diff test/test_runner.py @ 6:2b90d0574ea5 draft

planemo upload for repository https://github.com/COMBAT-TB/confil commit c84738cfc4876c591d7108229038a4001f836afb

--- a/test/test_runner.py	Mon Mar 04 07:42:05 2019 -0500
+++ b/test/test_runner.py	Tue Mar 05 03:49:38 2019 -0500
@@ -3,11 +3,11 @@
 import pytest
 from click.testing import CliRunner
 
-from confil.confil import confil
+from confil.confil import confil, parse_report
 
 CURR_DIR = os.path.dirname(os.path.abspath(__file__))
 TEST_DATA_DIR = os.path.join(CURR_DIR, "test_data/")
-
+TEST_REPORT = os.path.join(TEST_DATA_DIR, "test_file.tab")
 FILE_1 = os.path.join(TEST_DATA_DIR, "test_file_1.fastq")
 FILE_2 = os.path.join(TEST_DATA_DIR, "test_file_2.fastq")
 
@@ -18,6 +18,21 @@
     return runner
 
 
[e-mail](reason="No way of currently testing this. It's KRAKEN!")
 def test_runner(cli_runner):
     result = cli_runner.invoke(confil, ["--paired", FILE_1, FILE_2])
     assert result.exit_code == 0
+
+
[e-mail]("test_input, expected", [
+    (type(parse_report(TEST_REPORT, 50)), list),
+    (parse_report(TEST_REPORT, 50)[5], 'Mycobacterium'),
+    (parse_report(TEST_REPORT, 50)[0], '55.84')
+])
+def test_parse_report(test_input, expected):
+    assert test_input == expected
+
+
+def test_parse_report_exception():
+    with pytest.raises(SystemExit):
+        parse_report(TEST_REPORT, 90)