From f726c71bf1636a838f45363d1613763a2926e34f Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Wed, 12 Jun 2024 16:38:54 -0500
Subject: Update html templates to use bootstrap for styling

---
 .../templates/rqtl2/select-probeset-study-id.html  | 242 +++++++++++----------
 1 file changed, 126 insertions(+), 116 deletions(-)

(limited to 'qc_app/templates/rqtl2/select-probeset-study-id.html')

diff --git a/qc_app/templates/rqtl2/select-probeset-study-id.html b/qc_app/templates/rqtl2/select-probeset-study-id.html
index c387514..b9bf52e 100644
--- a/qc_app/templates/rqtl2/select-probeset-study-id.html
+++ b/qc_app/templates/rqtl2/select-probeset-study-id.html
@@ -6,128 +6,138 @@
 {%block contents%}
 <h2 class="heading">Phenotype(ProbeSet) Study</h2>
 
-<div class="explainer">
+<div class="row">
   <p>The R/qtl2 bundle you uploaded contains (a) "<strong>pheno</strong>"
     file(s). This data needs to be organised under a study.</p>
   <p>In this page, you can either select from a existing dataset:</p>
+
+  <form method="POST"
+        action="{{url_for('upload.rqtl2.select_probeset_study',
+	        species_id=species.SpeciesId, population_id=population.Id)}}"
+        id="frm:select-probeset-study">
+    <legend class="heading">Select from existing ProbeSet studies</legend>
+    {{flash_messages("error-rqtl2-select-probeset-study")}}
+
+    <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}}" />
+    <input type="hidden" name="tissueid" value="{{tissue.Id}}" />
+
+    <div>
+      <label for="select:probe-study" class="form-label">Study</label>
+      <select id="select:probe-study"
+	      name="probe-study-id"
+	      required="required"
+              aria-describedby="help-select-probeset-study"
+	      {%if studies | length == 0%}disabled="disabled"{%endif%}
+              class="form-control">
+        <option value="">Select a study</option>
+        {%for study in studies%}
+        <option value={{study.Id}}>
+	  {{study.Name}}
+	  {%if study.FullName%}
+	  -- ({{study.FullName}})
+	  {%endif%}
+        </option>
+        {%endfor%}
+      </select>
+      <small id="help-select-probeset-study" class="form-text text-muted">
+        Select from existing ProbeSet studies.
+      </small>
+    </div>
+
+    <button type="submit" class="btn btn-primary">select study</button>
+  </form>
 </div>
 
-<form method="POST"
-      action="{{url_for('upload.rqtl2.select_probeset_study',
-	      species_id=species.SpeciesId, population_id=population.Id)}}"
-      id="frm:select-probeset-study">
-  <legend class="heading">Select from existing ProbeSet studies</legend>
-  {{flash_messages("error-rqtl2-select-probeset-study")}}
-
-  <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}}" />
-  <input type="hidden" name="tissueid" value="{{tissue.Id}}" />
-
-  <fieldset>
-    <label for="select:probe-study">Study</label>
-    <select id="select:probe-study"
-	    name="probe-study-id"
-	    required="required"
-	    {%if studies | length == 0%}disabled="disabled"{%endif%}>
-      <option value="">Select a study</option>
-      {%for study in studies%}
-      <option value={{study.Id}}>
-	{{study.Name}}
-	{%if study.FullName%}
-	 -- ({{study.FullName}})
-	{%endif%}
-      </option>
-      {%endfor%}
-    </select>
-    <span class="form-col-2">Select from existing ProbeSet studies.</span>
-  </fieldset>
-
-  <fieldset>
-    <input type="submit"
-	   value="select study"
-	   class="btn btn-primary form-col-2" />
-  </fieldset>
-</form>
-
-<p style="color:#FE3535; padding-left:20em; font-weight:bolder;">OR</p>
-
-<div class="explainer">
-  <p>Create a new ProbeSet dataset below:</p>
+<div class="row">
+  <p style="color:#FE3535; padding-left:20em; font-weight:bolder;">OR</p>
 </div>
 
