Mercurial > repos > metaboflow_cam > masspix
view massPix @ 0:dada1f17021d draft
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| author | metaboflow_cam |
|---|---|
| date | Tue, 24 Sep 2019 04:37:32 -0400 |
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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 href="/login?return_to=%2Fwanchanglin%2FmassPix" 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":"SIGN_UP","client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="78dc3d66e2250d5b1fb8a15796f75869985451efd2ec5b3068f22621a3f36126" data-ga-click="(Logged out) Header, clicked Sign in, text:sign-in"> Sign in </a> <a href="/join" 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":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="78dc3d66e2250d5b1fb8a15796f75869985451efd2ec5b3068f22621a3f36126" data-ga-click="(Logged out) Header, clicked Sign up, text:sign-up"> 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 id="js-repo-pjax-container" data-pjax-container > <div class="pagehead repohead instapaper_ignore readability-menu experiment-repo-nav "> <div class="repohead-details-container clearfix container"> <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":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="2a2cc8ac5c3a47d5efb118fd2229e2c564f056fca2f64c8500f376a6cfc8aa9e" href="/login?return_to=%2Fwanchanglin%2FmassPix"> <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="/wanchanglin/massPix/watchers" aria-label="1 user is watching this repository"> 1 </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":130720555,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="bf75e8a52a801cdd2a78ddc997be2628ebad5df799ee28ac50506e14f473c125" href="/login?return_to=%2Fwanchanglin%2FmassPix"> <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="/wanchanglin/massPix/stargazers" aria-label="1 user starred this repository"> 1 </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":130720555,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="90a72edb9da6cd7dcd5e49c2353a13f11e1fc58ff9cb886a009676f27b5764cf" href="/login?return_to=%2Fwanchanglin%2FmassPix"> <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="/wanchanglin/massPix/network/members" class="social-count" aria-label="1 user forked this repository"> 1 </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=17029420" data-octo-click="hovercard-link-click" data-octo-dimensions="link_type:self" href="/wanchanglin">wanchanglin</a></span><!-- --><span class="path-divider">/</span><!-- --><strong itemprop="name"><a data-pjax="#js-repo-pjax-container" href="/wanchanglin/massPix">massPix</a></strong> </h1> </div> <nav class="hx_reponav reponav js-repo-nav 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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">1</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 /wanchanglin/massPix/projects" href="/wanchanglin/massPix/projects"> <svg class="octicon octicon-project" viewBox="0 0 15 16" version="1.1" width="15" 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0 0 0 1 1.72v6.56c-.59.35-1 .99-1 1.72 0 1.11.89 2 2 2 1.11 0 2-.89 2-2 0-.53-.2-1-.53-1.36.09-.06.48-.41.59-.47.25-.11.56-.17.94-.17 1.05-.05 1.95-.45 2.75-1.25S8.95 7.77 9 6.73h-.02C9.59 6.37 10 5.73 10 5zM2 1.8c.66 0 1.2.55 1.2 1.2 0 .65-.55 1.2-1.2 1.2C1.35 4.2.8 3.65.8 3c0-.65.55-1.2 1.2-1.2zm0 12.41c-.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 1.2zm6-8c-.