Switching import statements to work with python3

.gitignore

@@ -11,3 +11,5 @@ quality_control/reports
 testing.ipynb
 nilearn_cache/
 __pycache__/
+.scratch/
+venv/

activate

@@ -1,3 +1,3 @@
 #!/bin/bash
 
-source /shared/studies/nonregulated/connectome/venv/bin/activate
+source /shared/studies/nonregulated/connectome/fmri/preprocessing_pipeline/venv/bin/activate

preprocessing/Melodic.py

@@ -1,8 +1,8 @@
 import os
 import subprocess
 from shutil import copyfile, copytree
-from __init__ import fslDir
-from PreMelodicProcessing import Preprocessing
+from .__init__ import fslDir
+from .PreMelodicProcessing import Preprocessing
 
 
 class Melodic(Preprocessing):

preprocessing/PostMelodicProcessing.py

@@ -1,7 +1,7 @@
 import os
 import pandas as pd
-from __init__ import fslDir
-from PreMelodicProcessing import Preprocessing
+from .__init__ import fslDir
+from .PreMelodicProcessing import Preprocessing
 
 
 class PostMelodic(Preprocessing):

preprocessing/PreMelodicProcessing.py

@@ -1,7 +1,7 @@
 import os
 import subprocess
 from shutil import copyfile
-from __init__ import fslDir
+from .__init__ import fslDir
 
 
 class Preprocessing:

preprocessing/StructuralProcessing.py

@@ -1,8 +1,8 @@
 import os
 import subprocess
 import re
-from __init__ import fslDir
-from PreMelodicProcessing import Preprocessing
+from .__init__ import fslDir
+from .PreMelodicProcessing import Preprocessing
 
 
 class StructuralProcessing(Preprocessing):

requirements.in

@@ -0,0 +1,7 @@
+pandas
+numpy
+scipy
+sklearn
+nibabel
+nilearn
+begins