Merge pull request #2304 from djarecka/matplotlib_backend

setting matplotlib backend, closes #366

Author: satra

nipype/algorithms/confounds.py

@@ -22,7 +22,7 @@
 from numpy.polynomial import Legendre
 from scipy import linalg
 
-from .. import logging
+from .. import config, logging
 from ..external.due import BibTeX
 from ..interfaces.base import (traits, TraitedSpec, BaseInterface,
                                BaseInterfaceInputSpec, File, isdefined,
@@ -816,7 +816,7 @@ def plot_confound(tseries, figsize, name, units=None,
 
     """
     import matplotlib
-    matplotlib.use('Agg')
+    matplotlib.use(config.get('execution', 'matplotlib_backend'))
     import matplotlib.pyplot as plt
     from matplotlib.gridspec import GridSpec
     from matplotlib.backends.backend_pdf import FigureCanvasPdf as FigureCanvas

nipype/algorithms/metrics.py

@@ -24,7 +24,7 @@
 from scipy.spatial.distance import cdist, euclidean, dice, jaccard
 from scipy.ndimage.measurements import center_of_mass, label
 
-from .. import logging
+from .. import config, logging
 from ..utils.misc import package_check
 
 from ..interfaces.base import (BaseInterface, traits, TraitedSpec, File,
@@ -138,6 +138,8 @@ def _eucl_mean(self, nii1, nii2, weighted=False):
 
         dist_matrix = cdist(set1_coordinates.T, set2_coordinates.T)
         min_dist_matrix = np.amin(dist_matrix, axis=0)
+        import matplotlib
+        matplotlib.use(config.get('execution', 'matplotlib_backend'))
         import matplotlib.pyplot as plt
         plt.figure()
         plt.hist(min_dist_matrix, 50, normed=1, facecolor='green')