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> <span class="num text-emphasized"> 1 </span> branch </a> </li> <li> <a href="/wanchanglin/massPix/releases"> <svg class="octicon octicon-tag" viewBox="0 0 14 16" version="1.1" width="14" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M7.73 1.73C7.26 1.26 6.62 1 5.96 1H3.5C2.13 1 1 2.13 1 3.5v2.47c0 .66.27 1.3.73 1.77l6.06 6.06c.39.39 1.02.39 1.41 0l4.59-4.59a.996.996 0 0 0 0-1.41L7.73 1.73zM2.38 7.09c-.31-.3-.47-.7-.47-1.13V3.5c0-.88.72-1.59 1.59-1.59h2.47c.42 0 .83.16 1.13.47l6.14 6.13-4.73 4.73-6.13-6.15zM3.01 3h2v2H3V3h.01z"/></svg> <span class="num text-emphasized"> 0 </span> releases </a> </li> <li > <include-fragment src="/wanchanglin/massPix/contributors_size"> <a href="/wanchanglin/massPix/graphs/contributors"> <svg class="octicon octicon-organization" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M16 12.999c0 .439-.45 1-1 1H7.995c-.539 0-.994-.447-.995-.999H1c-.54 0-1-.561-1-1 0-2.634 3-4 3-4s.229-.409 0-1c-.841-.621-1.058-.59-1-3 .058-2.419 1.367-3 2.5-3s2.442.58 2.5 3c.058 2.41-.159 2.379-1 3-.229.59 0 1 0 1s1.549.711 2.42 2.088C9.196 9.369 10 8.999 10 8.999s.229-.409 0-1c-.841-.62-1.058-.59-1-3 .058-2.419 1.367-3 2.5-3s2.437.581 2.495 3c.059 2.41-.158 2.38-1 3-.229.59 0 1 0 1s3.005 1.366 3.005 4z"/></svg> <span class="num text-emphasized"></span> Fetching contributors </a> </include-fragment> </li> </ul> </div> <details class="details-reset"> <summary title="Click for language details" data-ga-click="Repository, language bar stats toggle, location:repo overview"> <div class="d-flex repository-lang-stats-graph"> <span class="language-color" aria-label="R 96.7%" style="width:96.7%; background-color:#198CE7;" itemprop="keywords">R</span> <span class="language-color" aria-label="Shell 2.4%" style="width:2.4%; background-color:#89e051;" itemprop="keywords">Shell</span> <span class="language-color" aria-label="Batchfile 0.9%" style="width:0.9%; background-color:#C1F12E;" itemprop="keywords">Batchfile</span> </div> </summary> <div class="repository-lang-stats"> <ol class="repository-lang-stats-numbers"> <li> <a href="/wanchanglin/massPix/search?l=r" data-ga-click="Repository, language stats search click, location:repo overview"> <span class="color-block language-color" style="background-color:#198CE7;"></span> <span class="lang">R</span> <span class="percent">96.7%</span> </a> </li> <li> <a href="/wanchanglin/massPix/search?l=shell" data-ga-click="Repository, language stats 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disabled tooltipped tooltipped-n new-pull-request-btn" aria-label="You must be signed in to create a pull request"> New pull request </button> <div class="breadcrumb flex-auto"> </div> <div class="BtnGroup"> <a class="btn btn-sm empty-icon float-right BtnGroup-item" data-hydro-click="{"event_type":"repository.click","payload":{"target":"FIND_FILE_BUTTON","repository_id":130720555,"client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="ba4ce1d5c183c78a5b34cb34e674842d226f69f5f049ec71c529ba0c1436ff29" data-ga-click="Repository, find file, location:repo overview" data-hotkey="t" data-pjax="true" href="/wanchanglin/massPix/find/master">Find File</a> </div> <details class="get-repo-select-menu js-get-repo-select-menu js-anon-get-repo-select-menu position-relative details-overlay details-reset"> <summary class="btn btn-sm ml-2 btn-primary" data-hydro-click="{"event_type":"repository.click","payload":{"repository_id":130720555,"target":"CLONE_OR_DOWNLOAD_BUTTON","client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="feb178daf028d561781fdecb728675adb64eed2f972f057d3baf0c7428fc2459"> Clone or download <span class="dropdown-caret"></span> </summary> <div class="position-relative"> <div class="get-repo-modal dropdown-menu dropdown-menu-sw pb-0 js-toggler-container js-get-repo-modal"> <div class="get-repo-modal-options"> <div class="clone-options https-clone-options"> <h4 class="mb-1"> Clone with HTTPS <a class="muted-link" href="https://help.github.com/articles/which-remote-url-should-i-use" target="_blank" title="Which remote URL should I use?"