move common code into server, update tests and makefile (#2425)

* move common code into server, update tests and makefile

remove backend directory, refactor

update smoke tests

test/unit/common/test_nan_rest.py

@@ -0,0 +1,61 @@
+from http import HTTPStatus
+import unittest
+import math
+from test.unit import start_test_server, stop_test_server
+from test import FIXTURES_ROOT
+import test.decode_fbs as decode_fbs
+
+import requests
+
+VERSION = "v0.2"
+BAD_FILTER = {"filter": {"obs": {"annotation_value": [{"name": "xyz"}]}}}
+
+
+class WithNaNs(unittest.TestCase):
+    """Test Case for endpoints"""
+
+    @classmethod
+    def setUpClass(cls):
+        cls.ps, cls.server = start_test_server([f"{FIXTURES_ROOT}/nan.h5ad"])
+
+    @classmethod
+    def tearDownClass(cls):
+        stop_test_server(cls.ps)
+
+    def setUp(self):
+        self.session = requests.Session()
+        self.url_base = f"{self.server}/api/{VERSION}/"
+
+    def test_initialize(self):
+        endpoint = "schema"
+        url = f"{self.url_base}{endpoint}"
+        result = self.session.get(url)
+        self.assertEqual(result.status_code, HTTPStatus.OK)
+
+    def test_data(self):
+        endpoint = "data/var"
+        url = f"{self.url_base}{endpoint}"
+        filter = {"filter": {"var": {"index": [[0, 20]]}}}
+        result = self.session.put(url, json=filter)
+        self.assertEqual(result.status_code, HTTPStatus.OK)
+        self.assertEqual(result.headers["Content-Type"], "application/octet-stream")
+        df = decode_fbs.decode_matrix_FBS(result.content)
+        self.assertTrue(math.isnan(df["columns"][3][3]))
+
+    def test_annotation_obs(self):
+        endpoint = "annotations/obs"
+        url = f"{self.url_base}{endpoint}"
+        result = self.session.get(url)
+        self.assertEqual(result.status_code, HTTPStatus.OK)
+        self.assertEqual(result.headers["Content-Type"], "application/octet-stream")
+        df = decode_fbs.decode_matrix_FBS(result.content)
+        self.assertTrue(math.isnan(df["columns"][2][0]))
+
+    def test_annotation_var(self):
+        endpoint = "annotations/var"
+        url = f"{self.url_base}{endpoint}"
+        result = self.session.get(url)
+        self.assertEqual(result.status_code, HTTPStatus.OK)
+        self.assertEqual(result.headers["Content-Type"], "application/octet-stream")
+        df = decode_fbs.decode_matrix_FBS(result.content)
+        self.assertTrue(math.isnan(df["columns"][2][0]))