Rename module: qc_app --> uploader

1 files changed, 139 insertions, 0 deletions

diff --git a/uploader/templates/samples/upload-samples.html b/uploader/templates/samples/upload-samples.html
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+{%extends "base.html"%}
+{%from "flash_messages.html" import flash_messages%}
+
+{%block title%}Upload Samples{%endblock%}
+
+{%block css%}{%endblock%}
+
+{%block contents%}
+<h1 class="heading">upload samples</h1>
+
+{{flash_messages("alert-success")}}
+
+<p>You can now upload a character-separated value (CSV) file that contains
+  details about your samples. The CSV file should have the following fields:
+  <dl>
+    <dt>Name</dt>
+    <dd>The primary name for the sample</dd>
+
+    <dt>Name2</dt>
+    <dd>A secondary name for the sample. This can simply be the same as
+      <strong>Name</strong> above. This field <strong>MUST</strong> contain a
+      value.</dd>
+
+    <dt>Symbol</dt>
+    <dd>A symbol for the sample. Can be an empty field.</dd>
+
+    <dt>Alias</dt>
+    <dd>An alias for the sample. Can be an empty field.</dd>
+  </dl>
+</p>
+
+<form id="form-samples"
+      method="POST"
+      action="{{url_for('samples.upload_samples',
+              species_id=species.SpeciesId,
+              population_id=population.InbredSetId)}}"
+      enctype="multipart/form-data">
+  <legend class="heading">upload samples</legend>
+
+  <div class="form-group">
+    <input type="hidden" name="species_id" value="{{species.SpeciesId}}" />
+    <label class="form-label">species:</label>
+    <span class="form-text">{{species.SpeciesName}} [{{species.MenuName}}]</span>
+  </div>
+
+  <div class="form-group">
+    <input type="hidden" name="inbredset_id" value="{{population.InbredSetId}}" />
+    <label class="form-label">grouping/population:</label>
+    <span class="form-text">{{population.Name}} [{{population.FullName}}]</span>
+  </div>
+
+  <div class="form-group">
+    <label for="file-samples" class="form-label">select file</label>
+    <input type="file" name="samples_file" id="file:samples"
+	   accept="text/csv, text/tab-separated-values"
+	   class="form-control" />
+  </div>
+
+  <div class="form-group">
+    <label for="select:separator" class="form-label">field separator</label>
+    <select id="select:separator"
+	    name="separator"
+	    required="required"
+	    class="form-control">
+      <option value="">Select separator for your file: (default is comma)</option>
+      <option value="&#x0009;">TAB</option>
+      <option value="&#x0020;">Space</option>
+      <option value=",">Comma</option>
+      <option value=";">Semicolon</option>
+      <option value="other">Other</option>
+    </select>
+    <input id="txt:separator"
+	   type="text"
+	   name="other_separator"
+	   class="form-control" />
+    <small class="form-text text-muted">
+      If you select '<strong>Other</strong>' for the field separator value,
+      enter the character that separates the fields in your CSV file in the form
+      field below.
+    </small>
+  </div>
+
+  <div class="form-group form-check">
+    <input id="chk:heading"
+	   type="checkbox"
+	   name="first_line_heading"
+	   class="form-check-input" />
+    <label for="chk:heading" class="form-check-label">
+      first line is a heading?</label>
+    <small class="form-text text-muted">
+      Select this if the first line in your file contains headings for the
+      columns.
+    </small>
+  </div>
+
+  <div class="form-group">
+    <label for="txt:delimiter" class="form-label">field delimiter</label>
+    <input id="txt:delimiter"
+	   type="text"
+	   name="field_delimiter"
+	   maxlength="1"
+	   class="form-control" />
+    <small class="form-text text-muted">
+      If there is a character delimiting the string texts within particular
+      fields in your CSV, provide the character here. This can be left blank if
+      no such delimiters exist in your file.
+    </small>
+  </div>
+
+  <button type="submit"
+	  class="btn btn-primary">upload samples file</button>
+</form>
+
+<table id="tbl:samples-preview" class="table">
+  <caption class="heading">preview content</caption>
+
+  <thead>
+    <tr>
+      <th>Name</th>
+      <th>Name2</th>
+      <th>Symbol</th>
+      <th>Alias</th>
+    </tr>
+  </thead>
+
+  <tbody>
+    <tr id="default-row">
+      <td colspan="4">
+	Please make some selections to preview the data.</td>
+    </tr>
+  </tbody>
+</table>
+
+{%endblock%}
+
+
+{%block javascript%}
+<script src="/static/js/upload_samples.js" type="text/javascript"></script>
+{%endblock%}