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Diffstat (limited to 'uploader/templates/rqtl2/upload-rqtl2-bundle-step-01.html')
| -rw-r--r-- | uploader/templates/rqtl2/upload-rqtl2-bundle-step-01.html | 276 |
1 files changed, 0 insertions, 276 deletions
diff --git a/uploader/templates/rqtl2/upload-rqtl2-bundle-step-01.html b/uploader/templates/rqtl2/upload-rqtl2-bundle-step-01.html deleted file mode 100644 index 9d45c5f..0000000 --- a/uploader/templates/rqtl2/upload-rqtl2-bundle-step-01.html +++ /dev/null @@ -1,276 +0,0 @@ -{%extends "base.html"%} -{%from "flash_messages.html" import flash_all_messages%} -{%from "upload_progress_indicator.html" import upload_progress_indicator%} - -{%block title%}Upload R/qtl2 Bundle{%endblock%} - -{%block contents%} -{%macro rqtl2_file_help()%} -<span class="form-text text-muted"> - <p> - Provide a valid R/qtl2 zip file here. In particular, ensure your zip bundle - contains exactly one control file and the corresponding files mentioned in - the control file. - </p> - <p> - The control file can be either a YAML or JSON file. <em>ALL</em> other data - files in the zip bundle should be CSV files. - </p> - <p>See the - <a href="https://kbroman.org/qtl2/assets/vignettes/input_files.html" - target="_blank"> - R/qtl2 file format specifications - </a> - for more details. - </p> -</span> -{%endmacro%} -{{upload_progress_indicator()}} - -<div id="resumable-file-display-template" - class="panel panel-info" - style="display: none"> - <div class="panel-heading"></div> - <div class="panel-body"></div> -</div> - - -<h2 class="heading">Upload R/qtl2 Bundle</h2> - -<div id="resumable-drop-area" - style="display:none;background:#eeeeee;min-height:12em;border-radius:0.5em;padding:1em;"> - <p> - <a id="resumable-browse-button" href="#" - class="btn btn-info">Browse</a> - </p> - <p class="form-text text-muted"> - You can drag and drop your file here, or click the browse button. - Click on the file to remove it. - </p> - {{rqtl2_file_help()}} - <div id="resumable-selected-files" - style="display:flex;flex-direction:row;flex-wrap: wrap;justify-content:space-around;gap:10px 20px;"></div> - <div id="resumable-class-buttons" style="text-align: right;"> - <button id="resumable-upload-button" - class="btn btn-primary" - style="display: none">start upload</button> - <button id="resumable-cancel-upload-button" - class="btn btn-danger" - style="display: none">cancel upload</button> - </div> - <div id="resumable-progress-bar" class="progress" style="display: none"> - <div class="progress-bar" - role="progress-bar" - aria-valuenow="60" - aria-valuemin="0" - aria-valuemax="100" - style="width: 0%;"> - Uploading: 60% - </div> - </div> -</div> - -<form id="frm-upload-rqtl2-bundle" - action="{{url_for('expression-data.rqtl2.upload_rqtl2_bundle', - species_id=species.SpeciesId, - population_id=population.InbredSetId)}}" - method="POST" - enctype="multipart/form-data" - data-resumable-target="{{url_for( - 'expression-data.rqtl2.upload_rqtl2_bundle_chunked_post', - species_id=species.SpeciesId, - population_id=population.InbredSetId)}}"> - <input type="hidden" name="species_id" value="{{species.SpeciesId}}" /> - <input type="hidden" name="population_id" - value="{{population.InbredSetId}}" /> - - {{flash_all_messages()}} - - <div class="form-group"> - <legend class="heading">file upload</legend> - <label for="file-rqtl2-bundle" class="form-label">R/qtl2 bundle</label> - <input type="file" id="file-rqtl2-bundle" name="rqtl2_bundle_file" - accept="application/zip, .zip" - required="required" - class="form-control" /> - {{rqtl2_file_help()}} - </div> - - <button type="submit" - class="btn btn-primary" - data-toggle="modal" - data-target="#upload-progress-indicator">upload R/qtl2 bundle</button> -</form> - -{%endblock%} - -{%block javascript%} -<script src="{{url_for('base.node_modules', - filename='resumablejs/resumable.js')}}"></script> -<script type="text/javascript" src="/static/js/upload_progress.js"></script> -<script type="text/javascript"> - function readBinaryFile(file) { - return new Promise((resolve, reject) => { - var _reader = new FileReader(); - _reader.onload = (event) => {resolve(_reader.result);}; - _reader.readAsArrayBuffer(file); - }); - } - - function computeFileChecksum(file) { - return