Add UI to select/create tissue.

1 files changed, 112 insertions, 0 deletions

diff --git a/qc_app/templates/rqtl2/select-tissue.html b/qc_app/templates/rqtl2/select-tissue.html
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+++ b/qc_app/templates/rqtl2/select-tissue.html
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+{%extends "base.html"%}
+{%from "flash_messages.html" import flash_messages%}
+
+{%block title%}Upload R/qtl2 Bundle{%endblock%}
+
+{%block contents%}
+<h2 class="heading">Tissue</h2>
+
+<div class="explainer">
+  <p>The data you are uploading concerns a tissue, cell, organ, or other
+    biological material used in an experiment.</p>
+  <p>Select the appropriate biological material below</p>
+</div>
+
+{%if tissues | length > 0%}
+<form method="POST"
+      action="{{url_for('upload.rqtl2.select_tissue',
+	      species_id=species.SpeciesId, population_id=population.Id)}}"
+      id="frm:select-probeset-dataset">
+  <legend class="heading">Select from existing ProbeSet datasets</legend>
+  {{flash_messages("error-select-tissue")}}
+
+  <input type="hidden" name="species_id" value="{{species.SpeciesId}}" />
+  <input type="hidden" name="population_id"
+	 value="{{population.InbredSetId}}" />
+  <input type="hidden" name="rqtl2_bundle_file"
+	 value="{{rqtl2_bundle_file}}" />
+  <input type="hidden" name="geno-dataset-id" value="{{geno_dataset.Id}}" />
+
+  <fieldset>
+    <label for="select-tissue">Tissue</label>
+    <select id="select-tissue"
+	    name="tissueid"
+	    required="required"
+	    {%if tissues | length == 0%}disabled="disabled"{%endif%}>
+      <option value="">Select a tissue</option>
+      {%for tissue in tissues%}
+      <option value={{tissue.Id}}>
+	{{tissue.Name}}
+	{%if tissue.Short_Name%}
+	 -- ({{tissue.Short_Name}})
+	{%endif%}
+      </option>
+      {%endfor%}
+    </select>
+
+    <span class="form-col-2">Select from existing biological material.</span>
+  </fieldset>
+
+  <fieldset>
+    <input type="submit"
+	   value="use selected"
+	   class="btn btn-main form-col-2" />
+  </fieldset>
+</form>
+
+<p style="color:#FE3535; padding-left:20em; font-weight:bolder;">OR</p>
+{%endif%}
+
+<div class="explainer">
+  <p>If you cannot find the biological material in the drop-down above, add it
+    to the system below.</p>
+</div>
+
+<form method="POST"
+      action="{{url_for('upload.rqtl2.create_tissue',
+	      species_id=species.SpeciesId, population_id=population.Id)}}"
+      id="frm:create-probeset-dataset">
+  <legend class="heading">Add new tissue, organ or biological material</legend>
+  {{flash_messages("error-create-tissue")}}
+
+  <input type="hidden" name="species_id" value="{{species.SpeciesId}}" />
+  <input type="hidden" name="population_id"
+	 value="{{population.InbredSetId}}" />
+  <input type="hidden" name="rqtl2_bundle_file"
+	 value="{{rqtl2_bundle_file}}" />
+  <input type="hidden" name="geno-dataset-id" value="{{geno_dataset.Id}}" />
+
+  <fieldset>
+    <label for="tissue-name">name</label>
+    <input type="text"
+           id="txt-tissuename"
+           name="tissuename"
+           required="required"
+           title = "A name to identify the tissue, organ or biological material." />
+
+    <span class="form-col-2">
+      A name to identify the tissue, organ or biological material.
+    </span>
+  </fieldset>
+
+  <fieldset>
+    <label for="txt-shortname">short name</label>
+    <input type="text" id="txt-tissueshortname" name="tissueshortname"
+	   required="required"
+	   maxlength="7"
+	   title="A short name (e.g. 'Mam') for the biological material." />
+
+    <span class="form-col-2">
+      Provide a short name for the tissue, organ or biological material used in
+      the experiment.
+    </span>
+  </fieldset>
+
+  <fieldset>
+    <input type="submit"
+	   value="add new material"
+	   class="btn btn-main form-col-2" />
+  </fieldset>
+</form>
+
+{%endblock%}