> <svg class="octicon octicon-question" viewBox="0 0 14 16" version="1.1" width="14" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M6 10h2v2H6v-2zm4-3.5C10 8.64 8 9 8 9H6c0-.55.45-1 1-1h.5c.28 0 .5-.22.5-.5v-1c0-.28-.22-.5-.5-.5h-1c-.28 0-.5.22-.5.5V7H4c0-1.5 1.5-3 3-3s3 1 3 2.5zM7 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 7-7-3.14-7-7-7z"/></svg> </a> </h4> <p class="mb-2 get-repo-decription-text"> Use Git or checkout with SVN using the web URL. </p> <div class="input-group"> <input type="text" class="form-control input-monospace input-sm" data-autoselect value="https://github.com/wanchanglin/massPix.git" aria-label="Clone this repository at https://github.com/wanchanglin/massPix.git" readonly> <div class="input-group-button"> <clipboard-copy value="https://github.com/wanchanglin/massPix.git" aria-label="Copy to clipboard" class="btn btn-sm" data-hydro-click="{"event_type":"clone_or_download.click","payload":{"feature_clicked":"COPY_URL","git_repository_type":"REPOSITORY","repository_id":130720555,"client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="eeb1e5fb5bf43e2f259105b0b223aa0596d3a1a1063ca7ee217b34cddac8b312"><svg class="octicon octicon-clippy" viewBox="0 0 14 16" version="1.1" width="14" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M2 13h4v1H2v-1zm5-6H2v1h5V7zm2 3V8l-3 3 3 3v-2h5v-2H9zM4.5 9H2v1h2.5V9zM2 12h2.5v-1H2v1zm9 1h1v2c-.02.28-.11.52-.3.7-.19.18-.42.28-.7.3H1c-.55 0-1-.45-1-1V4c0-.55.45-1 1-1h3c0-1.11.89-2 2-2 1.11 0 2 .89 2 2h3c.55 0 1 .45 1 1v5h-1V6H1v9h10v-2zM2 5h8c0-.55-.45-1-1-1H8c-.55 0-1-.45-1-1s-.45-1-1-1-1 .45-1 1-.45 1-1 1H3c-.55 0-1 .45-1 1z"/></svg></clipboard-copy> </div> </div> </div> <div class="mt-2"> <a class="btn btn-outline get-repo-btn js-anon-download-zip-link " rel="nofollow" data-hydro-click="{"event_type":"clone_or_download.click","payload":{"feature_clicked":"DOWNLOAD_ZIP","git_repository_type":"REPOSITORY","repository_id":130720555,"client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="a664684912fc9b6edd29db06e430548810a0c88a903c1e92383c91031f0b5cf0" data-ga-click="Repository, download zip, location:repo overview" href="/wanchanglin/massPix/archive/master.zip">Download ZIP</a> </div> </div> <div class="js-modal-downloading" hidden> <div class="py-2 px-3"> <h4 class="lh-condensed mb-3">Downloading<span class="animated-ellipsis-container"><span class="animated-ellipsis">...</span></span></h4> <p class="text-gray"> Want to be notified of new releases in <span class="text-bold">wanchanglin/massPix</span>? </p> </div> <div class="width-full d-flex"> <a rel="nofollow" class="get-repo-btn btn btn-outline" style="width: 50%" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"download popover","repository_id":130720555,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="6915548b44b0d7108a8bf9e7cb47da859e5648e7707a4064f856e68eb6c381a3" href="/login?return_to=https%3A%2F%2Fgithub.com%2Fwanchanglin%2FmassPix">Sign in</a> <a rel="nofollow" class="get-repo-btn btn btn-primary" style="width: 50%" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"download popover","repository_id":130720555,"auth_type":"SIGN_UP","client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="0a82bcfc1b7171272fec225a6f8f34d65d0086bc596c8fca3b5bfac2f51f5e81" href="/join?return_to=%2Fwanchanglin%2FmassPix">Sign up</a> </div> </div> <div class="js-modal-download-mac py-2 px-3 d-none"> <h4 class="lh-condensed mb-3">Launching GitHub Desktop<span class="animated-ellipsis-container"><span class="animated-ellipsis">...</span></span></h4> <p class="text-gray">If nothing happens, <a href="https://desktop.github.com/">download GitHub Desktop</a> and try again.</p> <p><button class="btn-link js-get-repo-modal-download-back">Go back</button></p> </div> <div class="js-modal-download-windows py-2 px-3 d-none"> <h4 class="lh-condensed mb-3">Launching GitHub Desktop<span class="animated-ellipsis-container"><span class="animated-ellipsis">...</span></span></h4> <p class="text-gray">If nothing happens, <a href="https://desktop.github.com/">download GitHub Desktop</a> and try again.</p> <p><button class="btn-link js-get-repo-modal-download-back">Go back</button></p> </div> <div class="js-modal-download-xcode py-2 px-3 d-none"> <h4 class="lh-condensed mb-3">Launching Xcode<span class="animated-ellipsis-container"><span class="animated-ellipsis">...</span></span></h4> <p class="text-gray">If nothing happens, <a href="https://developer.apple.com/xcode/">download Xcode</a> and try again.