-hidden="true" class="d-inline-block ml-1 v-align-middle">↵</span> </div> <div aria-hidden="true" class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none d-on-nav-focus js-jump-to-badge-jump"> Jump to <span class="d-inline-block ml-1 v-align-middle">↵</span> </div> </a> </li> </ul> </div> </label> </form> </div> </div> </div> <a class="HeaderMenu-link no-underline mr-3" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"site header menu","repository_id":null,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="4f690ef143e2ef8459c43b1cbf0fd9a9eec10f2a80477c079b3de11e63ff5f09" data-ga-click="(Logged out) Header, clicked Sign in, text:sign-in" href="/login?return_to=%2Fjohnheap%2FVAPPER-Galaxy%2Fblob%2Fmaster%2FVAP.xml"> Sign in </a> <a class="HeaderMenu-link d-inline-block no-underline border border-gray-dark rounded-1 px-2 py-1" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"site header menu","repository_id":null,"auth_type":"SIGN_UP","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="ec8ff730fd1d25dbc45baf1260ca99d2d34f31dc8b2a02c77ee87f2053979769" data-ga-click="(Logged out) Header, clicked Sign up, text:sign-up" href="/join?source=header-repo"> Sign up </a> </div> </div> </div> </header> </div> <div id="start-of-content" class="show-on-focus"></div> <div id="js-flash-container"> </div> <div class="application-main " data-commit-hovercards-enabled> <div itemscope itemtype="http://schema.org/SoftwareSourceCode" class=""> <main > <div class="pagehead repohead instapaper_ignore readability-menu experiment-repo-nav pt-0 pt-lg-4 "> <div class="repohead-details-container clearfix container-lg p-responsive d-none d-lg-block"> <ul class="pagehead-actions"> <li> <a class="tooltipped tooltipped-s btn btn-sm btn-with-count" aria-label="You must be signed in to watch a repository" rel="nofollow" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"notification subscription menu watch","repository_id":null,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="8dddd512b2dc49dab945983d685c6b3a9c0a11f068b428bdc1c04fe9e2a97c91" href="/login?return_to=%2Fjohnheap%2FVAPPER-Galaxy"> <svg class="octicon octicon-eye v-align-text-bottom" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M8.06 2C3 2 0 8 0 8s3 6 8.06 6C13 14 16 8 16 8s-3-6-7.94-6zM8 12c-2.2 0-4-1.78-4-4 0-2.2 1.8-4 4-4 2.22 0 4 1.8 4 4 0 2.22-1.78 4-4 4zm2-4c0 1.11-.89 2-2 2-1.11 0-2-.89-2-2 0-1.11.89-2 2-2 1.11 0 2 .89 2 2z"/></svg> Watch </a> <a class="social-count" href="/johnheap/VAPPER-Galaxy/watchers" aria-label="0 users are watching this repository"> 0 </a> </li> <li> <a class="btn btn-sm btn-with-count tooltipped tooltipped-s" aria-label="You must be signed in to star a repository" rel="nofollow" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"star button","repository_id":139730674,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="72a01d4806b6274320d1e9ce8da13a74340551facd3b8a85a0f7605defdae929" href="/login?return_to=%2Fjohnheap%2FVAPPER-Galaxy"> <svg class="octicon octicon-star v-align-text-bottom" viewBox="0 0 14 16" version="1.1" width="14" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M14 6l-4.9-.64L7 1 4.9 5.36 0 6l3.6 3.26L2.67 14 7 11.67 11.33 14l-.93-4.74L14 6z"/></svg> Star </a> <a class="social-count js-social-count" href="/johnheap/VAPPER-Galaxy/stargazers" aria-label="0 users starred this repository"> 0 </a> </li> <li> <a class="btn btn-sm btn-with-count tooltipped tooltipped-s" aria-label="You must be signed in to fork a repository" rel="nofollow" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"repo details fork button","repository_id":139730674,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="e70b6eb4d48010787604c195f08e4eba21c63ea90296421d62200695d7172155" href="/login?return_to=%2Fjohnheap%2FVAPPER-Galaxy"> <svg class="octicon octicon-repo-forked v-align-text-bottom" viewBox="0 0 10 16" version="1.1" width="10" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M8 1a1.993 1.993 0 0 0-1 3.72V6L5 8 3 6V4.72A1.993 1.993 0 0 0 2 1a1.993 1.993 0 0 0-1 3.72V6.5l3 3v1.78A1.993 1.993 0 0 0 5 15a1.993 1.993 0 0 0 1-3.72V9.5l3-3V4.72A1.993 1.993 0 0 0 8 1zM2 4.2C1.34 4.2.8 3.65.8 3c0-.65.55-1.2 1.2-1.2.65 0 1.2.55 1.2 1.2 0 .65-.55 1.2-1.2 1.2zm3 10c-.66 0-1.2-.55-1.2-1.2 0-.65.55-1.2 1.2-1.2.65 0 1.2.55 1.2 1.2 0 .65-.55 1.2-1.2 1.2zm3-10c-.66 0-1.2-.55-1.2-1.2 0-.65.55-1.2 1.2-1.2.65 0 1.2.55 1.2 1.2 0 .65-.55 1.2-1.2 1.2z"/></svg> Fork </a> <a href="/johnheap/VAPPER-Galaxy/network/members" class="social-count" aria-label="0 users forked this repository"> 0 </a> </li> </ul> <h1 class="public "> <svg class="octicon octicon-repo" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M4 9H3V8h1v1zm0-3H3v1h1V6zm0-2H3v1h1V4zm0-2H3v1h1V2zm8-1v12c0 .55-.45 1-1 1H6v2l-1.5-1.5L3 16v-2H1c-.55 0-1-.45-1-1V1c0-.55.45-1 1-1h10c.55 0 1 .45 1 1zm-1 10H1v2h2v-1h3v1h5v-2zm0-10H2v9h9V1z"/></svg> <span class="author" itemprop="author"><a class="url fn" rel="author" data-hovercard-type="user" data-hovercard-url="/hovercards?user_id=24318980" data-octo-click="hovercard-link-click" data-octo-dimensions="link_type:self" href="/johnheap">johnheap</a></span><!-- --><span class="path-divider">/</span><!-- --><strong itemprop="name"><a data-pjax="#js-repo-pjax-container" href="/johnheap/VAPPER-Galaxy">VAPPER-Galaxy</a></strong> </h1> </div> <nav class="hx_reponav reponav js-repo-nav js-sidenav-container-pjax container-lg p-responsive d-none d-lg-block" itemscope itemtype="http://schema.org/BreadcrumbList" aria-label="Repository" data-pjax="#js-repo-pjax-container"> <span itemscope itemtype="http://schema.org/ListItem" itemprop="itemListElement"> <a class="js-selected-navigation-item selected reponav-item" itemprop="url" data-hotkey="g c" aria-current="page" data-selected-links="repo_source repo_downloads repo_commits repo_releases repo_tags repo_branches repo_packages /johnheap/VAPPER-Galaxy" href="/johnheap/VAPPER-Galaxy"> <svg class="octicon octicon-code" viewBox="0 0 14 16" version="1.1" width="14" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M9.5 3L8 4.5 11.5 8 8 11.5 9.5 13 14 8 9.5 3zm-5 0L0 8l4.5 5L6 11.5 2.5 8 6 4.5 4.5 3z"/></svg> <span itemprop="name">Code</span> <meta itemprop="position" content="1"> </a> </span> <span itemscope itemtype="http://schema.org/ListItem" itemprop="itemListElement"> <a itemprop="url" data-hotkey="g i" class="js-selected-navigation-item reponav-item" data-selected-links="repo_issues repo_labels repo_milestones /johnheap/VAPPER-Galaxy/issues" href="/johnheap/VAPPER-Galaxy/issues"> <svg class="octicon octicon-issue-opened" viewBox="0 0 14 16" version="1.1" width="14" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M7 2.3c3.14 0 5.7 2.56 5.7 5.7s-2.56 5.7-5.7 5.7A5.71 5.71 0 0 1 1.3 8c0-3.14 2.56-5.7 5.7-5.7zM7 1C3.14 1 0 4.14 0 8s3.14 7 7 7 7-3.14 7-7-3.14-7-7-7zm1 3H6v5h2V4zm0 6H6v2h2v-2z"/></svg> <span itemprop="name">Issues</span> <span class="Counter">0</span> <meta itemprop="position" content="2"> </a> </span> <span itemscope itemtype="http://schema.org/ListItem" itemprop="itemListElement"> <a data-hotkey="g p" itemprop="url" class="js-selected-navigation-item reponav-item" data-selected-links="repo_pulls checks /johnheap/VAPPER-Galaxy/pulls" href="/johnheap/VAPPER-Galaxy/pulls"> <svg class="octicon octicon-git-pull-request" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M11 