From 16f8bebad573b63e5236653b1777e1e55c2ac042 Mon Sep 17 00:00:00 2001
From: Kenzo-Hugo Hillion <kenzo-hugo.hillion1@pasteur.fr>
Date: Mon, 24 Jun 2019 15:35:02 +0200
Subject: [PATCH] add query args to configure size of the window
---
backend/metagenedb/apps/catalog/urls.py | 1 +
backend/metagenedb/apps/catalog/views/statistics.py | 6 ++++--
backend/requirements_dev.txt | 2 ++
3 files changed, 7 insertions(+), 2 deletions(-)
diff --git a/backend/metagenedb/apps/catalog/urls.py b/backend/metagenedb/apps/catalog/urls.py
index 7f65d9d..7a71ee3 100644
--- a/backend/metagenedb/apps/catalog/urls.py
+++ b/backend/metagenedb/apps/catalog/urls.py
@@ -2,6 +2,7 @@ from django.urls import re_path
from . import views
+
urlpatterns = [
re_path(r'^api/genes/$', views.gene_list, name='genes'),
re_path(r'^api/genes/(?P<gene_id>.*)$', views.gene_detail),
diff --git a/backend/metagenedb/apps/catalog/views/statistics.py b/backend/metagenedb/apps/catalog/views/statistics.py
index 36ca58a..0152f31 100644
--- a/backend/metagenedb/apps/catalog/views/statistics.py
+++ b/backend/metagenedb/apps/catalog/views/statistics.py
@@ -36,8 +36,10 @@ def _count_windows(df, window_col, window_size=10000):
@api_view(['GET'])
-def gene_length(request):
+def gene_length(request, window_size=10000):
+ if 'window_size' in request.query_params:
+ window_size = int(request.query_params.get('window_size'))
df = pd.DataFrame(list(Gene.objects.all().values(GENE_LENGTH_COL)))
return Response({
- 'data': _count_windows(df, GENE_LENGTH_COL)
+ 'data': _count_windows(df, GENE_LENGTH_COL, window_size)
})
diff --git a/backend/requirements_dev.txt b/backend/requirements_dev.txt
index 1beca5f..fb65183 100644
--- a/backend/requirements_dev.txt
+++ b/backend/requirements_dev.txt
@@ -15,7 +15,9 @@ importlib-metadata==0.18
kiwisolver==1.1.0
mccabe==0.6.1
more-itertools==7.0.0
+numpy==1.16.4
packaging==19.0
+pandas==0.24.2
pluggy==0.12.0
psycopg2==2.8.2
py==1.8.0
--
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