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Diffstat (limited to 'qc_app/templates/index.html')
| -rw-r--r-- | qc_app/templates/index.html | 214 |
1 files changed, 113 insertions, 101 deletions
diff --git a/qc_app/templates/index.html b/qc_app/templates/index.html index 06d1e87..0d301f5 100644 --- a/qc_app/templates/index.html +++ b/qc_app/templates/index.html @@ -5,118 +5,130 @@ {%block title%}Data Upload{%endblock%} {%block contents%} -<h1 class="heading">data upload</h1> - -<div class="explainer"> - <p>Each of the sections below gives you a different option for data upload. - Please read the documentation for each section carefully to understand what - each section is about.</p> +<div class="row"> + <h1 class="heading">data upload</h1> + + <div class="explainer"> + <p>Each of the sections below gives you a different option for data upload. + Please read the documentation for each section carefully to understand what + each section is about.</p> + </div> </div> -<h2 class="heading">R/qtl2 Bundles</h2> - -<div class="explainer"> - <p>This feature combines and extends the two upload methods below. Instead of - uploading one item at a time, the R/qtl2 bundle you upload can contain both - the genotypes data (samples/individuals/cases and their data) and the - expression data.</p> - <p>The R/qtl2 bundle, additionally, can contain extra metadata, that neither - of the methods below can handle.</p> - - <a href={{url_for("upload.rqtl2.select_species")}} - title="Upload a zip bundle of R/qtl2 files"> - <button class="btn btn-primary">upload R/qtl2 bundle</button></a> +<div class="row"> + <h2 class="heading">R/qtl2 Bundles</h2> + + <div class="explainer"> + <p>This feature combines and extends the two upload methods below. Instead of + uploading one item at a time, the R/qtl2 bundle you upload can contain both + the genotypes data (samples/individuals/cases and their data) and the + expression data.</p> + <p>The R/qtl2 bundle, additionally, can contain extra metadata, that neither + of the methods below can handle.</p> + + <a href={{url_for("upload.rqtl2.select_species")}} + title="Upload a zip bundle of R/qtl2 files"> + <button class="btn btn-primary">upload R/qtl2 bundle</button></a> + </div> </div> -<h2 class="heading">Expression Data</h2> - -<div class="explainer"> - <p>This feature enables you to upload expression data. It expects the data to - be in <strong>tab-separated values (TSV)</strong> files. The data should be - a simple matrix of <em>phenotype × sample</em>, i.e. The first column is a - list of the <em>phenotypes</em> and the first row is a list of - <em>samples/cases</em>.</p> - - <p>If you haven't done so please go to this page to learn the requirements for - file formats and helpful suggestions to enter your data in a fast and easy - way.</p> - - <ol> - <li><strong>PLEASE REVIEW YOUR DATA.</strong>Make sure your data complies - with our system requirements. ( - <a href="{{url_for('entry.data_review')}}#data-concerns" - title="Details for the data expectations.">Help</a> - )</li> - <li><strong>UPLOAD YOUR DATA FOR DATA VERIFICATION.</strong> We accept - <strong>.csv</strong>, <strong>.txt</strong> and <strong>.zip</strong> - files (<a href="{{url_for('entry.data_review')}}#file-types" - title="Details for the data expectations.">Help</a>)</li> - </ol> -</div> -<form action="{{url_for('entry.upload_file')}}" - method="POST" - enctype="multipart/form-data" - id="frm-upload-expression-data"> - <legend class="heading">upload expression data</legend> - {{flash_messages("error-expr-data")}} - - <fieldset> - <label for="select_species01">Species</label> - <select id="select_species01" - name="speciesid" - required="required"> - <option value="">Select species</option> - {%for aspecies in species%} - <option value="{{aspecies.SpeciesId}}">{{aspecies.MenuName}}</option> - {%endfor%} - </select> - </fieldset> - - <fieldset> - <legend>file type</legend> - - <input type="radio" name="filetype" value="average" id="filetype_average" - required="required" class="form-col-1" /> - <label for="filetype_average" class="form-col-2">average</label> - - <input type="radio" name="filetype" value="standard-error" - id="filetype_standard_error" required="required" - class="form-col-1" /> - <label for="filetype_standard_error" class="form-col-2"> - standard error - </label> - </fieldset> - - <fieldset> - <span id="no-file-error" class="alert-danger" style="display: none;"> - No file selected - </span> - <label for="file_upload" class="form-col-1">select file</label> - <input type="file" name="qc_text_file" id="file_upload" - accept="text/plain, text/tab-separated-values, application/zip" - class="form-col-2"/> - </fieldset> - - <fieldset> - <input type="submit" value="upload file" class="btn btn-primary form-col-2" /> - </fieldset> +<div class="row"> + <h2 class="heading">Expression Data</h2> + + <div class="explainer"> + <p>This feature enables you to upload expression data. It expects the data to + be in <strong>tab-separated values (TSV)</strong> files. The data should be + a simple matrix of <em>phenotype × sample</em>, i.e. The first column is a + list of the <em>phenotypes</em> and the first row is a list of + <em>samples/cases</em>.</p> + + <p>If you haven't done so please go to this page to learn the requirements for + file formats and helpful suggestions to enter your data in a fast and easy + way.</p> + + <ol> + <li><strong>PLEASE REVIEW YOUR DATA.</strong>Make sure your data complies + with our system requirements. ( + <a href="{{url_for('entry.data_review')}}#data-concerns" + title="Details for the data expectations.">Help</a> + )</li> + <li><strong>UPLOAD YOUR DATA FOR DATA VERIFICATION.</strong> We accept + <strong>.csv</strong>, <strong>.txt</strong> and <strong>.zip</strong> + files (<a href="{{url_for('entry.data_review')}}#file-types" + title="Details for the data expectations.">Help</a>)</li> + </ol> + </div> + + <form action="{{url_for('entry.upload_file')}}" + method="POST" + enctype="multipart/form-data" + id="frm-upload-expression-data"> + <legend class="heading">upload expression data</legend> + {{flash_messages("error-expr-data")}} + + <div class="form-group"> + <label for="select_species01" class="form-label">Species</label> + <select id="select_species01" + name="speciesid" + required="required" + class="form-control"> + <option value="">Select species</option> + {%for aspecies in species%} + <option value="{{aspecies.SpeciesId}}">{{aspecies.MenuName}}</option> + {%endfor%} + </select> + </div> + + <div class="form-group"> + <legend class="heading">file type</legend> + + <div class="form-check"> + <input type="radio" name="filetype" value="average" id="filetype_average" + required="required" class="form-check-input" /> + <label for="filetype_average" class="form-check-label">average</label> + </div> + + <div class="form-check"> + <input type="radio" name="filetype" value="standard-error" + id="filetype_standard_error" required="required" + class="form-check-input" /> + <label for="filetype_standard_error" class="form-check-label"> + standard error + </label> + </div> + </div> + + <div class="form-group"> + <span id="no-file-error" class="alert-danger" style="display: none;"> + No file selected + </span> + <label for="file_upload" class="form-label">select file</label> + <input type="file" name="qc_text_file" id="file_upload" + accept="text/plain, text/tab-separated-values, application/zip" + class="form-control"/> + </div> + + <button type="submit" class="btn btn-primary" />upload file</button> </form> {{upload_progress_indicator()}} +</div> -<h2 class="heading">samples/cases</h2> +<div class="row"> + <h2 class="heading">samples/cases</h2> -<div class="explainer"> - <p>For the expression data above, you need the samples/cases in your file to - already exist in the GeneNetwork database. If there are any samples that do - not already exist the upload of the expression data will fail.</p> - <p>This section gives you the opportunity to upload any missing samples</p> -</div> + <div class="explainer"> + <p>For the expression data above, you need the samples/cases in your file to + already exist in the GeneNetwork database. If there are any samples that do + not already exist the upload of the expression data will fail.</p> + <p>This section gives you the opportunity to upload any missing samples</p> + </div> -<a href={{url_for("samples.select_species")}} - title="Upload samples/cases/individuals for your data"> - upload Samples/Cases</a> + <a href={{url_for("samples.select_species")}} + title="Upload samples/cases/individuals for your data" + class="btn btn-primary">upload Samples/Cases</a> +</div> {%endblock%} |