[Scipy-svn] r4482 - trunk/scipy/ndimage

scipy-svn@scip... scipy-svn@scip...
Thu Jun 26 13:49:43 CDT 2008


Author: tom.waite
Date: 2008-06-26 13:49:38 -0500 (Thu, 26 Jun 2008)
New Revision: 4482

Modified:
   trunk/scipy/ndimage/_registration.py
Log:
replace parameter vector with inverse affine matrix as input to remap_image method

Modified: trunk/scipy/ndimage/_registration.py
===================================================================
--- trunk/scipy/ndimage/_registration.py	2008-06-25 16:12:15 UTC (rev 4481)
+++ trunk/scipy/ndimage/_registration.py	2008-06-26 18:49:38 UTC (rev 4482)
@@ -1,5 +1,10 @@
+#
+# written by Tom Waite
+# rigid body 3D registration
+#
+
+
 import math
-
 import numpy as np
 from scipy.special import erf
 from scipy.ndimage import correlate1d
@@ -84,7 +89,7 @@
 
     return image, M
 
-def remap_image(image, parm_vector, resample='linear'):
+def remap_image(image, M_inverse, resample='linear'):
     """
     remaped_image = remap_image(image, parm_vector, resample='linear')
 
@@ -97,9 +102,8 @@
     image : {ndarray} 
         image is the source image to be remapped. 
 
-    parm_vector : {ndarray}
-        parm_vector is the 6-dimensional vector (3 angles, 3 translations)
-        generated from the rigid body registration.
+    M_inverse : {ndarray}
+        M_inverse is the 4x4 inverse affine matrix 
 
     resample : {'linear', 'cubic'}, optional
 
@@ -112,17 +116,12 @@
     --------
         image = fmri_series[i]
         x[0:6] = measures[i]['align_rotate'][0:6]
+	M = get_inverse_mappings(x)
         # overwrite the fMRI volume with the aligned volume
-        fmri_series[i] = remap_image(image, x, resample='cubic')
+        fmri_series[i] = remap_image(image, M, resample='cubic')
 
     """
 
-    #
-    # remap imageG to coordinates of imageF (creates imageG')
-    # use the 6 dim parm_vector (3 angles, 3 translations) to remap
-    #
-    M_inverse = get_inverse_mappings(parm_vector)
-
     # allocate the zero image
     remaped_image = np.zeros(image.shape, dtype=np.uint8)
 
@@ -137,6 +136,7 @@
 
     return remaped_image
 
+
 def get_inverse_mappings(parm_vector):
     """
     M_inverse = get_inverse_mappings(parm_vector)



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