Mercurial > repos > lz_hust > gatktools
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| author | lz_hust |
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| date | Sat, 01 Jun 2019 07:03:27 -0400 |
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data-hydro-click="{"event_type":"repository.click","payload":{"target":"FIND_FILE_BUTTON","repository_id":189599350,"client_id":null,"originating_request_id":"9296:3F63:B1FBFC:1321364:5CF25B7F","originating_url":"https://github.com/huster16/gatk-tools","referrer":null,"user_id":null}}" data-hydro-click-hmac="2202b3ffe5544f8163f8b93af3713fc7029c4f471879a84fe8f338309f52faab" data-ga-click="Repository, find file, location:repo overview" data-hotkey="t" data-pjax="true" href="/huster16/gatk-tools/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":189599350,"target":"CLONE_OR_DOWNLOAD_BUTTON","client_id":null,"originating_request_id":"9296:3F63:B1FBFC:1321364:5CF25B7F","originating_url":"https://github.com/huster16/gatk-tools","referrer":null,"user_id":null}}" data-hydro-click-hmac="4525d521fa4701080dc4256fee3f654f20406206ba9f433f0e4d0b3ce8e26964"> 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/huster16/gatk-tools.git" aria-label="Clone this repository at https://github.com/huster16/gatk-tools.git" readonly> <div class="input-group-button"> <clipboard-copy value="https://github.com/huster16/gatk-tools.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":189599350,"client_id":null,"originating_request_id":"9296:3F63:B1FBFC:1321364:5CF25B7F","originating_url":"https://github.com/huster16/gatk-tools","referrer":null,"user_id":null}}" data-hydro-click-hmac="11678c39c42eee5608601cea62776722ddc19e672194910a3f7e339e0c1dd6e6"><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":189599350,"client_id":null,"originating_request_id":"9296:3F63:B1FBFC:1321364:5CF25B7F","originating_url":"https://github.com/huster16/gatk-tools","referrer":null,"user_id":null}}" data-hydro-click-hmac="f38afae5eed2525a512560364e73cf9629a62f093e6936acc841e643eb1f6dc8" data-ga-click="Repository, download zip, location:repo overview" href="/huster16/gatk-tools/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">huster16/gatk-tools</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":189599350,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"9296:3F63:B1FBFC:1321364:5CF25B7F","originating_url":"https://github.com/huster16/gatk-tools","referrer":null,"user_id":null}}" data-hydro-click-hmac="cb61463cc7655c64c1c248161ce77d7b3d3c314ea70146f402f8c7d75b0680e3" href="/login?return_to=https%3A%2F%2Fgithub.com%2Fhuster16%2Fgatk-tools">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":189599350,"auth_type":"SIGN_UP","client_id":null,"originating_request_id":"9296:3F63:B1FBFC:1321364:5CF25B7F","originating_url":"https://github.com/huster16/gatk-tools","referrer":null,"user_id":null}}" data-hydro-click-hmac="4de2cd77e5bd2d2867a7b2d5a861644713963b0a7cf6f57303dd2946291b114e" href="/join?return_to=%2Fhuster16%2Fgatk-tools">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> 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<div class="plain"><pre style="white-space: pre-wrap">Installation note: A GATK license needs to be obtained separately from the Broad Institute (<a href="https://www.broadinstitute.org/gatk/" rel="nofollow">https://www.broadinstitute.org/gatk/</a>) to be able to use this tool. Once the license is obtained, the GATK Jar file must then be downloaded and moved to /mnt/galaxy/tools/GATK/x.x-x on the server. Substitute the appropriate version number in the file path. Be sure to download the correct version of the Jar file for the toolshed version installed. </pre></div> </div> </div> </div> <div class="modal-backdrop js-touch-events"></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="0.27328s from unicorn-68fcf5fc59-q8f8h">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" href="https://github.com/site/privacy">Privacy</a></li> <li class="mr-3"><a data-ga-click="Footer, go to security, text:security" href="https://github.com/security">Security</a></li> <li class="mr-3"><a href="https://githubstatus.com/" data-ga-click="Footer, go to 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