</p> <p><button class="btn-link js-get-repo-modal-download-back">Go back</button></p> </div> <div class="js-modal-download-visual-studio py-2 px-3 d-none"> <h4 class="lh-condensed mb-3">Launching Visual Studio<span class="animated-ellipsis-container"><span class="animated-ellipsis">...</span></span></h4> <p class="text-gray">If nothing happens, <a href="https://visualstudio.github.com/">download the GitHub extension for Visual Studio</a> and try again.</p> <p><button class="btn-link js-get-repo-modal-download-back">Go back</button></p> </div> </div> </div> </details> </div> <div class="commit-tease js-details-container Details d-flex rounded-top-1" 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2019</time-ago></span> </td> </tr> </tbody> </table> </div> <div id="readme" class="Box Box--condensed instapaper_body md js-code-block-container"> <div class="Box-header d-flex flex-items-center flex-justify-between px-2"> <h3 class="Box-title pr-3"> <svg class="octicon octicon-book" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M3 5h4v1H3V5zm0 3h4V7H3v1zm0 2h4V9H3v1zm11-5h-4v1h4V5zm0 2h-4v1h4V7zm0 2h-4v1h4V9zm2-6v9c0 .55-.45 1-1 1H9.5l-1 1-1-1H2c-.55 0-1-.45-1-1V3c0-.55.45-1 1-1h5.5l1 1 1-1H15c.55 0 1 .45 1 1zm-8 .5L7.5 3H2v9h6V3.5zm7-.5H9.5l-.5.5V12h6V3z"/></svg> README.md </h3> </div> <div class="Popover anim-scale-in js-tagsearch-popover" hidden data-tagsearch-url="/wanchanglin/massPix/find-symbols" data-tagsearch-ref="master" data-tagsearch-path="README.md" data-tagsearch-lang="Markdown" data-hydro-click="{"event_type":"code_navigation.click_on_symbol","payload":{"action":"click_on_symbol","repository_id":130720555,"ref":"master","client_id":null,"originating_request_id":"DF32:5384:1AA2DF:2A8C80:5D89D5CB","originating_url":"https://github.com/wanchanglin/massPix","referrer":null,"user_id":null}}" data-hydro-click-hmac="8b89d0ac0be2d48315ec5869bd8dc1ef8a2c56cbab12115c96f40b3fbe18a79f"> <div class="Popover-message Popover-message--large Popover-message--top-left TagsearchPopover mt-1 mb-4 mx-auto Box box-shadow-large"> <div class="TagsearchPopover-content js-tagsearch-popover-content overflow-auto" style="will-change:transform;"> </div> </div> </div> <div class="Box-body"> <article class="markdown-body entry-content p-5" itemprop="text"><h1><a id="user-content-masspix-for-galaxy" class="anchor" aria-hidden="true" href="#masspix-for-galaxy"><svg class="octicon octicon-link" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M4 9h1v1H4c-1.5 0-3-1.69-3-3.5S2.55 3 4 3h4c1.45 0 3 1.69 3 3.5 0 1.41-.91 2.72-2 3.25V8.59c.58-.45 1-1.27 1-2.09C10 5.22 8.98 4 8 4H4c-.98 0-2 1.22-2 2.5S3 9 4 9zm9-3h-1v1h1c1 0 2 1.22 2 2.5S13.98 12 13 12H9c-.98 0-2-1.22-2-2.5 0-.83.42-1.64 1-2.09V6.25c-1.09.53-2 1.84-2 3.25C6 11.31 7.55 13 9 13h4c1.45 0 3-1.69 3-3.5S14.5 6 13 6z"></path></svg></a>massPix for Galaxy</h1> <p>This is Galaxy tool for R package <code>massPix</code> which processes high resolution mass spectrometry imaging data, performs multivariate statistics (PCA, clustering) and lipid identification. For details, see <a href="https://github.com/hallz/massPix">R package massPix</a> and <a href="https://link.springer.com/article/10.1007%2Fs11306-017-1252-5" rel="nofollow">Metabolomics publication</a>.</p> <h2><a id="user-content-installation" class="anchor" aria-hidden="true" href="#installation"><svg class="octicon octicon-link" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M4 9h1v1H4c-1.5 0-3-1.69-3-3.5S2.55 3 4 3h4c1.45 0 3 1.69 3 3.5 0 1.41-.91 2.72-2 3.25V8.59c.58-.45 1-1.27 1-2.09C10 5.22 8.98 4 8 4H4c-.98 0-2 1.22-2 2.5S3 9 4 9zm9-3h-1v1h1c1 0 2 1.22 2 2.5S13.98 12 13 12H9c-.98 0-2-1.22-2-2.5 0-.83.42-1.64 1-2.09V6.25c-1.09.53-2 1.84-2 3.25C6 11.31 7.55 13 9 13h4c1.45 0 3-1.69 3-3.5S14.5 6 13 6z"></path></svg></a>Installation</h2> <ul> <li> <p>Install <a href="https://github.com/galaxyproject/galaxy">Galaxy</a> under Linux.</p> </li> <li> <p>Install <a href="https://docs.conda.io/en/latest/miniconda.html" rel="nofollow">conda</a> under Linux. <code>conda</code> is used to install <code>requirements</code> of this tool.