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/cli/test_launch.py

@@ -0,0 +1,27 @@
+import filecmp
+import os
+import shutil
+import unittest
+
+import yaml
+
+from server.default_config import default_config
+from test import FIXTURES_ROOT
+
+
+class CLIPLaunchTests(unittest.TestCase):
+    tmp_dir = os.path.join(FIXTURES_ROOT, "dump_configs")
+
+    @classmethod
+    def setUpClass(cls) -> None:
+        os.mkdir(cls.tmp_dir)
+
+    @classmethod
+    def tearDownClass(cls) -> None:
+        shutil.rmtree(cls.tmp_dir)
+
+    def test_dump_default_config(self):
+        os.system(f"cellxgene launch --dump-default-config > {self.tmp_dir}/test_config_dump.txt")
+        with open(f"{self.tmp_dir}/expected_config_dump.txt", "w") as expected_config:
+            expected_config.write(yaml.dump(default_config))
+        filecmp.cmp(f"{self.tmp_dir}/expected_config_dump.txt", f"{self.tmp_dir}/test_config_dump.txt")

test/unit/cli/test_prepare.py

@@ -0,0 +1,15 @@
+import unittest
+
+import pandas as pd
+
+from server.cli.prepare import make_index_unique
+
+
+class CLIPrepareTests(unittest.TestCase):
+    """ Test cases for CLI prepare logic """
+
+    def test_make_index_unique(self):
+        index = pd.Index(["SNORD113", "SNORD113", "SNORD113-1"])
+        result = make_index_unique(index)
+        expected = pd.Index(["SNORD113", "SNORD113-2", "SNORD113-1"])
+        self.assertTrue(all(left == right for left, right in zip(result.values, expected.values)))

test/unit/cli/test_upgrade.py

@@ -0,0 +1,28 @@
+import unittest
+
+from server.cli.upgrade import validate_version_str, split_version, version_gt
+
+
+class CLIUpgradeTests(unittest.TestCase):
+    """ Test cases for CLI logic """
+
+    def test_validate_version_str(self):
+        self.assertTrue(validate_version_str("0.1.2"))
+        self.assertTrue(validate_version_str("0.1.2-RC", release_only=False))
+        self.assertFalse(validate_version_str("0.1"))
+        self.assertFalse(validate_version_str("0.1.2.3"))
+        self.assertFalse(validate_version_str("0.1.2-RC"))
+
+    def test_split_version_str(self):
+        self.assertEqual(split_version("0.1.2"), [0, 1, 2])
+        with self.assertRaises(AttributeError):
+            split_version("0.1")
+
+    def test_assert_verstion_gt(self):
+        self.assertTrue(version_gt("1.0.0", "0.1.1"))
+        self.assertTrue(version_gt("0.1.0", "0.0.1"))
+        self.assertTrue(version_gt("0.0.1", "0.0.0"))
+        self.assertFalse(version_gt("0.0.0", "0.0.0"))
+        self.assertFalse(version_gt("0.0.0", "0.0.1"))
+        self.assertFalse(version_gt("0.0.1", "0.1.0"))
+        self.assertFalse(version_gt("0.1.1", "1.0.0"))