From 4285cc10e24d6410206329ba079406e9aa21cc30 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Mon, 23 Sep 2024 14:30:15 -0500
Subject: Move R/qtl2 upload code under the populations package.

---
 .../populations/rqtl2/select-geno-dataset.html     | 69 ++++++++++++++++++++++
 1 file changed, 69 insertions(+)
 create mode 100644 uploader/templates/populations/rqtl2/select-geno-dataset.html

(limited to 'uploader/templates/populations/rqtl2/select-geno-dataset.html')

diff --git a/uploader/templates/populations/rqtl2/select-geno-dataset.html b/uploader/templates/populations/rqtl2/select-geno-dataset.html
new file mode 100644
index 0000000..3233abc
--- /dev/null
+++ b/uploader/templates/populations/rqtl2/select-geno-dataset.html
@@ -0,0 +1,69 @@
+{%extends "base.html"%}
+{%from "flash_messages.html" import flash_messages%}
+
+{%block title%}Upload R/qtl2 Bundle{%endblock%}
+
+{%block contents%}
+<h2 class="heading">Select Genotypes Dataset</h2>
+
+<div class="row">
+  <p>Your R/qtl2 files bundle could contain a "geno" specification. You will
+    therefore need to select from one of the existing Genotype datasets or
+    create a new one.</p>
+  <p>This is the dataset where your data will be organised under.</p>
+</div>
+
+<div class="row">
+  <form id="frm-upload-rqtl2-bundle"
+        action="{{url_for('expression-data.rqtl2.select_geno_dataset',
+	        species_id=species.SpeciesId,
+	        population_id=population.InbredSetId)}}"
+        method="POST"
+        enctype="multipart/form-data">
+    <legend class="heading">select from existing genotype datasets</legend>
+
+    <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}}" />
+
+    {{flash_messages("error-rqtl2-select-geno-dataset")}}
+
+    <div class="form-group">
+      <legend>Datasets</legend>
+      <label for="select:geno-datasets" class="form-label">Dataset</label>
+      <select id="select:geno-datasets"
+	      name="geno-dataset-id"
+	      required="required"
+	      {%if datasets | length == 0%}
+	      disabled="disabled"
+	      {%endif%}
+              class="form-control"
+              aria-describedby="help-geno-dataset-select-dataset">
+        <option value="">Select dataset</option>
+        {%for dset in datasets%}
+        <option value="{{dset['Id']}}">{{dset["Name"]}} ({{dset["FullName"]}})</option>
+        {%endfor%}
+      </select>
+      <span id="help-geno-dataset-select-dataset" class="form-text text-muted">
+        Select from the existing genotype datasets for species
+        {{species.SpeciesName}} ({{species.FullName}}).
+      </span>
+    </div>
+
+    <button type="submit" class="btn btn-primary">select dataset</button>
+  </form>
+</div>
+
+<div class="row">
+  <p>If the genotype dataset you need does not currently exist for your dataset,
+    go the <a href="{{url_for(
+                    'species.populations.genotypes.create_dataset',
+                    species_id=species.SpeciesId,
+                    population_id=population.Id)}}"
+              title="Create a new genotypes dataset for {{species.FullName}}">
+      genotypes page to create the genotype dataset</a></p>
+</div>
+
+{%endblock%}
-- 
cgit v1.2.3