From 58a214a4a9be5fb219a798b62cdbf43d72280c74 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Fri, 5 Jan 2024 13:08:38 +0300
Subject: Initialise R/qtl2 bundle upload path

Initialise the upload path for R/qtl2 bundles. This commit adds UI
that allows the user to select from existing species, before
proceeding to the next stage.
---
 qc_app/upload/rqtl2.py | 31 +++++++++++++++++++++++++++++++
 1 file changed, 31 insertions(+)
 create mode 100644 qc_app/upload/rqtl2.py

(limited to 'qc_app/upload/rqtl2.py')

diff --git a/qc_app/upload/rqtl2.py b/qc_app/upload/rqtl2.py
new file mode 100644
index 0000000..e54f141
--- /dev/null
+++ b/qc_app/upload/rqtl2.py
@@ -0,0 +1,31 @@
+"""Module to handle uploading of R/qtl2 bundles."""
+
+from flask import (
+    flash,
+    request,
+    url_for,
+    redirect,
+    Blueprint,
+    render_template)
+
+from qc_app.dbinsert import species as all_species
+from qc_app.dbinsert import species_by_id, groups_by_species
+from qc_app.db_utils import with_db_connection
+
+rqtl2 = Blueprint("rqtl2", __name__)
+
+@rqtl2.route("/", methods=["GET", "POST"])
+@rqtl2.route("/select-species", methods=["POST"])
+def select_species():
+    """Select the species."""
+    if request.method == "GET":
+        return render_template("rqtl2/index.html", species=all_species())
+
+    species_id = request.form.get("species_id")
+    species = with_db_connection(
+        lambda conn: species_by_id(conn, species_id))
+    if bool(species):
+        return redirect(url_for(
+            "upload.rqtl2.select_population", species_id=species_id))
+    flash("Invalid species or no species selected!", "alert-error error-rqtl2")
+    return redirect(url_for("upload.rqtl2.select_species"))
-- 
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