readBinaryFile(file) - .then((content) => { - return window.crypto.subtle.digest( - "SHA-256", new Uint8Array(content)); - }).then((digest) => { - return Uint8ArrayToHex(new Uint8Array(digest)) - }); - } - - function Uint8ArrayToHex(arr) { - var toHex = (val) => { - _hex = val.toString(16); - if(_hex.length < 2) { - return "0" + val; - } - return _hex; - }; - _hexstr = "" - arr.forEach((val) => {_hexstr += toHex(val)}); - return _hexstr - } - - var r = Resumable({ - target: $("#frm-upload-rqtl2-bundle").attr("data-resumable-target"), - fileType: ["zip"], - maxFiles: 1, - forceChunkSize: true, - generateUniqueIdentifier: (file, event) => { - return computeFileChecksum(file).then((checksum) => { - var _relativePath = (file.webkitRelativePath - || file.relativePath - || file.fileName - || file.name); - return checksum + "-" + _relativePath.replace( - /[^a-zA-Z0-9_-]/img, ""); - }); - } - }); - - if(r.support) { - //Hide form and display drag&drop UI - $("#frm-upload-rqtl2-bundle").css("display", "none"); - $("#resumable-drop-area").css("display", "block"); - - // Define UI elements for browse and drag&drop - r.assignDrop(document.getElementById("resumable-drop-area")); - r.assignBrowse(document.getElementById("resumable-browse-button")); - - // Event handlers - - function display_files(files) { - displayArea = $("#resumable-selected-files") - displayArea.empty(); - files.forEach((file) => { - var displayElement = $( - "#resumable-file-display-template").clone(); - displayElement.removeAttr("id"); - displayElement.css("display", ""); - displayElement.find(".panel-heading").text(file.fileName); - list = $("<ul></ul>"); - list.append($("<li><strong>Name</strong>: " - + (file.name - || file.fileName - || file.relativePath - || file.webkitRelativePath) - + "</li>")); - list.append($("<li><strong>Size</strong>: " - + (file.size / (1024*1024)).toFixed(2) - + " MB</li>")); - list.append($("<li><strong>Unique Identifier</strong>: " - + file.uniqueIdentifier + "</li>")); - list.append($("<li><strong>Mime</strong>: " - + file.file.type - + "</li>")); - displayElement.find(".panel-body").append(list); - displayElement.appendTo("#resumable-selected-files"); - }); - } - - r.on("filesAdded", function(files) { - display_files(files); - $("#resumable-upload-button").css("display", ""); - $("#resumable-upload-button").on("click", (event) => { - r.upload(); - }); - }); - - r.on("uploadStart", (event) => { - $("#resumable-upload-button").css("display", "none"); - $("#resumable-cancel-upload-button").css("display", ""); - $("#resumable-cancel-upload-button").on("click", (event) => { - r.files.forEach((file) => { - if(file.isUploading()) { - file.abort(); - } - }); - $("#resumable-cancel-upload-button").css("display", "none"); - $("#resumable-upload-button").on("click", (event) => { - r.files.forEach((file) => {file.retry();}); - }); - $("#resumable-upload-button").css("display", ""); - }); - }); - - r.on("progress", () => { - var progress = (r.progress() * 100).toFixed(2); - var pbar = $("#resumable-progress-bar > .progress-bar"); - $("#resumable-progress-bar").css("display", ""); - pbar.css("width", progress+"%"); - pbar.attr("aria-valuenow", progress); - pbar.text("Uploading: " + progress + "%"); - }) - - r.on("fileSuccess", (file, message) => { - if(message != "OK") { - var uri = (window.location.protocol - + "//" - + window.location.host - + message); - window.location.replace(uri); - } - }); - - r.on("error", (message, file) => { - filename = (file.webkitRelativePath - || file.relativePath - || file.fileName - || file.name); - jsonmsg = JSON.parse(message); - alert("There was an error while uploading your file '" - + filename - + "'. The error message was:\n\n\t" - + jsonmsg.error - + " (" - + jsonmsg.statuscode - + "): " + jsonmsg.message); - }) - } else { - setup_upload_handlers( - "frm-upload-rqtl2-bundle", make_data_uploader( - function (form) { - var formdata = new FormData(); - formdata.append( - "species_id", - form.querySelector('input[name="species_id"]').value); - formdata.append( - "population_id", - form.querySelector('input[name="population_id"]').value); - formdata.append( - "rqtl2_bundle_file", - form.querySelector("#file-rqtl2-bundle").files[0]); - return formdata; - })); - } -</script> -{%endblock%} |