diff options
Diffstat (limited to 'tests/unit/computations/test_gemma.py')
| -rw-r--r-- | tests/unit/computations/test_gemma.py | 21 |
1 files changed, 0 insertions, 21 deletions
diff --git a/tests/unit/computations/test_gemma.py b/tests/unit/computations/test_gemma.py index 4a76bef..f3b31e5 100644 --- a/tests/unit/computations/test_gemma.py +++ b/tests/unit/computations/test_gemma.py @@ -5,7 +5,6 @@ from unittest import mock from gn3.computations.gemma import generate_gemma_cmd from gn3.computations.gemma import generate_hash_of_string from gn3.computations.gemma import generate_pheno_txt_file -from gn3.computations.gemma import generate_gemma_computation_cmd class TestGemma(unittest.TestCase): @@ -32,26 +31,6 @@ class TestGemma(unittest.TestCase): self.assertEqual(generate_hash_of_string("I^iQP&TlSR^z"), "hMVRw8kbEp49rOmoIkhMjA") - @mock.patch("gn3.computations.gemma.do_paths_exist") - def test_compose_k_computation_cmd(self, mock_pathsp): - """Test that a K computation cmd is constructed properly""" - mock_pathsp.return_value = True - self.assertEqual( - generate_gemma_computation_cmd( - gemma_cmd="gemma-wrapper", - gemma_wrapper_kwargs=None, - gemma_kwargs={ - "geno_filename": "genofile.txt", - "trait_filename": "test.txt", - "covar_filename": "genofile_snps.txt" - }, - output_file="/tmp/gn2/k_output_gUFhGu4rLG7k+CXLPk1OUg.txt", - ), ("gemma-wrapper --json -- " - "-g genofile.txt -p " - "test.txt -a genofile_snps.txt " - "-gk > /tmp/gn2/" - "k_output_gUFhGu4rLG7k+CXLPk1OUg.txt")) - @mock.patch("gn3.computations.gemma.get_hash_of_files") def test_compute_k_values_without_loco(self, mock_get_hash): """Test computing k valuse without loco""" |