11.28V5c-.03-.78-.34-1.47-.94-2.06C9.46 2.35 8.78 2.03 8 2H7V0L4 3l3 3V4h1c.27.02.48.11.69.31.21.2.3.42.31.69v6.28A1.993 1.993 0 0 0 10 15a1.993 1.993 0 0 0 1-3.72zm-1 2.92c-.66 0-1.2-.55-1.2-1.2 0-.65.55-1.2 1.2-1.2.65 0 1.2.55 1.2 1.2 0 .65-.55 1.2-1.2 1.2zM4 3c0-1.11-.89-2-2-2a1.993 1.993 0 0 0-1 3.72v6.56A1.993 1.993 0 0 0 2 15a1.993 1.993 0 0 0 1-3.72V4.72c.59-.34 1-.98 1-1.72zm-.8 10c0 .66-.55 1.2-1.2 1.2-.65 0-1.2-.55-1.2-1.2 0-.65.55-1.2 1.2-1.2.65 0 1.2.55 1.2 1.2zM2 4.2C1.34 4.2.8 3.65.8 3c0-.65.55-1.2 1.2-1.2.65 0 1.2.55 1.2 1.2 0 .65-.55 1.2-1.2 1.2z"/></svg> <span itemprop="name">Pull requests</span> <span class="Counter">0</span> <meta itemprop="position" content="3"> </a> </span> <a data-hotkey="g b" class="js-selected-navigation-item reponav-item" data-selected-links="repo_projects new_repo_project repo_project /johnheap/VAPPER-Galaxy/projects" href="/johnheap/VAPPER-Galaxy/projects"> <svg class="octicon octicon-project" viewBox="0 0 15 16" version="1.1" width="15" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M10 12h3V2h-3v10zm-4-2h3V2H6v8zm-4 4h3V2H2v12zm-1 1h13V1H1v14zM14 0H1a1 1 0 0 0-1 1v14a1 1 0 0 0 1 1h13a1 1 0 0 0 1-1V1a1 1 0 0 0-1-1z"/></svg> Projects <span class="Counter" >0</span> </a> <a data-skip-pjax="true" class="js-selected-navigation-item reponav-item" data-selected-links="security alerts policy /johnheap/VAPPER-Galaxy/security/advisories" href="/johnheap/VAPPER-Galaxy/security/advisories"> <svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 16 16" class="octicon" height="16px" width="16px"> <path fill-rule="evenodd" clip-rule="evenodd" d="M1 2l7-2 7 2v6.02C15 12.69 9.69 16 8 16c-1.69 0-7-3.31-7-7.98V2zm1 .75L8 1l6 1.75v5.268C14 12.104 9.45 15 8 15c-1.45 0-6-2.896-6-6.982V2.75z"></path> <path d="M3 3.5L8 2v12c-1.207 0-5-2.482-5-5.985V3.5z"></path> </svg> Security </a> <a class="js-selected-navigation-item reponav-item" data-selected-links="repo_graphs repo_contributors dependency_graph pulse people /johnheap/VAPPER-Galaxy/pulse" href="/johnheap/VAPPER-Galaxy/pulse"> <svg class="octicon octicon-graph" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M16 14v1H0V0h1v14h15zM5 13H3V8h2v5zm4 0H7V3h2v10zm4 0h-2V6h2v7z"/></svg> Insights </a> </nav> <div class="reponav-wrapper reponav-small d-lg-none"> <nav class="reponav js-reponav text-center no-wrap" itemscope itemtype="http://schema.org/BreadcrumbList"> <span itemscope itemtype="http://schema.org/ListItem" itemprop="itemListElement"> <a class="js-selected-navigation-item selected reponav-item" itemprop="url" aria-current="page" data-selected-links="repo_source repo_downloads repo_commits repo_releases repo_tags repo_branches repo_packages /johnheap/VAPPER-Galaxy" href="/johnheap/VAPPER-Galaxy"> <span itemprop="name">Code</span> <meta itemprop="position" content="1"> </a> </span> <span itemscope itemtype="http://schema.org/ListItem" itemprop="itemListElement"> <a itemprop="url" class="js-selected-navigation-item reponav-item" data-selected-links="repo_issues repo_labels repo_milestones /johnheap/VAPPER-Galaxy/issues" href="/johnheap/VAPPER-Galaxy/issues"> <span itemprop="name">Issues</span> <span class="Counter">0</span> <meta itemprop="position" content="2"> </a> </span> <span itemscope itemtype="http://schema.org/ListItem" itemprop="itemListElement"> <a itemprop="url" class="js-selected-navigation-item reponav-item" data-selected-links="repo_pulls checks /johnheap/VAPPER-Galaxy/pulls" href="/johnheap/VAPPER-Galaxy/pulls"> <span itemprop="name">Pull requests</span> <span class="Counter">0</span> <meta itemprop="position" content="3"> </a> </span> <span itemscope itemtype="http://schema.org/ListItem" itemprop="itemListElement"> <a itemprop="url" class="js-selected-navigation-item reponav-item" data-selected-links="repo_projects new_repo_project repo_project /johnheap/VAPPER-Galaxy/projects" href="/johnheap/VAPPER-Galaxy/projects"> <span itemprop="name">Projects</span> <span class="Counter">0</span> <meta itemprop="position" content="4"> </a> </span> <a itemprop="url" class="js-selected-navigation-item reponav-item" data-selected-links="security alerts policy /johnheap/VAPPER-Galaxy/security/advisories" href="/johnheap/VAPPER-Galaxy/security/advisories"> <span itemprop="name">Security</span> <meta itemprop="position" content="6"> </a> <a class="js-selected-navigation-item reponav-item" data-selected-links="pulse /johnheap/VAPPER-Galaxy/pulse" href="/johnheap/VAPPER-Galaxy/pulse"> Pulse </a> </nav> </div> </div> <div class="container-lg new-discussion-timeline experiment-repo-nav p-responsive"> <div class="repository-content "> <a class="d-none js-permalink-shortcut" data-hotkey="y" href="/johnheap/VAPPER-Galaxy/blob/a4e16d71fe985f389930c02f94354b87d3aabadb/VAP.xml">Permalink</a> <!-- blob contrib key: blob_contributors:v21:64bdde8feb3e7645238ea5539d2074bb --> <div class="signup-prompt-bg rounded-1"> <div class="signup-prompt p-4 text-center mb-4 rounded-1"> <div class="position-relative"> <!-- '"` --><!-- </textarea></xmp> --></option></form><form action="/prompt_dismissals/signup" accept-charset="UTF-8" method="post"><input name="utf8" type="hidden" value="✓" /><input type="hidden" name="_method" value="put" /><input type="hidden" name="authenticity_token" value="q9om/2TyzqF2pgXlVREYkgh5tEvhJNkWfH1iTplyvQs+RMw32vLsf41vcbcQ33yHX3Z4+hA5CZqLOvaAL1LQRA==" /> <button type="submit" class="position-absolute top-0 right-0 btn-link link-gray" data-ga-click="(Logged out) Sign up prompt, clicked Dismiss, text:dismiss"> Dismiss </button> </form> <h3 class="pt-2">Join GitHub today</h3> <p class="col-6 mx-auto">GitHub is home to over 36 million developers working together to host and review code, manage projects, and build software together.</p> <a class="btn btn-primary" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"files signup prompt","repository_id":null,"auth_type":"SIGN_UP","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="537bdf6bf43c4dc3bd254337f308e0d44d1960ce89fdb7d9e41832f46310cfd9" data-ga-click="(Logged out) Sign up prompt, clicked Sign up, text:sign-up" href="/join?source=prompt-blob-show">Sign up</a> </div> </div> </div> <div class="d-flex flex-items-start flex-shrink-0 mb-2 flex-column flex-md-row"> <span class="d-flex flex-justify-between width-full width-md-auto"> <details class="details-reset details-overlay select-menu branch-select-menu hx_rsm" id="branch-select-menu"> <summary class="btn btn-sm select-menu-button css-truncate" data-hotkey="w" title="Switch branches or tags"> <i>Branch:</i> <span class="css-truncate-target">master</span> </summary> <details-menu class="select-menu-modal hx_rsm-modal position-absolute" style="z-index: 99;" src="/johnheap/VAPPER-Galaxy/ref-list/master/VAP.xml?source_action=show&source_controller=blob" preload> <include-fragment class="select-menu-loading-overlay anim-pulse"> <svg height="32" class="octicon octicon-octoface" viewBox="0 0 16 16" version="1.1" width="32" aria-hidden="true"><path fill-rule="evenodd" d="M14.7 5.34c.13-.32.55-1.59-.13-3.31 0 0-1.05-.33-3.44 1.3-1-.28-2.07-.32-3.13-.32s-2.13.04-3.13.32c-2.39-1.64-3.44-1.3-3.44-1.3-.68 1.72-.26 2.99-.13 3.31C.49 6.21 0 7.33 0 8.69 0 13.84 3.33 15 7.98 15S16 13.84 16 8.69c0-1.36-.49-2.48-1.3-3.35zM8 14.02c-3.3 0-5.98-.15-5.98-3.35 0-.76.38-1.48 1.02-2.07 1.07-.98 2.9-.46 4.96-.46 2.07 0 3.88-.52 