From 44a07c95a3ae77441e1b45b9f5fba9c6d77a2871 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Wed, 25 Sep 2024 10:26:15 -0500
Subject: PoC: Common checks in decorators work.

---
 uploader/genotypes/views.py | 47 +++++++++++++++------------------------------
 1 file changed, 15 insertions(+), 32 deletions(-)

(limited to 'uploader')

diff --git a/uploader/genotypes/views.py b/uploader/genotypes/views.py
index 1ac36b2..41cd21e 100644
--- a/uploader/genotypes/views.py
+++ b/uploader/genotypes/views.py
@@ -11,6 +11,7 @@ from uploader.ui import make_template_renderer
 from uploader.authorisation import require_login
 from uploader.db_utils import database_connection
 from uploader.species.models import all_species, species_by_id
+from uploader.request_checks import with_species, with_population
 from uploader.datautils import safe_int, order_by_family, enumerate_sequence
 from uploader.population.models import (populations_by_species,
                                         population_by_species_and_id)
@@ -44,14 +45,10 @@ def index():
 @genotypesbp.route("/<int:species_id>/populations/genotypes/select-population",
                    methods=["GET"])
 @require_login
-def select_population(species_id: int):
+@with_species(redirect_uri="species.populations.genotypes.index")
+def select_population(species: dict, species_id: int):
     """Select the population under which the genotypes go."""
     with database_connection(app.config["SQL_URI"]) as conn:
-        species = species_by_id(conn, species_id)
-        if not bool(species):
-            flash("Invalid species provided!", "alert-danger")
-            return redirect(url_for("species.populations.genotypes.index"))
-
         if not bool(request.args.get("population_id")):
             return render_template("genotypes/select-population.html",
                                    species=species,
@@ -77,55 +74,41 @@ def select_population(species_id: int):
     "/<int:species_id>/populations/<int:population_id>/genotypes",
     methods=["GET"])
 @require_login
-def list_genotypes(species_id: int, population_id: int):
+@with_population(species_redirect_uri="species.populations.genotypes.index",
+                 redirect_uri="species.populations.genotypes.select_population")
+def list_genotypes(species: dict, population: dict, **kwargs):
     """List genotype details for species and population."""
     with database_connection(app.config["SQL_URI"]) as conn:
-        species = species_by_id(conn, species_id)
-        if not bool(species):
-            flash("Invalid species provided!", "alert-danger")
-            return redirect(url_for("species.populations.genotypes.index"))
-
-        population = population_by_species_and_id(
-            conn, species_id, population_id)
-        if not bool(population):
-            flash("Invalid population selected!", "alert-danger")
-            return redirect(url_for(
-                "species.populations.genotypes.select_population",
-                species_id=species_id))
-
         return render_template("genotypes/list-genotypes.html",
                                species=species,
                                population=population,
                                genocode=genocode_by_population(
-                                   conn, population_id),
+                                   conn, population["Id"]),
                                total_markers=genotype_markers_count(
-                                   conn, species_id),
-                               dataset=genotype_dataset(
-                                   conn, species_id, population_id),
+                                   conn, species["SpeciesId"]),
+                               dataset=genotype_dataset(conn,
+                                                        species["SpeciesId"],
+                                                        population["Id"]),
                                activelink="list-genotypes")
 
 
 @genotypesbp.route("/<int:species_id>/genotypes/list-markers", methods=["GET"])
 @require_login
-def list_markers(species_id: int):
+@with_species(redirect_uri="species.populations.genotypes.index")
+def list_markers(species: dict, **kwargs):
     """List a species' genetic markers."""
     with database_connection(app.config["SQL_URI"]) as conn:
-        species = species_by_id(conn, species_id)
-        if not bool(species):
-            flash("Invalid species provided!", "alert-danger")
-            return redirect(url_for("species.populations.genotypes.index"))
-
         start_from = max(safe_int(request.args.get("start_from") or 0), 0)
         count = safe_int(request.args.get("count") or 20)
         return render_template("genotypes/list-markers.html",
                                species=species,
                                total_markers=genotype_markers_count(
-                                   conn, species_id),
+                                   conn, species["SpeciesId"]),
                                start_from=start_from,
                                count=count,
                                markers=enumerate_sequence(
                                    genotype_markers(conn,
-                                                    species_id,
+                                                    species["SpeciesId"],
                                                     offset=start_from,
                                                     limit=count),
                                    start=start_from+1),
-- 
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