</p> </li> <li> <p>Use <code>git</code> to clone this tool</p> <div class="highlight highlight-source-shell"><pre>git clone https://github.com/wanchanglin/massPix.git</pre></div> </li> <li> <p>Add this tool's location into Galaxy' tool config file: <code>~/Galaxy/config/tool_conf.xml</code>. For example, one simplified <code>tool_conf.xml</code> looks like:</p> <div class="highlight highlight-text-xml"><pre><?<span class="pl-ent">xml</span><span class="pl-e"> version</span>=<span class="pl-s"><span class="pl-pds">'</span>1.0<span class="pl-pds">'</span></span><span class="pl-e"> encoding</span>=<span class="pl-s"><span class="pl-pds">'</span>utf-8<span class="pl-pds">'</span></span>?> <<span class="pl-ent">toolbox</span> <span class="pl-e">monitor</span>=<span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>> <<span class="pl-ent">section</span> <span class="pl-e">id</span>=<span class="pl-s"><span class="pl-pds">"</span>getext<span class="pl-pds">"</span></span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>Get Data<span class="pl-pds">"</span></span>> <<span class="pl-ent">tool</span> <span class="pl-e">file</span>=<span class="pl-s"><span class="pl-pds">"</span>data_source/upload.xml<span class="pl-pds">"</span></span> /> </<span class="pl-ent">section</span>> <<span class="pl-ent">section</span> <span class="pl-e">id</span>=<span class="pl-s"><span class="pl-pds">"</span>MyTools<span class="pl-pds">"</span></span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>My Tools<span class="pl-pds">"</span></span>> <<span class="pl-ent">tool</span> <span class="pl-e">file</span>=<span class="pl-s"><span class="pl-pds">"</span>/path/to/massPix/massPix.xml<span class="pl-pds">"</span></span> /> </<span class="pl-ent">section</span>> </<span class="pl-ent">toolbox</span>></pre></div> </li> <li> <p>The Galaxy tool uses <a href="https://cran.r-project.org/" rel="nofollow">R</a> packages <code>optparse</code>, <code>WriteXLS</code>, <code>calibrate</code> and <code>rJava</code>. This tool embeds a modified <code>massPix</code> package for Galaxy only.</p> </li> <li> <p>To test the tool, use data inside <code>test-data</code> or download test data (.ibd and .imzML files) from the <a href="https://www.ebi.ac.uk/metabolights/" rel="nofollow">MetaboLights</a> repository accession number <a href="https://www.ebi.ac.uk/metabolights/MTBLS487" rel="nofollow">MTBLS487</a>.</p> </li> </ul> <h2><a id="user-content-authors-contributors--contacts" class="anchor" aria-hidden="true" href="#authors-contributors--contacts"><svg class="octicon octicon-link" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M4 9h1v1H4c-1.5 0-3-1.69-3-3.5S2.55 3 4 3h4c1.45 0 3 1.69 3 3.5 0 1.41-.91 2.72-2 3.25V8.59c.58-.45 1-1.27 1-2.09C10 5.22 8.98 4 8 4H4c-.98 0-2 1.22-2 2.5S3 9 4 9zm9-3h-1v1h1c1 0 2 1.22 2 2.5S13.98 12 13 12H9c-.98 0-2-1.22-2-2.5 0-.83.42-1.64 1-2.09V6.25c-1.09.53-2 1.84-2 3.25C6 11.31 7.55 13 9 13h4c1.45 0 3-1.69 3-3.5S14.5 6 13 6z"></path></svg></a>Authors, contributors & contacts</h2> <ul> <li>Wanchang Lin (<a href="mailto:wl361@cam.ac.uk">wl361@cam.ac.uk</a>), University of Cambridge</li> <li>Zoe Hall (<a href="mailto:zlh22@cam.ac.uk">zlh22@cam.ac.uk</a>), University of Cambridge</li> <li>Julian L Griffin (<a href="mailto:jlg40@cam.ac.uk">jlg40@cam.ac.uk</a>), University of Cambridge</li> </ul> </article> </div> </div> </div> </div> </main> </div> </div> <div class="footer container-lg width-full px-3" role="contentinfo"> <div class="position-relative d-flex flex-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 "> <li class="mr-3">© 2019 <span title="0.20557s from unicorn-b574c664f-phstc">GitHub</span>, Inc.</li> <li class="mr-3"><a data-ga-click="Footer, go to terms, text:terms" href="https://github.com/site/terms">Terms</a></li> <li class="mr-3"><a data-ga-click="Footer, go to privacy, text:privacy" 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