test: started writing tests for radiomic feature extraction functions

tests/test_feature_extraction.py

@@ -0,0 +1,40 @@
+from yarea.loaders import *
+from yarea.feature_extraction import *
+
+@pytest.fixture
+def nsclcCTImage():
+    nsclcCTPath = "tests/NSCLC_Radiogenomics/R01-001/09-06-1990-NA-CT_CHEST_ABD_PELVIS_WITH_CON-98785/3.000000-THORAX_1.0_B45f-95741"
+    return loadDicomSITK(nsclcCTPath)
+
+@pytest.fixture
+def nsclcSEGImage():
+    nsclcSEGPath = "tests/NSCLC_Radiogenomics/R01-001/09-06-1990-NA-CT_CHEST_ABD_PELVIS_WITH_CON-98785/1000.000000-3D_Slicer_segmentation_result-67652/1-1.dcm"
+    segDictionary = loadSegmentation(nsclcSEGPath, modality = 'SEG')
+    return segDictionary['Heart']
+
+@pytest.fixture
+def lung4DCTImage():
+    lung4DCTPath = "tests/4D-Lung/113_HM10395/11-26-1999-NA-p4-13296/1.000000-P4P113S303I10349 Gated 40.0B-29543"
+    return loadDicomSITK(lung4DCTPath)
+
+@pytest.fixture
+def lung4DRTSTRUCTImage():
+    lung4DRTSTRUCTPath = "tests/4D-Lung/113_HM10395/11-26-1999-NA-p4-13296/1.000000-P4P113S303I10349 Gated 40.0B-47.35/1-1.dcm"
+    lung4DCTPath = "tests/4D-Lung/113_HM10395/11-26-1999-NA-p4-13296/1.000000-P4P113S303I10349 Gated 40.0B-29543"
+    segDictionary = loadSegmentation(lung4DRTSTRUCTPath, modality = 'RTSTRUCT',
+                                     baseImageDirPath = lung4DCTPath, roiNames = 'Tumor_c.*')
+    return segDictionary['Tumor_c40']
+
+@pytest.fixture
+def pyradiomicsParamFilePath():
+    return "../src/yarea/data/default_pyradiomics.yaml"
+
+def test_singleRadiomicFeatureExtraction(nsclcCTImage, nsclcSEGImage, pyradiomicsParamFilePath):
+    """Test single image feature extraction with a CT and SEG"""
+
+    actual = singleRadiomicFeatureExtraction(nsclcCTImage, nsclcSEGImage, pyradiomicsParamFilePath)
+    #TODO write assert statements
+
+
+# TODO: test RTSTRUCT, test the radiomicFeatureExtraction
+# Write the negative control tests after the test_negative_controls has been written