4.96.46.65.59 1.02 1.3 1.02 2.07 0 3.19-2.68 3.35-5.98 3.35zM5.49 9.01c-.66 0-1.2.8-1.2 1.78s.54 1.79 1.2 1.79c.66 0 1.2-.8 1.2-1.79s-.54-1.78-1.2-1.78zm5.02 0c-.66 0-1.2.79-1.2 1.78s.54 1.79 1.2 1.79c.66 0 1.2-.8 1.2-1.79s-.53-1.78-1.2-1.78z"/></svg> </include-fragment> </details-menu> </details> <div class="BtnGroup flex-shrink-0 d-md-none"> <a href="/johnheap/VAPPER-Galaxy/find/master" class="js-pjax-capture-input btn btn-sm BtnGroup-item" data-pjax data-hotkey="t"> Find file </a> <clipboard-copy value="VAP.xml" class="btn btn-sm BtnGroup-item"> Copy path </clipboard-copy> </div> </span> <h2 id="blob-path" class="breadcrumb flex-auto min-width-0 text-normal flex-md-self-center ml-md-2 mr-md-3 my-2 my-md-0"> <span class="js-repo-root text-bold"><span class="js-path-segment"><a data-pjax="true" href="/johnheap/VAPPER-Galaxy"><span>VAPPER-Galaxy</span></a></span></span><span class="separator">/</span><strong class="final-path">VAP.xml</strong> </h2> <div class="BtnGroup flex-shrink-0 d-none d-md-inline-block"> <a href="/johnheap/VAPPER-Galaxy/find/master" class="js-pjax-capture-input btn btn-sm BtnGroup-item" data-pjax data-hotkey="t"> Find file </a> <clipboard-copy value="VAP.xml" class="btn btn-sm BtnGroup-item"> Copy path </clipboard-copy> </div> </div> <include-fragment src="/johnheap/VAPPER-Galaxy/contributors/master/VAP.xml" class="Box Box--condensed commit-loader"> <div class="Box-body bg-blue-light f6"> Fetching contributors… </div> <div class="Box-body d-flex flex-items-center" > <img alt="" class="loader-loading mr-2" src="https://github.githubassets.com/images/spinners/octocat-spinner-32-EAF2F5.gif" width="16" height="16" /> <span class="text-red h6 loader-error">Cannot retrieve contributors at this time</span> </div> </include-fragment> <div class="Box mt-3 position-relative"> <div class="Box-header py-2 d-flex flex-column flex-shrink-0 flex-md-row flex-md-items-center"> <div class="text-mono f6 flex-auto pr-3 flex-order-2 flex-md-order-1 mt-2 mt-md-0"> 143 lines (135 sloc) <span class="file-info-divider"></span> 7.93 KB </div> <div class="d-flex py-1 py-md-0 flex-auto flex-order-1 flex-md-order-2 flex-sm-grow-0 flex-justify-between"> <div class="BtnGroup"> <a id="raw-url" class="btn btn-sm BtnGroup-item" href="/johnheap/VAPPER-Galaxy/raw/master/VAP.xml">Raw</a> <a class="btn btn-sm js-update-url-with-hash BtnGroup-item" data-hotkey="b" href="/johnheap/VAPPER-Galaxy/blame/master/VAP.xml">Blame</a> <a rel="nofollow" class="btn btn-sm BtnGroup-item" href="/johnheap/VAPPER-Galaxy/commits/master/VAP.xml">History</a> </div> <div> <button type="button" class="btn-octicon disabled tooltipped tooltipped-nw" aria-label="You must be signed in to make or propose changes"> <svg class="octicon octicon-pencil" viewBox="0 0 14 16" version="1.1" width="14" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M0 12v3h3l8-8-3-3-8 8zm3 2H1v-2h1v1h1v1zm10.3-9.3L12 6 9 3l1.3-1.3a.996.996 0 0 1 1.41 0l1.59 1.59c.39.39.39 1.02 0 1.41z"/></svg> </button> <button type="button" class="btn-octicon btn-octicon-danger disabled tooltipped tooltipped-nw" aria-label="You must be signed in to make or propose changes"> <svg class="octicon octicon-trashcan" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M11 2H9c0-.55-.45-1-1-1H5c-.55 0-1 .45-1 1H2c-.55 0-1 .45-1 1v1c0 .55.45 1 1 1v9c0 .55.45 1 1 1h7c.55 0 1-.45 1-1V5c.55 0 1-.45 1-1V3c0-.55-.45-1-1-1zm-1 12H3V5h1v8h1V5h1v8h1V5h1v8h1V5h1v9zm1-10H2V3h9v1z"/></svg> </button> </div> </div> </div> <div itemprop="text" class="Box-body p-0 blob-wrapper data type-xml "> <table class="highlight tab-size js-file-line-container" data-tab-size="8"> <tr> <td id="L1" class="blob-num js-line-number" data-line-number="1"></td> <td id="LC1" class="blob-code blob-code-inner js-file-line"><<span class="pl-ent">tool</span> <span class="pl-e">id</span>=<span class="pl-s"><span class="pl-pds">"</span>VAP<span class="pl-pds">"</span></span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>VAPPER<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>1.1.0<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L2" class="blob-num js-line-number" data-line-number="2"></td> <td id="LC2" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">description</span>>is a Variant Antigen Profiler that accurately quantifies the variant antigen diversity or presence in a Trypanosoma congolense or T.vivax isolate</<span class="pl-ent">description</span>></td> </tr> <tr> <td id="L3" class="blob-num js-line-number" data-line-number="3"></td> <td id="LC3" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirements</span>></td> </tr> <tr> <td id="L4" class="blob-num js-line-number" data-line-number="4"></td> <td id="LC4" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>1.2.10<span class="pl-pds">"</span></span>>velvet</<span class="pl-ent">requirement</span>></td> </tr> <tr> <td id="L5" class="blob-num js-line-number" data-line-number="5"></td> <td id="LC5" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>3.1b2<span class="pl-pds">"</span></span>>HMMER</<span class="pl-ent">requirement</span>></td> </tr> <tr> <td id="L6" class="blob-num js-line-number" data-line-number="6"></td> <td id="LC6" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>2.2.6<span class="pl-pds">"</span></span>>bowtie2</<span class="pl-ent">requirement</span>></td> </tr> <tr> <td id="L7" class="blob-num js-line-number" data-line-number="7"></td> <td id="LC7" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>1.6<span class="pl-pds">"</span></span>>samtools</<span class="pl-ent">requirement</span>></td> </tr> <tr> <td id="L8" class="blob-num js-line-number" data-line-number="8"></td> <td id="LC8" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>2.2.1<span class="pl-pds">"</span></span>>cufflinks</<span class="pl-ent">requirement</span>></td> </tr> <tr> <td id="L9" class="blob-num js-line-number" data-line-number="9"></td> <td id="LC9" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>2.7.1<span class="pl-pds">"</span></span>>blast</<span class="pl-ent">requirement</span>></td> </tr> <tr> <td id="L10" class="blob-num js-line-number" data-line-number="10"></td> <td id="LC10" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>6.6.0.0<span class="pl-pds">"</span></span>>EMBOSS</<span class="pl-ent">requirement</span>></td> </tr> <tr> <td id="L11" class="blob-num js-line-number" data-line-number="11"></td> <td id="LC11" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>0.8.0<span class="pl-pds">"</span></span>>seaborn</<span class="pl-ent">requirement</span>></td> </tr> <tr> <td id="L12" class="blob-num js-line-number" data-line-number="12"></td> <td id="LC12" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">requirements</span>></td> </tr> <tr> <td id="L13" class="blob-num js-line-number" data-line-number="13"></td> <td id="LC13" class="blob-code blob-code-inner js-file-line"> </td> </tr> <tr> <td id="L14" class="blob-num js-line-number" data-line-number="14"></td> <td id="LC14" class="blob-code blob-code-inner js-file-line"> </td> </tr> <tr> <td id="L15" class="blob-num js-line-number" data-line-number="15"></td> <td id="LC15" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">command</span> <span class="pl-e">interpreter</span>=<span class="pl-s"><span class="pl-pds">"</span>python<span class="pl-pds">"</span></span> <span