--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/resfinder/tests/unit_tests.py	Mon Jan 10 20:06:07 2022 +0000
@@ -0,0 +1,64 @@
+#!/usr/bin/env python3
+import unittest
+import os
+import subprocess
+
+
+test_names = ["test1", "test3"]
+test_data = {
+    test_names[0]: "data/test_isolate_01.fa",  # Test published resistance
+    test_names[1]: "data/test_isolate_03.fa",  # Test no resistance
+}
+run_test_dir = "unit_tests"
+blast_out_dir = "blast_out"
+
+configs = {}
+
+
+class ResFinderTest(unittest.TestCase):
+
+    def setUp(self):
+        # Change working dir to test dir
+        os.chdir(os.path.dirname(os.path.realpath(__file__)))
+        # Does not allow running two tests in parallel
+        os.makedirs(run_test_dir, exist_ok=False)
+        with open("test_config.txt", "r") as fh:
+            for line in fh:
+                line = line.rstrip()
+
+                if not(line):
+                    continue
+
+                if(line.startswith("#")):
+                    continue
+
+                key, path = line.split()
+                configs[key] = path
+
+    def test_run_resfinder(self):
+
+        test1_dir = run_test_dir + "/" + test_names[0]
+        test1_blast_dir = test1_dir + "/" + blast_out_dir
+        os.makedirs(test1_dir)
+        os.makedirs(test1_blast_dir)
+
+        cmd = ("python3 ../ResFinder.py"
+               + " -i " + test_data[test_names[0]]
+               + " -o " + test1_blast_dir
+               + " -p " + configs["resfinder_dbs"]
+               + " -l 0.6"
+               + " -t 0.9")
+
+        print("Run cmd: " + cmd)
+
+        process = subprocess.run(cmd, shell=True, stdout=subprocess.PIPE,
+                                 stderr=subprocess.PIPE)
+
+        outs = process.stdout.decode()
+        errs = process.stderr.decode()
+
+        self.assertNotIn("Error", errs)
+
+
+if __name__ == "__main__":
+    unittest.main()