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authorAlexanderlacuna2020-11-17 22:31:10 +0300
committerAlexanderlacuna2020-11-17 22:31:10 +0300
commitceeae6fd087d91637c5007e0433ce347048fa96d (patch)
treee5238d20d113894749aa7efbca496e9b2f7becf2 /wqflask/tests
parentd4b3e8f43c4f4b10fb9614d80cb9d4e2a723c879 (diff)
downloadgenenetwork2-ceeae6fd087d91637c5007e0433ce347048fa96d.tar.gz
use better function names
Diffstat (limited to 'wqflask/tests')
-rw-r--r--wqflask/tests/wqflask/marker_regression/test_gemma_mapping.py14
-rw-r--r--wqflask/tests/wqflask/marker_regression/test_rqtl_mapping.py2
-rw-r--r--wqflask/tests/wqflask/marker_regression/test_run_mapping.py2
3 files changed, 9 insertions, 9 deletions
diff --git a/wqflask/tests/wqflask/marker_regression/test_gemma_mapping.py b/wqflask/tests/wqflask/marker_regression/test_gemma_mapping.py
index af20c1b8..4fafd95a 100644
--- a/wqflask/tests/wqflask/marker_regression/test_gemma_mapping.py
+++ b/wqflask/tests/wqflask/marker_regression/test_gemma_mapping.py
@@ -23,7 +23,7 @@ class MockDatasetGroup(AttributeSetter):
class TestGemmaMapping(unittest.TestCase):
@mock.patch("wqflask.marker_regression.gemma_mapping.parse_loco_output")
- def test_run_gemma_first_run_loco_set_false(self, mock_parse_loco):
+ def test_run_gemma_firstrun_set_false(self, mock_parse_loco):
"""add tests for gemma function where first run is set to false"""
dataset = AttributeSetter(
{"group": AttributeSetter({"genofile": "genofile.geno"})})
@@ -49,7 +49,7 @@ class TestGemmaMapping(unittest.TestCase):
@mock.patch("wqflask.marker_regression.run_mapping.random.choice")
@mock.patch("wqflask.marker_regression.gemma_mapping.os")
@mock.patch("wqflask.marker_regression.gemma_mapping.gen_pheno_txt_file")
- def test_run_gemma_first_run_set_true(self, mock_gen_pheno_txt, mock_os, mock_choice, mock_gen_covar, mock_flat_files, mock_logger, mock_parse_loco):
+ def test_run_gemma_firstrun_set_true(self, mock_gen_pheno_txt, mock_os, mock_choice, mock_gen_covar, mock_flat_files, mock_logger, mock_parse_loco):
"""add tests for run_gemma where first run is set to true"""
chromosomes = []
for i in range(1, 5):
@@ -140,7 +140,7 @@ class TestGemmaMapping(unittest.TestCase):
'-9\t'), mock.call('-9\t'), mock.call('-9\t'), mock.call('-9\t'), mock.call('\n')])
@mock.patch("wqflask.marker_regression.gemma_mapping.webqtlConfig.GENERATED_IMAGE_DIR", "/home/user/img/")
- def test_parse_gemma_output_obj_returned(self):
+ def test_parse_gemma_output(self):
"""add test for generating gemma output with obj returned"""
file = """X/Y\t gn2\t21\tQ\tE\tA\tP\tMMB\tCDE\t0.5
X/Y\tgn2\t21322\tQ\tE\tA\tP\tMMB\tCDE\t0.5
@@ -157,7 +157,7 @@ X\tgn7\t2324424\tQ\tE\tA\tP\tMMB\tCDE\t0.4
self.assertEqual(results, expected)
@mock.patch("wqflask.marker_regression.gemma_mapping.webqtlConfig.GENERATED_IMAGE_DIR", "/home/user/img")
- def test_parse_gemma_output_empty_return(self):
+ def test_parse_gemma_output_with_empty_return(self):
"""add tests for parse gemma output where nothing returned"""
output_file_results = """chr\t today"""
with mock.patch("builtins.open", mock.mock_open(read_data=output_file_results)) as mock_open:
@@ -167,7 +167,7 @@ X\tgn7\t2324424\tQ\tE\tA\tP\tMMB\tCDE\t0.4
@mock.patch("wqflask.marker_regression.gemma_mapping.TEMPDIR", "/home/tmp")
@mock.patch("wqflask.marker_regression.gemma_mapping.os")
@mock.patch("wqflask.marker_regression.gemma_mapping.json")
- def test_parse_loco_output_file_found(self, mock_json, mock_os):
+ def test_parse_loco_outputfile_found(self, mock_json, mock_os):
"""add tests for parse loco output file found"""
mock_json.load.return_value = {
"files": [["file_name", "user", "~/file1"],
@@ -193,8 +193,8 @@ chr\tL3\t12312\tQ\tE\tA\tP\tMMB\tCDE\t0.7"""
@mock.patch("wqflask.marker_regression.gemma_mapping.TEMPDIR", "/home/tmp")
@mock.patch("wqflask.marker_regression.gemma_mapping.os")
- def test_parse_loco_output_file_not_found(self, mock_os):
- """add tests for parse loco output file not found"""
+ def test_parse_loco_outputfile_not_found(self, mock_os):
+ """add tests for parse loco output where output file not found"""
mock_os.path.isfile.return_value = False
file_to_write = """{"files":["file_1","file_2"]}"""
diff --git a/wqflask/tests/wqflask/marker_regression/test_rqtl_mapping.py b/wqflask/tests/wqflask/marker_regression/test_rqtl_mapping.py
index 9fd32a30..69f53721 100644
--- a/wqflask/tests/wqflask/marker_regression/test_rqtl_mapping.py
+++ b/wqflask/tests/wqflask/marker_regression/test_rqtl_mapping.py
@@ -17,7 +17,7 @@ class TestRqtlMapping(unittest.TestCase):
@mock.patch("wqflask.marker_regression.rqtl_mapping.g")
@mock.patch("wqflask.marker_regression.rqtl_mapping.logger")
- def test_get_trait_data_type_found(self,mock_logger,mock_db):
+ def test_get_trait_data(self,mock_logger,mock_db):
"""test for getting trait data_type return True"""
caller_value="""SELECT value FROM TraitMetadata WHERE type='trait_data_type'"""
mock_db.db.execute.return_value.fetchone.return_value=["""{"type":"trait_data_type","name":"T1","traid_id":"fer434f"}"""]
diff --git a/wqflask/tests/wqflask/marker_regression/test_run_mapping.py b/wqflask/tests/wqflask/marker_regression/test_run_mapping.py
index 2af4c3e3..a134f551 100644
--- a/wqflask/tests/wqflask/marker_regression/test_run_mapping.py
+++ b/wqflask/tests/wqflask/marker_regression/test_run_mapping.py
@@ -62,7 +62,7 @@ class TestRunMapping(unittest.TestCase):
self.assertEqual(result_2, [])
@mock.patch("wqflask.marker_regression.run_mapping.data_set")
- def test_geno_db_exists(self, mock_data_set):
+ def test_if_geno_db_exists(self, mock_data_set):
mock_data_set.create_dataset.side_effect = [
AttributeSetter({}), Exception()]
results_no_error = geno_db_exists(self.dataset)