class="pl-e">detect_errors</span>=<span class="pl-s"><span class="pl-pds">"</span>exit_code<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L16" class="blob-num js-line-number" data-line-number="16"></td> <td id="LC16" class="blob-code blob-code-inner js-file-line"> #if $TrypType.species == "Trypanosoma congolense":</td> </tr> <tr> <td id="L17" class="blob-num js-line-number" data-line-number="17"></td> <td id="LC17" class="blob-code blob-code-inner js-file-line"> #if $TrypType.GT.analysis == "Genomic":</td> </tr> <tr> <td id="L18" class="blob-num js-line-number" data-line-number="18"></td> <td id="LC18" class="blob-code blob-code-inner js-file-line"> #if $TrypType.GT.contigs.preassem == "Contig available":</td> </tr> <tr> <td id="L19" class="blob-num js-line-number" data-line-number="19"></td> <td id="LC19" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name:2, pdfexport:3, contigs:4, html_file:5, html_resource:6 <span class="pl-c">--></span></span></td> </tr> <tr> <td id="L20" class="blob-num js-line-number" data-line-number="20"></td> <td id="LC20" class="blob-code blob-code-inner js-file-line"> Vap.py g_contigs $xname $P $TrypType.GT.contigs.contig $html_file $html_file.extra_files_path</td> </tr> <tr> <td id="L21" class="blob-num js-line-number" data-line-number="21"></td> <td id="LC21" class="blob-code blob-code-inner js-file-line"> #else</td> </tr> <tr> <td id="L22" class="blob-num js-line-number" data-line-number="22"></td> <td id="LC22" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name = 2, pdfexport = 3, kmers = 4, inslen = 5, covcut = 6, forward = 7, reverse = 8, html_file = 9, html_resource = 10 <span class="pl-c">--></span></span></td> </tr> <tr> <td id="L23" class="blob-num js-line-number" data-line-number="23"></td> <td id="LC23" class="blob-code blob-code-inner js-file-line"> Vap.py g_assemble $xname $P $TrypType.GT.contigs.kmers $TrypType.GT.contigs.inslen $TrypType.GT.contigs.covcut $TrypType.GT.contigs.forward $TrypType.GT.contigs.reverse $html_file $html_file.extra_files_path</td> </tr> <tr> <td id="L24" class="blob-num js-line-number" data-line-number="24"></td> <td id="LC24" class="blob-code blob-code-inner js-file-line"> #end if</td> </tr> <tr> <td id="L25" class="blob-num js-line-number" data-line-number="25"></td> <td id="LC25" class="blob-code blob-code-inner js-file-line"> #else</td> </tr> <tr> <td id="L26" class="blob-num js-line-number" data-line-number="26"></td> <td id="LC26" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name:2, pdfexport:3, strain:4, forward:5, reverse:6, html_file:7, html_resource:8 <span class="pl-c">--></span></span></td> </tr> <tr> <td id="L27" class="blob-num js-line-number" data-line-number="27"></td> <td id="LC27" class="blob-code blob-code-inner js-file-line"> Vap.py transcipt $xname $P $TrypType.GT.strain $TrypType.GT.forward $TrypType.GT.reverse $html_file $html_file.extra_files_path</td> </tr> <tr> <td id="L28" class="blob-num js-line-number" data-line-number="28"></td> <td id="LC28" class="blob-code blob-code-inner js-file-line"> #end if</td> </tr> <tr> <td id="L29" class="blob-num js-line-number" data-line-number="29"></td> <td id="LC29" class="blob-code blob-code-inner js-file-line"> #else</td> </tr> <tr> <td id="L30" class="blob-num js-line-number" data-line-number="30"></td> <td id="LC30" class="blob-code blob-code-inner js-file-line"> #if $TrypType.GT.analysis == "Transcriptomic":</td> </tr> <tr> <td id="L31" class="blob-num js-line-number" data-line-number="31"></td> <td id="LC31" class="blob-code blob-code-inner js-file-line"> Vap.py v_transcript $xname $P $TrypType.GT.vtreference $TrypType.GT.forward $TrypType.GT.reverse $html_file $html_file.extra_files_path</td> </tr> <tr> <td id="L32" class="blob-num js-line-number" data-line-number="32"></td> <td id="LC32" class="blob-code blob-code-inner js-file-line"> #else</td> </tr> <tr> <td id="L33" class="blob-num js-line-number" data-line-number="33"></td> <td id="LC33" class="blob-code blob-code-inner js-file-line"> #if $TrypType.contigs.preassem == "Contig available":</td> </tr> <tr> <td id="L34" class="blob-num js-line-number" data-line-number="34"></td> <td id="LC34" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name:2, pdfexport:3, contigs:4, html_file:5, html_resource:6 <span class="pl-c">--></span></span></td> </tr> <tr> <td id="L35" class="blob-num js-line-number" data-line-number="35"></td> <td id="LC35" class="blob-code blob-code-inner js-file-line"> Vap.py v_contigs $xname $P $TrypType.contigs.contig $html_file $html_file.extra_files_path</td> </tr> <tr> <td id="L36" class="blob-num js-line-number" data-line-number="36"></td> <td id="LC36" class="blob-code blob-code-inner js-file-line"> #else</td> </tr> <tr> <td id="L37" class="blob-num js-line-number" data-line-number="37"></td> <td id="LC37" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name = 2, pdfexport = 3, kmers = 4, inslen = 5, covcut = 6, forward = 7, reverse = 8, html_file = 9, html_resource = 10 <span class="pl-c">--></span></span></td> </tr> <tr> <td id="L38" class="blob-num js-line-number" data-line-number="38"></td> <td id="LC38" class="blob-code blob-code-inner js-file-line"> Vap.py v_assemble $xname $P $TrypType.contigs.kmers $TrypType.contigs.inslen 0 $TrypType.contigs.forward $TrypType.contigs.reverse $html_file $html_file.extra_files_path</td> </tr> <tr> <td id="L39" class="blob-num js-line-number" data-line-number="39"></td> <td id="LC39" class="blob-code blob-code-inner js-file-line"> #end if</td> </tr> <tr> <td id="L40" class="blob-num js-line-number" data-line-number="40"></td> <td id="LC40" class="blob-code blob-code-inner js-file-line"> #end if </td> </tr> <tr> <td id="L41" class="blob-num js-line-number" data-line-number="41"></td> <td id="LC41" class="blob-code blob-code-inner js-file-line"> #end if</td> </tr> <tr> <td id="L42" class="blob-num js-line-number" data-line-number="42"></td> <td id="LC42" class="blob-code blob-code-inner js-file-line"> </td> </tr> <tr> <td id="L43" class="blob-num js-line-number" data-line-number="43"></td> <td id="LC43" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">command</span>></td> </tr> <tr> <td id="L44" class="blob-num js-line-number" data-line-number="44"></td> <td id="LC44" class="blob-code blob-code-inner js-file-line"> </td> </tr> <tr> <td id="L45" class="blob-num js-line-number" data-line-number="45"></td> <td id="LC45" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">inputs</span>></td> </tr> <tr> <td id="L46" class="blob-num js-line-number" data-line-number="46"></td> <td id="LC46" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>xname<span class="pl-pds">"</span></span> size = <span class="pl-s"><span class="pl-pds">"</span>30<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>text<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Test<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Prefix Name<span class="pl-pds">"</span></span> /></td> </tr> <tr> <td id="L47" class="blob-num js-line-number" data-line-number="47"></td> <td id="LC47" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>TrypType<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L48" class="blob-num js-line-number" data-line-number="48"></td> <td id="LC48" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>species<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">'</span>select<span