Merge branch 'colormap'

checkersvdsurround.py

@@ -70,11 +70,11 @@ def mahalonobis_convert(Z, pars):
 vmax = np.max(np.abs([sp1, sp2]))
 vmin = -vmax
 plt.subplot(131)
-plt.imshow(sp1, cmap='RdBu', vmin=vmin, vmax=vmax)
+plt.imshow(sp1, cmap=iof.config('colormap'), vmin=vmin, vmax=vmax)
 plt.subplot(132)
-plt.imshow(sp2, cmap='RdBu', vmin=vmin, vmax=vmax)
+plt.imshow(sp2, cmap=iof.config('colormap'), vmin=vmin, vmax=vmax)
 plt.subplot(133)
-im = plt.imshow(fit_frame, cmap='RdBu', vmin=vmin, vmax=vmax)
+im = plt.imshow(fit_frame, cmap=iof.config('colormap'), vmin=vmin, vmax=vmax)
 plf.colorbar(im, size='2%', ticks=[vmin, vmax], format='%.2f')
 plt.show()
 
@@ -86,11 +86,11 @@ def mahalonobis_convert(Z, pars):
 vmax = np.max(np.abs([sp1c, sp2c]))
 vmin = -vmax
 plt.subplot(131)
-plt.imshow(sp1c, cmap='RdBu', vmin=vmin, vmax=vmax)
+plt.imshow(sp1c, cmap=iof.config('colormap'), vmin=vmin, vmax=vmax)
 plt.subplot(132)
-plt.imshow(sp2c, cmap='RdBu', vmin=vmin, vmax=vmax)
+plt.imshow(sp2c, cmap=iof.config('colormap'), vmin=vmin, vmax=vmax)
 plt.subplot(133)
-im = plt.imshow(fit_framec, cmap='RdBu', vmin=vmin, vmax=vmax)
+im = plt.imshow(fit_framec, cmap=iof.config('colormap'), vmin=vmin, vmax=vmax)
 plf.colorbar(im, size='2%', ticks=[vmin, vmax], format='%.2f')
 plt.show()
 

modules/plotfuncs.py

@@ -9,6 +9,7 @@
 import matplotlib as mpl
 import matplotlib.pyplot as plt
 import numpy as np
+import iofuncs as iof
 
 
 def spineless(axes, which='trlb'):
@@ -253,7 +254,7 @@ def stashow(sta, ax=None, cbar=True, **kwargs):
         imshow
             extent: Change the labels of the axes. [xmin, xmax, ymin, ymax]
             aspect: Aspect ratio of the image. 'auto', 'equal'
-            cmap:  Colormap to be used. Default is 'RdBu'
+            cmap:  Colormap to be used. Default is set in config
         colorbar
             size: Width of the colorbar as percentage of image dimension
                   Default is 2%
@@ -267,7 +268,7 @@ def stashow(sta, ax=None, cbar=True, **kwargs):
     vmin = -vmax
 
     # Make a dictionary for imshow and colorbar kwargs
-    imshowkw = {'cmap':'RdBu', 'vmin':vmin, 'vmax':vmax}
+    imshowkw = {'cmap': iof.config('colormap'), 'vmin':vmin, 'vmax':vmax}
     cbarkw = {'size':'2%', 'ticks':[vmin, vmax], 'format':'%.2f'}
     for key in kwargs.keys():
         if key in ['extent', 'aspect', 'cmap']:

plot_checker_stas.py

@@ -59,7 +59,7 @@ def plot_checker_stas(exp_name, stim_nr, filename=None):
         for i in range(filter_length):
             ax = plt.subplot(subplot_arr[0], subplot_arr[1], i+1)
             im = ax.imshow(a[:, :, i], vmin=sta_min, vmax=sta_max,
-                           cmap='RdBu')
+                           cmap=iof.config('colormap'))
             ax.set_aspect('equal')
             plt.axis('off')
             if i == 0:

plotcheckersvd.py

@@ -81,7 +81,7 @@ def plotcheckersvd(expname, stimnr, filename=None):
         for j in range(len(plotthese)):
             ax = plt.subplot(rows, cols, j+1)
             im = plt.imshow(plotthese[j], vmin=vmin, vmax=vmax,
-                            cmap='RdBu')
+                            cmap=iof.config('colormap'))
             ax.set_aspect('equal')
             plt.xticks([])
             plt.yticks([])

pymer_config_default.json

@@ -23,5 +23,8 @@
     // Search and replace pairs for paths in stimulus files,
     // typically used for image or movie files on network e.g.
     // "Y:\FromPeopleToPeople\Dimos\natural_stimuli": "~/natural_stimuli"
-    "stimuli_path_replace": {}
+    "stimuli_path_replace": {},
+
+    // Common colormap for figures
+    "colormap": "seismic"
 }