--- a
+++ b/config.py
@@ -0,0 +1,38 @@
+# LOCATION VARIABLES
+
+#TODO: Ensure that these can be run from other machines easily.
+location = 'data/stanford/'
+
+clinical = location + 'labels/full_clinical_file.csv'
+recurrence = location + 'labels/recurrence_cleaned.csv'
+images = location + 'images_original/'
+segs = location + 'segmentations_cleaned/'
+cropped = location + 'cropped_nodules/'
+pyradiomics = location + 'pyradiomics_features/'
+genomics = location + 'genomics_cleaned.csv'
+densenet = cropped
+csv_location = location + 'labels/recurrence_labels/'
+
+# OTHER VARIABLES
+
+mutation_mapping = {'Mutant': 1,
+                    'Wildtype': 0,
+                    'Not collected': 'N/A',
+                    'Unknown': 'N/A'}
+
+recurrence_mapping = {'yes': 1, 'no': 0, 'Not collected': 'N/A'}
+survival_mapping = {'Dead': 1, 'Alive': 0}
+
+class_weights = {'Recurrence': {'no':0.3, 'yes':0.7},
+                 'Survival Status': {'Dead':0.8, 'Alive':0.2}}
+location_dict = {'Checked': 1, 'Unchecked':0}
+smoking_dict = {'Nonsmoker': 0,
+                'Former' : 1,
+                'Current' : 2}
+gg_dict = {'0%': 0,
+           '>0 - 25%': 1,
+           '25 - 50%': 2,
+           '50 - 75%' : 3,
+           '75 - < 100%' : 4,
+           '100%' : 5,
+           'Not Assessed': 0}