class="pl-pds">'</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Select Species<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L49" class="blob-num js-line-number" data-line-number="49"></td> <td id="LC49" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Trypanosoma congolense<span class="pl-pds">"</span></span> <span class="pl-e">selected</span>=<span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L50" class="blob-num js-line-number" data-line-number="50"></td> <td id="LC50" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Trypanosoma vivax<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L51" class="blob-num js-line-number" data-line-number="51"></td> <td id="LC51" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L52" class="blob-num js-line-number" data-line-number="52"></td> <td id="LC52" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Trypanosoma congolense<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L53" class="blob-num js-line-number" data-line-number="53"></td> <td id="LC53" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>GT<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L54" class="blob-num js-line-number" data-line-number="54"></td> <td id="LC54" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>analysis<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Genomic or Transcriptomic Analysis?<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L55" class="blob-num js-line-number" data-line-number="55"></td> <td id="LC55" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span> selected = <span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L56" class="blob-num js-line-number" data-line-number="56"></td> <td id="LC56" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Transcriptomic<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L57" class="blob-num js-line-number" data-line-number="57"></td> <td id="LC57" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L58" class="blob-num js-line-number" data-line-number="58"></td> <td id="LC58" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L59" class="blob-num js-line-number" data-line-number="59"></td> <td id="LC59" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>contigs<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L60" class="blob-num js-line-number" data-line-number="60"></td> <td id="LC60" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>preassem<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Contig file available?<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L61" class="blob-num js-line-number" data-line-number="61"></td> <td id="LC61" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Full assembly<span class="pl-pds">"</span></span> selected = <span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L62" class="blob-num js-line-number" data-line-number="62"></td> <td id="LC62" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L63" class="blob-num js-line-number" data-line-number="63"></td> <td id="LC63" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L64" class="blob-num js-line-number" data-line-number="64"></td> <td id="LC64" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Full assembly<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L65" class="blob-num js-line-number" data-line-number="65"></td> <td id="LC65" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>kmers<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>65<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>31<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>99<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Specify kmers<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L66" class="blob-num js-line-number" data-line-number="66"></td> <td id="LC66" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>inslen<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>400<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>1<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>999<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Insert length<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L67" class="blob-num js-line-number" data-line-number="67"></td> <td id="LC67" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>covcut<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>5<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>1<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>999<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Coverage cut off<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L68" class="blob-num js-line-number" data-line-number="68"></td> <td id="LC68" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>forward<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Forward NGS Read File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L69" class="blob-num js-line-number" data-line-number="69"></td> <td id="LC69" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>reverse<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Reverse NGS Read File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L70" class="blob-num js-line-number" data-line-number="70"></td> <td id="LC70" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td> </tr> <tr> <td id="L71" class="blob-num js-line-number" data-line-number="71"></td> <td id="LC71" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L72" class="blob-num js-line-number" data-line-number="72"></td> <td id="LC72" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>contig<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fasta<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Contig file<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L73" class="blob-num js-line-number" data-line-number="73"></td> <td id="LC73" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td> </tr> <tr> <td id="L74" class="blob-num js-line-number" data-line-number="74"></td> <td id="LC74" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td> </tr> <tr> <td id="L75" class="blob-num js-line-number" data-line-number="75"></td> <td id="LC75" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td> </tr> <tr> <td id="L76" class="blob-num js-line-number" data-line-number="76"></td> <td id="LC76" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Transcriptomic<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L77" class="blob-num js-line-number" data-line-number="77"></td> <td id="LC77" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>strain<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Select Reference Strain<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L78" class="blob-num js-line-number" data-line-number="78"></td> <td id="LC78" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Tc148<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L79" class="blob-num js-line-number" data-line-number="79"></td> <td id="LC79" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>IL3000<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L80" class="blob-num js-line-number" data-line-number="80"></td> <td id="LC80" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L81" class="blob-num js-line-number" data-line-number="81"></td> <td