Better handling of features configuration path

02_radiomics_features_extraction/extract_features_radiomics.py

 #%%
 import os
-from pyradiomics_radler import MyRadiomicsFeaturesExtractor as RadiomicsFeatureExtractor
+from pathlib import Path
+
 import SimpleITK as sitk
 import numpy as np
 import pandas as pd
 
-from pathlib import Path
 from tqdm import tqdm
-
+from pyradiomics_radler import MyRadiomicsFeaturesExtractor as RadiomicsFeatureExtractor
 from multiproc import ListMultiprocessing
 import warnings
 
@@ -28,22 +28,32 @@ PIXEL_SPACING = [1.0, 2.0, 3.0, 4.0, 5.0]
 #%%
 DATADIR = Path('data') / DATASET / 'processed' / 'bbox' / BBOX
 OUTDIR = Path('data') / DATASET / 'processed'
-OUTFILE = f'radiomics_features_{BBOX}.csv'  # output file name
+OUTFILE = f'radiomics_features_{BBOX}_1.csv'  # output file name
 
 clinical = pd.read_csv(Path('data') / DATASET / 'processed' / f'clinical_{DATASET}.csv')
 
 #%%
-params_shape = '02_radiomics_features_extraction/shape.yaml'  # param file to use to create the extractor
-extractor_shape = RadiomicsFeatureExtractor(params_shape)
-
-params_intensity_CT = '02_radiomics_features_extraction/intensity_CT.yaml'  # param file to use to create the extractor
-extractor_intensity_CT = RadiomicsFeatureExtractor(params_intensity_CT)
-
-params_intensity_PET = '02_radiomics_features_extraction/intensity_PET.yaml'  # param file to use to create the extractor
-extractor_intensity_PET = RadiomicsFeatureExtractor(params_intensity_PET)
-
-params_texture = '02_radiomics_features_extraction/texture.yaml'  # param file to use to create the extractor
-extractor_texture = RadiomicsFeatureExtractor(params_texture)
+FEATURES_CONFIGURATION_FOLDER = Path(__file__).parent.resolve()
+
+params_shape = (
+    FEATURES_CONFIGURATION_FOLDER / 'shape.yaml'
+)  # param file to use to create the extractor
+extractor_shape = RadiomicsFeatureExtractor(str(params_shape))
+
+params_intensity_CT = (
+    FEATURES_CONFIGURATION_FOLDER / 'intensity_CT.yaml'
+)  # param file to use to create the extractor
+extractor_intensity_CT = RadiomicsFeatureExtractor(str(params_intensity_CT))
+
+params_intensity_PET = (
+    FEATURES_CONFIGURATION_FOLDER / 'intensity_PET.yaml'
+)  # param file to use to create the extractor
+extractor_intensity_PET = RadiomicsFeatureExtractor(str(params_intensity_PET))
+
+params_texture = (
+    FEATURES_CONFIGURATION_FOLDER / 'texture.yaml'
+)  # param file to use to create the extractor
+extractor_texture = RadiomicsFeatureExtractor(str(params_texture))
 
 filenames = [f for f in os.listdir(DATADIR) if f.endswith('.npy')]
 exclude_list = []