Add unit tests (fixes #38)

tests/data/single.fas

+>seq_1.cds_10
+MNNKGSGLTPAQALDKLDALYEQSVVALRNAIGNYITSGELPDENARKQGLFVYPSLTVT
+WDGSTTNPPKTRAFGRFTHAGSYTTTITRPTLFRSYLNEQLTLLYQDYGAHISVQPSQHE
+IPYPYVIDGSELTLDRSMSAGLTRYFPTTELAQIGDETADGIYHPTEFSPLSHFDARRVD
+FSLARLRHYTGTPVEHFQPFVLFTNYTRYVDEFVRWGCSQILDPDSPYIALSCAGGNWIT
+AETEAPEEAISDLAWKKNQMPAWHLITADGQGITLVNIGVGPSNAKTICDHLAVLRPDVW
+LMIGHCGGLRESQAIGDYVLAHAYLRDDHVLDAVLPPDIPIPSIAEVQRALYDATKLVSG
+RPGEEVKQRLRTGTVVTTDDRNWELRYSASALRFNLSRAVAIDMESATIAAQGYRFRVPY
+GTLLCVSDKPLHGEIKLPGQANRFYEGAISEHLQIGIRAIDLLRAEGDRLHSRKLRTFNE
+PPFR*

tests/test_config.py

+import unittest
+from psot import config
+
+class TestConfig(unittest.TestCase):
+
+    def test_load_config_works(self):
+        cfg = config.load_config()
+        self.assertTrue('modules' in cfg)
+        self.assertTrue('profiles' in cfg)
+        self.assertTrue('app' in cfg)

tests/test_psot.py

+import unittest
+import pkg_resources
+from tempfile import mkdtemp
+from shutil import rmtree
+from subprocess import run
+import os.path
+import json
+
+class TestPsot(unittest.TestCase):
+
+    def test_that_psot_fails_if_input_file_does_not_exist(self):
+        proc = run(["psot", 'analyze', '-f', 'file', '-o', 'temporary output directory', '-p', 'fast'])
+        self.assertNotEqual(proc.returncode, 0)
+
+    def test_that_psot_runs(self):
+        profiles = ['fast', 'common', 'complete']
+        testdata = pkg_resources.resource_filename('tests', 'data/single.fas')
+        for profile in profiles:
+          with self.subTest(profile=profile):
+            result_directory = mkdtemp()
+            proc = run(["psot", 'analyze', '-f', testdata, '-o', result_directory, '-p', profile])
+            # first check if the result file exists
+            expected_file = result_directory +'/seq_1.cds_10.json'
+            self.assertTrue(os.path.exists(expected_file))
+            # now check if it is a valid json and contains the id and a non-empty list of results
+            with open(expected_file, 'r') as f:
+              result = json.load(f)
+              self.assertTrue('id' in result)
+              self.assertTrue('computations' in result)
+              self.assertGreater(len(result['computations']), 0)
+
+              
+            rmtree(result_directory)
+