id="LC81" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>forward<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Forward NGS Read File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L82" class="blob-num js-line-number" data-line-number="82"></td> <td id="LC82" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>reverse<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Reverse NGS Read File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L83" class="blob-num js-line-number" data-line-number="83"></td> <td id="LC83" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td> </tr> <tr> <td id="L84" class="blob-num js-line-number" data-line-number="84"></td> <td id="LC84" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td> </tr> <tr> <td id="L85" class="blob-num js-line-number" data-line-number="85"></td> <td id="LC85" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td> </tr> <tr> <td id="L86" class="blob-num js-line-number" data-line-number="86"></td> <td id="LC86" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>Trypanosoma vivax<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L87" class="blob-num js-line-number" data-line-number="87"></td> <td id="LC87" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>GT<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L88" class="blob-num js-line-number" data-line-number="88"></td> <td id="LC88" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>analysis<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Genomic or Transcriptomic Analysis?<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L89" class="blob-num js-line-number" data-line-number="89"></td> <td id="LC89" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span> selected = <span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L90" class="blob-num js-line-number" data-line-number="90"></td> <td id="LC90" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Transcriptomic<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L91" class="blob-num js-line-number" data-line-number="91"></td> <td id="LC91" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L92" class="blob-num js-line-number" data-line-number="92"></td> <td id="LC92" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L93" class="blob-num js-line-number" data-line-number="93"></td> <td id="LC93" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>contigs<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L94" class="blob-num js-line-number" data-line-number="94"></td> <td id="LC94" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>preassem<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Contig file available?<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L95" class="blob-num js-line-number" data-line-number="95"></td> <td id="LC95" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Full assembly<span class="pl-pds">"</span></span> selected = <span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L96" class="blob-num js-line-number" data-line-number="96"></td> <td id="LC96" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td> </tr> <tr> <td id="L97" class="blob-num js-line-number" data-line-number="97"></td> <td id="LC97" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L98" class="blob-num js-line-number" data-line-number="98"></td> <td id="LC98" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Full assembly<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L99" class="blob-num js-line-number" data-line-number="99"></td> <td id="LC99" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>kmers<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>65<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>31<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>99<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Specify kmers<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L100" class="blob-num js-line-number" data-line-number="100"></td> <td id="LC100" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>inslen<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>400<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>1<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>999<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Insert length<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td> </tr> <tr> <td id="L101" class="blob-num js-line-number" data-line-number="101"></td> <td id="LC101" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>forward<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Forward NGS Read File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L102" class="blob-num js-line-number" data-line-number="102"></td> <td id="LC102" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>reverse<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Reverse NGS Read File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L103" class="blob-num js-line-number" data-line-number="103"></td> <td id="LC103" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td> </tr> <tr> <td id="L104" class="blob-num js-line-number" data-line-number="104"></td> <td id="LC104" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L105" class="blob-num js-line-number" data-line-number="105"></td> <td id="LC105" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>contig<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fasta<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Contig file<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L106" class="blob-num js-line-number" data-line-number="106"></td> <td id="LC106" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td> </tr> <tr> <td id="L107" class="blob-num js-line-number" data-line-number="107"></td> <td id="LC107" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td> </tr> <tr> <td id="L108" class="blob-num js-line-number" data-line-number="108"></td> <td id="LC108" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>> </td> </tr> <tr> <td id="L109" class="blob-num js-line-number" data-line-number="109"></td> <td id="LC109" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Transcriptomic<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L110" class="blob-num js-line-number" data-line-number="110"></td> <td id="LC110" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>vtreference<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fasta<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Reference File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L111" class="blob-num js-line-number" data-line-number="111"></td> <td id="LC111" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>forward<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Forward NGS Read File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L112" class="blob-num js-line-number" data-line-number="112"></td> <td id="LC112" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>reverse<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Reverse NGS Read File<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L113" class="blob-num js-line-number" data-line-number="113"></td> <td id="LC113" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td> </tr> <tr> <td id="L114" class="blob-num js-line-number" data-line-number="114"></td> <td id="LC114" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td> </tr> <tr> <td id="L115" class="blob-num