-<form method="POST"
-      action="{{url_for('upload.rqtl2.create_probeset_study',
-	      species_id=species.SpeciesId, population_id=population.Id)}}"
-      id="frm:create-probeset-study">
-  <legend class="heading">Create new ProbeSet study</legend>
-
-  {{flash_messages("error-rqtl2-create-probeset-study")}}
-
-  <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}}" />
-  <input type="hidden" name="tissueid" value="{{tissue.Id}}" />
-
-  <fieldset>
-    <label for="select:platform">Platform</label>
-    <select id="select:platform"
-	    name="platformid"
-	    required="required"
-	    {%if platforms | length == 0%}disabled="disabled"{%endif%}>
-      <option value="">Select a platform</option>
-      {%for platform in platforms%}
-      <option value="{{platform.GeneChipId}}">
-	{{platform.GeneChipName}} ({{platform.Name}})
-      </option>
-      {%endfor%}
-    </select>
-    <span class="form-col-2">Select from a list of known genomics platforms.
-    </span>
-  </fieldset>
-
-  <fieldset>
-    <label for="txt:studyname">Study name</label>
-    <input type="text" id="txt:studyname" name="studyname"
-	   placeholder="Name of the study. (Required)"
-	   required="required"
-	   maxlength="100" />
-    <span class="form-col-2">Provide a name for the study.</span>
-  </fieldset>
-
-  <fieldset>
-    <label for="txt:studyfullname">Full Study Name</label>
-    <input type="text" id="txt:studyfullname" name="studyfullname"
-	   placeholder="Longer name of the study. (Optional)"
-	   maxlength="100" />
-    <span class="form-col-2">
-      Provide a longer, more descriptive name for the study. This is optional
-      and you can leave it blank.
-    </span>
-  </fieldset>
-
-  <fieldset>
-    <label for="txt:studyshortname">Short Study Name</label>
-    <input type="text" id="txt:studyshortname" name="studyshortname"
-	   placeholder="Shorter name of the study. (Optional)"
-	   maxlength="100" />
-    <span class="form-col-2">
-      Provide a shorter name for the study. This is optional and you can leave
-      it blank.
-    </span>
-  </fieldset>
-
-    <fieldset>
-    <input type="submit"
-	   value="create study"
-	   class="btn btn-primary form-col-2" />
-  </fieldset>
-</form>
+<div class="row">
+
+  <p>Create a new ProbeSet dataset below:</p>
+
+  <form method="POST"
+        action="{{url_for('upload.rqtl2.create_probeset_study',
+	        species_id=species.SpeciesId, population_id=population.Id)}}"
+        id="frm:create-probeset-study">
+    <legend class="heading">Create new ProbeSet study</legend>
+
+    {{flash_messages("error-rqtl2-create-probeset-study")}}
+
+    <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}}" />
+    <input type="hidden" name="tissueid" value="{{tissue.Id}}" />
+
+    <div>
+      <label for="select:platform" class="form-label">Platform</label>
+      <select id="select:platform"
+	      name="platformid"
+	      required="required"
+              aria-describedby="help-select-platform"
+	      {%if platforms | length == 0%}disabled="disabled"{%endif%}
+              class="form-control">
+        <option value="">Select a platform</option>
+        {%for platform in platforms%}
+        <option value="{{platform.GeneChipId}}">
+	  {{platform.GeneChipName}} ({{platform.Name}})
+        </option>
+        {%endfor%}
+      </select>
+      <small id="help-select-platform" class="form-text text-muted">
+        Select from a list of known genomics platforms.
+      </small>
+    </div>
+
+    <div class="form-group">
+      <label for="txt:studyname" class="form-label">Study name</label>
+      <input type="text" id="txt:studyname" name="studyname"
+	     placeholder="Name of the study. (Required)"
+	     required="required"
+	     maxlength="100"
+             class="form-control" />
+      <span class="form-text text-muted" id="help-study-name">
+        Provide a name for the study.</span>
+    </div>
+
+    <div class="form-group">
+      <label for="txt:studyfullname" class="form-label">Full Study Name</label>
+      <input type="text"
+             id="txt:studyfullname"
+             name="studyfullname"
+	     placeholder="Longer name of the study. (Optional)"
+	     maxlength="100"
+             class="form-control" />
+      <span class="form-text text-muted" id="help-study-full-name">
+        Provide a longer, more descriptive name for the study. This is optional
+        and you can leave it blank.
+      </span>
+    </div>
+
+    <div class="form-group">
+      <label for="txt:studyshortname" class="form-label">Short Study Name</label>
+      <input type="text"
+             id="txt:studyshortname"
+             name="studyshortname"
+	     placeholder="Shorter name of the study. (Optional)"
+	     maxlength="100"
+             class="form-control" />
+      <span class="form-text text-muted" id="help-study-short-name">
+        Provide a shorter name for the study. This is optional and you can leave
+        it blank.
+      </span>
+    </div>
+
+    <button type="submit" class="btn btn-primary">create study</button>
+  </form>
+</div>
 
 {%endblock%}
-- 
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