Setup maintenance

.gitignore

@@ -0,0 +1,3 @@
+*.egg-info
+*.pyc
+__pycache__

experiments/experiment_1-2.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 import itertools
 import warnings
 from joblib import Parallel, delayed

experiments/experiment_3.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 from os.path import join as opj
 import os
 import warnings

experiments/supplementary_2-3.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 import itertools
 from joblib import Parallel, delayed
 from fmralignbench.utils import WHOLEBRAIN_DATASETS, inter_subject_align_decode

experiments/supplementary_4.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 """ File to replicate 3mm volumic results with fsaverage7 surfacic representation
 of the data. Only tested (and tractable) for "pairwise_scaled_orthogonal" method and on IBC RSVP decoding task
 """

fmralignbench/conf.py

@@ -1,2 +1,3 @@
-ROOT_FOLDER = '/storage/store2/work/tbazeill/neuroimage'
-N_JOBS = 15
+# *- encoding: utf-8 -*-
+ROOT_FOLDER = '/volatile/home/td273138/data/fmralignbenchmark'
+N_JOBS = 10

fmralignbench/fastsrm.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 """Copied from private fastSRM repo by Hugo Richard"""
 """Fast Shared Response Model (FastSRM)
 The implementation is based on the following publications:

fmralignbench/fetchers/dataset_fetcher.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 import os
 from pathlib import Path
 from sklearn.utils import Bunch

fmralignbench/intra_subject_alignment.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 """IntraSubjectAlignment class is a hack of fmralign pairwise_alignment to replicate Tavor 2016
 
 Care is needed, few changes but tricky ones :

fmralignbench/plot_utils.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 import copy
 from matplotlib.lines import Line2D
 from matplotlib import gridspec

fmralignbench/utils.py

@@ -1,3 +1,4 @@
+# *- encoding: utf-8 -*-
 import os
 import csv
 import time

fmralignbench/version.py

@@ -29,27 +29,27 @@
 #   in some meaningful order (more => less 'core').
 REQUIRED_MODULE_METADATA = (
     ('numpy', {
-        'min_version': '1.18',
+        'min_version': '1.16',
         'install_info': _BENCHMARK_INSTALL_MSG}),
     ('scipy', {
-        'min_version': '1.4',
+        'min_version': '1.2',
         'install_info': _BENCHMARK_INSTALL_MSG}),
     ('sklearn', {
         'pypi_name': 'scikit-learn',
-        'min_version': '0.22',
+        'min_version': '0.20',
         'install_info': _BENCHMARK_INSTALL_MSG}),
     ('nibabel', {
-        'min_version': '3.1',
+        'min_version': '2.5',
         'required_at_installation': True,
         'install_info': _BENCHMARK_INSTALL_MSG}),
     ('nilearn', {
-        'min_version': '0.6',
+        'min_version': '0.5',
         'install_info': _BENCHMARK_INSTALL_MSG}),
     ('matplotlib', {
-        'min_version': '3.1.1',
+        'min_version': '2.2.5',
         'install_info': _BENCHMARK_INSTALL_MSG}),
     ('pandas', {
-        'min_version': '1.1',
+        'min_version': '0.24',
         'install_info': _BENCHMARK_INSTALL_MSG}),
     ('fmralign', {
         'min_version': '0.0.2a0',

setup.py

@@ -1,4 +1,5 @@
 
+# *- encoding: utf-8 -*-
 from setuptools import setup, find_packages
 import os
 import sys