js-line-number" data-line-number="115"></td> <td id="LC115" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>> </td> </tr> <tr> <td id="L116" class="blob-num js-line-number" data-line-number="116"></td> <td id="LC116" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td> </tr> <tr> <td id="L117" class="blob-num js-line-number" data-line-number="117"></td> <td id="LC117" class="blob-code blob-code-inner js-file-line"> </td> </tr> <tr> <td id="L118" class="blob-num js-line-number" data-line-number="118"></td> <td id="LC118" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>P<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>boolean<span class="pl-pds">"</span></span> <span class="pl-e">truevalue</span>=<span class="pl-s"><span class="pl-pds">'</span>PDF_Yes<span class="pl-pds">'</span></span> <span class="pl-e">falsevalue</span>=<span class="pl-s"><span class="pl-pds">'</span>PDF_No<span class="pl-pds">'</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Export PDF of figures<span class="pl-pds">"</span></span> /></td> </tr> <tr> <td id="L119" class="blob-num js-line-number" data-line-number="119"></td> <td id="LC119" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">inputs</span>></td> </tr> <tr> <td id="L120" class="blob-num js-line-number" data-line-number="120"></td> <td id="LC120" class="blob-code blob-code-inner js-file-line"> </td> </tr> <tr> <td id="L121" class="blob-num js-line-number" data-line-number="121"></td> <td id="LC121" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">outputs</span>></td> </tr> <tr> <td id="L122" class="blob-num js-line-number" data-line-number="122"></td> <td id="LC122" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">data</span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>html<span class="pl-pds">"</span></span> name = <span class="pl-s"><span class="pl-pds">"</span>html_file<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>${xname.value}_html<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L123" class="blob-num js-line-number" data-line-number="123"></td> <td id="LC123" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">outputs</span>></td> </tr> <tr> <td id="L124" class="blob-num js-line-number" data-line-number="124"></td> <td id="LC124" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">tests</span>></td> </tr> <tr> <td id="L125" class="blob-num js-line-number" data-line-number="125"></td> <td id="LC125" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">test</span>></td> </tr> <tr> <td id="L126" class="blob-num js-line-number" data-line-number="126"></td> <td id="LC126" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>xname<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Test<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L127" class="blob-num js-line-number" data-line-number="127"></td> <td id="LC127" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>TrypType<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L128" class="blob-num js-line-number" data-line-number="128"></td> <td id="LC128" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>species<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Trypanosoma congolense<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L129" class="blob-num js-line-number" data-line-number="129"></td> <td id="LC129" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td> </tr> <tr> <td id="L130" class="blob-num js-line-number" data-line-number="130"></td> <td id="LC130" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>GT<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L131" class="blob-num js-line-number" data-line-number="131"></td> <td id="LC131" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>analysis<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L132" class="blob-num js-line-number" data-line-number="132"></td> <td id="LC132" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td> </tr> <tr> <td id="L133" class="blob-num js-line-number" data-line-number="133"></td> <td id="LC133" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>contigs<span class="pl-pds">"</span></span>></td> </tr> <tr> <td id="L134" class="blob-num js-line-number" data-line-number="134"></td> <td id="LC134" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>preassem<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L135" class="blob-num js-line-number" data-line-number="135"></td> <td id="LC135" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>contig<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Test.fa<span class="pl-pds">"</span></span>/></td> </tr> <tr> <td id="L136" class="blob-num js-line-number" data-line-number="136"></td> <td id="LC136" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td> </tr> <tr> <td id="L137" class="blob-num js-line-number" data-line-number="137"></td> <td id="LC137" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>P<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">'</span>PDF_No<span class="pl-pds">'</span></span>/></td> </tr> <tr> <td id="L138" class="blob-num js-line-number" data-line-number="138"></td> <td id="LC138" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">output</span> name = <span class="pl-s"><span class="pl-pds">"</span>html_file<span class="pl-pds">"</span></span> file = <span class="pl-s"><span class="pl-pds">'</span>Test_html<span class="pl-pds">'</span></span> ftype = <span class="pl-s"><span class="pl-pds">'</span>html<span class="pl-pds">'</span></span>/></td> </tr> <tr> <td id="L139" class="blob-num js-line-number" data-line-number="139"></td> <td id="LC139" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">test</span>></td> </tr> <tr> <td id="L140" class="blob-num js-line-number" data-line-number="140"></td> <td id="LC140" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">tests</span>></td> </tr> <tr> <td id="L141" class="blob-num js-line-number" data-line-number="141"></td> <td id="LC141" class="blob-code blob-code-inner js-file-line"></<span class="pl-ent">tool</span>></td> </tr> <tr> <td id="L142" class="blob-num js-line-number" data-line-number="142"></td> <td id="LC142" class="blob-code blob-code-inner js-file-line"> </td> </tr> </table> <details class="details-reset details-overlay BlobToolbar position-absolute js-file-line-actions dropdown d-none" aria-hidden="true"> <summary class="btn-octicon ml-0 px-2 p-0 bg-white border border-gray-dark rounded-1" aria-label="Inline file action toolbar"> <svg class="octicon octicon-kebab-horizontal" viewBox="0 0 13 16" version="1.1" width="13" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M1.5 9a1.5 1.5 0 1 0 0-3 1.5 1.5 0 0 0 0 3zm5 0a1.5 1.5 0 1 0 0-3 1.5 1.5 0 0 0 0 3zM13 7.5a1.5 1.5 0 1 1-3 0 1.5 1.5 0 0 1 3 0z"/></svg> </summary> <details-menu> <ul class="BlobToolbar-dropdown dropdown-menu dropdown-menu-se mt-2" style="width:185px"> <li><clipboard-copy role="menuitem" class="dropdown-item" id="js-copy-lines" style="cursor:pointer;" data-original-text="Copy lines">Copy lines</clipboard-copy></li> <li><clipboard-copy role="menuitem" class="dropdown-item" id="js-copy-permalink" style="cursor:pointer;" data-original-text="Copy permalink">Copy permalink</clipboard-copy></li> <li><a class="dropdown-item js-update-url-with-hash" id="js-view-git-blame" role="menuitem" href="/johnheap/VAPPER-Galaxy/blame/a4e16d71fe985f389930c02f94354b87d3aabadb/VAP.xml">View git blame</a></li> <li><a class="dropdown-item" id="js-new-issue" role="menuitem" href="/johnheap/VAPPER-Galaxy/issues/new">Reference in new issue</a></li> </ul> </details-menu> </details> </div> </div> <details class="details-reset details-overlay details-overlay-dark"> <summary data-hotkey="l" aria-label="Jump to line"></summary> <details-dialog class="Box Box--overlay d-flex flex-column anim-fade-in fast linejump" aria-label="Jump to line"> <!