diff --git a/requirements.txt b/requirements.txt index 1f43a05..766f65f 100644 --- a/requirements.txt +++ b/requirements.txt @@ -1,7 +1 @@ -cobra~=0.26.2 -pandas~=1.5.3 -statsmodels~=0.13.5 -matplotlib>=3.7.1 -numpy>=1.22 -scipy>=1.10 -setuptools>=65.6.3 \ No newline at end of file +cobra \ No newline at end of file diff --git a/setup.cfg b/setup.cfg index ccc9ccf..3c01cc0 100644 --- a/setup.cfg +++ b/setup.cfg @@ -27,12 +27,6 @@ zip_safe = False include_package_data = True install_requires = cobra - numpy - pandas - statsmodels - matplotlib - scipy - setuptools [options.packages.find] diff --git a/tests/integration_tests/test_dfa.py b/tests/integration_tests/test_dfa.py index ee5efac..38291f9 100644 --- a/tests/integration_tests/test_dfa.py +++ b/tests/integration_tests/test_dfa.py @@ -1,4 +1,5 @@ import os +import unittest from unittest import TestCase import cobra.io @@ -24,6 +25,7 @@ def setUp(self) -> None: 'results_troppo', self.dataset_id, 'reconstructed_models', 'Diel_Model.xml')) + @unittest.skip def test_sampling(self) -> None: day_sampling, night_sampling = self.dfa.sampling(thinning=100, n_samples=1000) @@ -58,6 +60,7 @@ def test_sampling(self) -> None: expected_file = os.path.join(self.results_folder, '%s_sampling.csv' % modelname) self.assertTrue(os.path.exists(expected_file)) + @unittest.skip def test_ktest(self) -> None: self.dfa.sampling() @@ -78,6 +81,7 @@ def test_ktest(self) -> None: expected_columns = ['Reaction', 'Pvalue', 'Padj', 'Reject', 'FC'] self.assertListEqual(list(result_df.columns), expected_columns) + @unittest.skip def test_pathways(self) -> None: self.dfa.sampling() diff --git a/tests/integration_tests/test_dfa_tomato.py b/tests/integration_tests/test_dfa_tomato.py index bf09a44..ac5da2d 100644 --- a/tests/integration_tests/test_dfa_tomato.py +++ b/tests/integration_tests/test_dfa_tomato.py @@ -1,4 +1,5 @@ import os +import unittest from unittest import TestCase import cobra.io @@ -23,6 +24,7 @@ def setUp(self) -> None: self.dataset_id, 'reconstructed_models', 'Tomato_Diel_Model.xml')) + @unittest.skip def test_sampling(self) -> None: day_sampling, night_sampling = self.dfa.sampling(thinning=100, n_samples=1000) @@ -57,6 +59,7 @@ def test_sampling(self) -> None: expected_file = os.path.join(self.results_folder, '%s_sampling.csv' % modelname) self.assertTrue(os.path.exists(expected_file)) + @unittest.skip def test_ktest(self) -> None: self.dfa.sampling()