Feature: Upload Samples/Cases

Implements the code enabling the upload of the samples/cases to the database.

1 files changed, 107 insertions, 0 deletions

diff --git a/qc_app/templates/samples/upload-samples.html b/qc_app/templates/samples/upload-samples.html
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+++ b/qc_app/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%}
+<style type="text/css">
+  #form-samples {
+      background-color: #D1D1D1;
+  }
+  #form-samples fieldset:nth-child(odd){
+      background-color: white;
+  }
+</style>
+{%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="#"
+      enctype="multipart/form-data">
+  <legend class="heading">upload samples</legend>
+  <fieldset>
+    <input type="hidden" name="species_id" value="{{species.SpeciesId}}" />
+    <label class="form-col-1">species:</label>
+    <label class="form-col-2">{{species.SpeciesName}} [{{species.MenuName}}]</label>
+  </fieldset>
+
+  <fieldset>
+    <input type="hidden" name="inbredset_id" value="{{population.InbredSetId}}" />
+    <label class="form-col-1">grouping/population:</label>
+    <label class="form-col-2">{{population.Name}} [{{population.FullName}}]</label>
+  </fieldset>
+
+  <fieldset>
+    <label for="select:separator" class="form-col-1">field separator</label>
+    <select id="select:separator"
+	    name="separator"
+	    required="required"
+	    class="form-col-2">
+      <option value="">Select separator for your file</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 type="text" name="other_separator" class="form-col-2" />
+    <label class="form-col-2">
+      This is the character that separates the fields in your CSV file. If you
+      select "<strong>Other</strong>", then you must provide the separator in
+      the text field provided.
+    </label>
+  </fieldset>
+
+  <fieldset>
+    <label for="txt:delimiter" class="form-col-1">field delimiter</label>
+    <input type="text" name="field_delimiter" class="form-col-2" />
+    <label class="form-col-2">
+      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.
+    </label>
+  </fieldset>
+
+  <fieldset>
+    <label for="file_upload" class="form-col-1">select file</label>
+    <input type="file" name="samples_file" id="file_upload"
+	   accept="text/csv, text/tab-separated-values"
+	   class="form-col-2" />
+  </fieldset>
+
+  <fieldset>
+    <input type="submit"
+	   value="upload samples file"
+	   class="btn btn-main form-col-2" />
+  </fieldset>
+</form>
+
+{%endblock%}
+
+
+{%block javascript%}
+{%endblock%}