-- '"` --><!-- </textarea></xmp> --></option></form><form class="js-jump-to-line-form Box-body d-flex" action="" accept-charset="UTF-8" method="get"><input name="utf8" type="hidden" value="✓" /> <input class="form-control flex-auto mr-3 linejump-input js-jump-to-line-field" type="text" placeholder="Jump to line…" aria-label="Jump to line" autofocus> <button type="submit" class="btn" data-close-dialog>Go</button> </form> </details-dialog> </details> </div> <div class="modal-backdrop js-touch-events"></div> </div> </main> </div> </div> <div class="footer container-lg width-full p-responsive" role="contentinfo"> <div class="position-relative d-flex flex-row-reverse flex-lg-row flex-wrap flex-lg-nowrap flex-justify-center flex-lg-justify-between pt-6 pb-2 mt-6 f6 text-gray border-top border-gray-light "> <ul class="list-style-none d-flex flex-wrap col-12 col-lg-5 flex-justify-center flex-lg-justify-between mb-2 mb-lg-0"> <li class="mr-3 mr-lg-0">© 2019 <span title="1.77313s from unicorn-7478f9985c-h7jrf">GitHub</span>, Inc.</li> <li class="mr-3 mr-lg-0"><a data-ga-click="Footer, go to terms, text:terms" href="https://github.com/site/terms">Terms</a></li> <li class="mr-3 mr-lg-0"><a data-ga-click="Footer, go to privacy, text:privacy" href="https://github.com/site/privacy">Privacy</a></li> <li class="mr-3 mr-lg-0"><a data-ga-click="Footer, go to security, text:security" href="https://github.com/security">Security</a></li> <li class="mr-3 mr-lg-0"><a href="https://githubstatus.com/" data-ga-click="Footer, go to status, text:status">Status</a></li> <li><a data-ga-click="Footer, go to help, text:help" href="https://help.github.com">Help</a></li> </ul> <a aria-label="Homepage" title="GitHub" class="footer-octicon d-none d-lg-block mx-lg-4" href="https://github.com"> <svg height="24" class="octicon octicon-mark-github" viewBox="0 0 16 16" version="1.1" width="24" aria-hidden="true"><path fill-rule="evenodd" d="M8 0C3.58 0 0 3.58 0 8c0 3.54 2.29 6.53 5.47 7.59.4.07.55-.17.55-.38 0-.19-.01-.82-.01-1.49-2.01.37-2.53-.49-2.69-.94-.09-.23-.48-.94-.82-1.13-.28-.15-.68-.52-.01-.53.63-.01 1.08.58 1.23.82.72 1.21 1.87.87 2.33.66.07-.52.28-.87.51-1.07-1.78-.2-3.64-.89-3.64-3.95 0-.87.31-1.59.82-2.15-.08-.2-.36-1.02.08-2.12 0 0 .67-.21 2.2.82.64-.18 1.32-.27 2-.27.68 0 1.36.09 2 .27 1.53-1.04 2.2-.82 2.2-.82.44 1.1.16 1.92.08 2.12.51.56.82 1.27.82 2.15 0 3.07-1.87 3.75-3.65 3.95.29.25.54.73.54 1.48 0 1.07-.01 1.93-.01 2.2 0 .21.15.46.55.38A8.013 8.013 0 0 0 16 8c0-4.42-3.58-8-8-8z"/></svg> </a> <ul class="list-style-none d-flex flex-wrap col-12 col-lg-5 flex-justify-center flex-lg-justify-between mb-2 mb-lg-0"> <li class="mr-3 mr-lg-0"><a data-ga-click="Footer, go to contact, text:contact" href="https://github.com/contact">Contact GitHub</a></li> <li class="mr-3 mr-lg-0"><a href="https://github.com/pricing" data-ga-click="Footer, go to Pricing, text:Pricing">Pricing</a></li> <li class="mr-3 mr-lg-0"><a href="https://developer.github.com" data-ga-click="Footer, go to api, text:api">API</a></li> <li class="mr-3 mr-lg-0"><a href="https://training.github.com" data-ga-click="Footer, go to training, text:training">Training</a></li> <li class="mr-3 mr-lg-0"><a href="https://github.blog" data-ga-click="Footer, go to blog, text:blog">Blog</a></li> <li><a data-ga-click="Footer, go to about, text:about" href="https://github.com/about">About</a></li> </ul> </div> <div class="d-flex flex-justify-center pb-6"> <span class="f6 text-gray-light"></span> </div> </div> <div id="ajax-error-message" class="ajax-error-message flash flash-error"> <svg class="octicon octicon-alert" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M8.893 1.5c-.183-.31-.52-.5-.887-.5s-.703.19-.886.5L.138 13.499a.98.98 0 0 0 0 1.001c.193.31.53.501.886.501h13.964c.367 0 .704-.19.877-.5a1.03 1.03 0 0 0 .01-1.002L8.893 1.5zm.133 11.497H6.987v-2.003h2.039v2.003zm0-3.004H6.987V5.987h2.039v4.006z"/></svg> <button type="button" class="flash-close js-ajax-error-dismiss" aria-label="Dismiss error"> <svg class="octicon octicon-x" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M7.48 8l3.75 3.75-1.48 1.48L6 9.48l-3.75 3.75-1.48-1.48L4.52 8 .77 4.25l1.48-1.48L6 6.52l3.75-3.75 1.48 1.48L7.48 8z"/></svg> </button> You can’t perform that action at this time. </div> <script crossorigin="anonymous" integrity="sha512-EPrD+nddbyhpiLL8l3M8VfJpZr4J2EWQLaPXZ+6A3VDJKzS5HeZ3dkMVieHSdvIPHsMbWPyVlY42SWKoS4XTfA==" type="application/javascript" src="https://github.githubassets.com/assets/compat-bootstrap-831f12d4.js"></script> <script crossorigin="anonymous" integrity="sha512-oFBEYscCdWEyvUQehaYyaCSiKtIN4UvpfFHNpIXLUTSQ35JcacPNj86R8fgJfI1e7BOjbLZPTv1nJg3TECiMLw==" type="application/javascript" src="https://github.githubassets.com/assets/frameworks-7af24171.js"></script> <script crossorigin="anonymous" async="async" integrity="sha512-b9BDH7EZq1yaR2fUH08I378zVkToScLiQ//L0gdyPviliuwpWiVFkB8uW0K8zZszdeLeBpib7wGBLkPiIFgyHg==" type="application/javascript" src="https://github.githubassets.com/assets/github-bootstrap-2a8c2b54.js"></script> <div class="js-stale-session-flash stale-session-flash flash flash-warn flash-banner" hidden > <svg class="octicon octicon-alert" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M8.893 1.5c-.183-.31-.52-.5-.887-.5s-.703.19-.886.5L.138 13.499a.98.98 0 0 0 0 1.001c.193.31.53.501.886.501h13.964c.367 0 .704-.19.877-.5a1.03 1.03 0 0 0 .01-1.002L8.893 1.5zm.133 11.497H6.987v-2.003h2.039v2.003zm0-3.004H6.987V5.987h2.039v4.006z"/></svg> <span class="signed-in-tab-flash">You signed in with another tab or window. <a href="">Reload</a> to refresh your session.</span> <span class="signed-out-tab-flash">You signed out in another tab or window. <a href="">Reload</a> to refresh your session.</span> </div> <template id="site-details-dialog"> <details class="details-reset details-overlay details-overlay-dark lh-default text-gray-dark hx_rsm" open> <summary role="button" aria-label="Close dialog"></summary> <details-dialog class="Box Box--overlay d-flex flex-column anim-fade-in fast hx_rsm-dialog hx_rsm-modal"> <button class="Box-btn-octicon m-0 btn-octicon position-absolute right-0 top-0" type="button" aria-label="Close dialog" data-close-dialog> <svg class="octicon octicon-x" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M7.48 8l3.75 3.75-1.48 1.48L6 9.48l-3.75 3.75-1.48-1.48L4.52 8 .77 4.25l1.48-1.48L6 6.52l3.75-3.75 1.48 1.48L7.48 8z"/></svg> </button> <div class="octocat-spinner my-6 js-details-dialog-spinner"></div> </details-dialog> </details> </template> <div class="Popover js-hovercard-content position-absolute" style="display: none; outline: none;" tabindex="0"> <div class="Popover-message Popover-message--bottom-left Popover-message--large Box box-shadow-large" style="width:360px;"> </div> </div> <div aria-live="polite" class="js-global-screen-reader-notice sr-only"></div> </body> </html>