demos updated

13 files changed, 509 insertions, 1368 deletions

diff --git a/Wrappers/Matlab/demos/demoMatlab_3Ddenoise.m b/Wrappers/Matlab/demos/demoMatlab_3Ddenoise.m
index f5c3ad1..71082e7 100644
--- a/Wrappers/Matlab/demos/demoMatlab_3Ddenoise.m
+++ b/Wrappers/Matlab/demos/demoMatlab_3Ddenoise.m
@@ -3,10 +3,10 @@
 addpath('../mex_compile/installed');
 addpath('../../../data/');
 
-N = 256; 
+N = 512; 
 slices = 30;
 vol3D = zeros(N,N,slices, 'single');
-Im = double(imread('lena_gray_256.tif'))/255;  % loading image
+Im = double(imread('lena_gray_512.tif'))/255;  % loading image
 for i = 1:slices
 vol3D(:,:,i) = Im + .05*randn(size(Im)); 
 end
@@ -17,28 +17,28 @@ figure; imshow(vol3D(:,:,15), [0 1]); title('Noisy image');
 fprintf('Denoise using ROF-TV model (CPU) \n');
 lambda_rof = 0.03; % regularisation parameter
 tau_rof = 0.0025; % time-marching constant 
-iter_rof = 1000; % number of ROF iterations
+iter_rof = 300; % number of ROF iterations
 tic; u_rof = ROF_TV(single(vol3D), lambda_rof, iter_rof, tau_rof); toc; 
 figure; imshow(u_rof(:,:,15), [0 1]); title('ROF-TV denoised volume (CPU)');
 %%
 % fprintf('Denoise using ROF-TV model (GPU) \n');
 % lambda_rof = 0.03; % regularisation parameter
 % tau_rof = 0.0025; % time-marching constant 
-% iter_rof = 1000; % number of ROF iterations
+% iter_rof = 300; % number of ROF iterations
 % tic; u_rofG = ROF_TV_GPU(single(vol3D), lambda_rof, iter_rof, tau_rof); toc;
 % figure; imshow(u_rofG(:,:,15), [0 1]); title('ROF-TV denoised volume (GPU)');
 %%
 fprintf('Denoise using FGP-TV model (CPU) \n');
 lambda_fgp = 0.03; % regularisation parameter
-iter_fgp = 500; % number of FGP iterations
+iter_fgp = 300; % number of FGP iterations
 epsil_tol =  1.0e-05; % tolerance
 tic; u_fgp = FGP_TV(single(vol3D), lambda_fgp, iter_fgp, epsil_tol); toc; 
 figure; imshow(u_fgp(:,:,15), [0 1]); title('FGP-TV denoised volume (CPU)');
 %%
 % fprintf('Denoise using FGP-TV model (GPU) \n');
 % lambda_fgp = 0.03; % regularisation parameter
-% iter_fgp = 500; % number of FGP iterations
+% iter_fgp = 300; % number of FGP iterations
 % epsil_tol =  1.0e-05; % tolerance
 % tic; u_fgpG = FGP_TV_GPU(single(vol3D), lambda_fgp, iter_fgp, epsil_tol); toc; 
 % figure; imshow(u_fgpG(:,:,15), [0 1]); title('FGP-TV denoised volume (GPU)');
-%%
\ No newline at end of file
+%%
diff --git a/Wrappers/Matlab/demos/demoMatlab_denoise.m b/Wrappers/Matlab/demos/demoMatlab_denoise.m
index ab4e95d..7f87fbb 100644
--- a/Wrappers/Matlab/demos/demoMatlab_denoise.m
+++ b/Wrappers/Matlab/demos/demoMatlab_denoise.m
@@ -3,7 +3,7 @@
 addpath('../mex_compile/installed');
 addpath('../../../data/');
 
-Im = double(imread('lena_gray_256.tif'))/255;  % loading image
+Im = double(imread('lena_gray_512.tif'))/255;  % loading image
 u0 = Im + .05*randn(size(Im)); u0(u0 < 0) = 0;
 figure; imshow(u0, [0 1]); title('Noisy image');
 
@@ -35,4 +35,4 @@ figure; imshow(u_fgp, [0 1]); title('FGP-TV denoised image (CPU)');
 % epsil_tol =  1.0e-05; % tolerance
 % tic; u_fgpG = FGP_TV_GPU(single(u0), lambda_fgp, iter_fgp, epsil_tol); toc; 
 % figure; imshow(u_fgpG, [0 1]); title('FGP-TV denoised image (GPU)');
-%%
\ No newline at end of file
+%%
diff --git a/Wrappers/Matlab/mex_compile/installed/MEXed_files_location.txt b/Wrappers/Matlab/mex_compile/installed/MEXed_files_location.txt
new file mode 100644
index 0000000..e69de29
--- /dev/null
+++ b/Wrappers/Matlab/mex_compile/installed/MEXed_files_location.txt
diff --git a/Wrappers/Python/demo/test_cpu_regularisers.py b/Wrappers/Python/demo/test_cpu_regularisers.py
deleted file mode 100644
index 4e4a2dd..0000000
--- a/Wrappers/Python/demo/test_cpu_regularisers.py
+++ /dev/null
@@ -1,323 +0,0 @@
-# -*- coding: utf-8 -*-
-"""
-Created on Fri Aug  4 11:10:05 2017
-
-@author: ofn77899
-"""
-
-import matplotlib.pyplot as plt
-import numpy as np
-import os    
-from enum import Enum
-import timeit
-from ccpi.filters.regularisers import ROF_TV, FGP_TV
-###############################################################################
-def nrmse(im1, im2):
-    a, b = im1.shape
-    rmse = np.sqrt(np.sum((im2 - im1) ** 2) / float(a * b))
-    max_val = max(np.max(im1), np.max(im2))
-    min_val = min(np.min(im1), np.min(im2))
-    return 1 - (rmse / (max_val - min_val))
-    
-def rmse(im1, im2):
-    a, b = im1.shape
-    rmse = np.sqrt(np.sum((im1 - im2) ** 2) / float(a * b))    
-    return rmse
-###############################################################################
-def printParametersToString(pars):
-        txt = r''
-        for key, value in pars.items():
-            if key== 'algorithm' :
-                txt += "{0} = {1}".format(key, value.__name__)
-            elif key == 'input':
-                txt += "{0} = {1}".format(key, np.shape(value))
-            else:
-                txt += "{0} = {1}".format(key, value)
-            txt += '\n'
-        return txt
-###############################################################################
-#
-#  2D Regularizers
-#
-###############################################################################
-# assumes the script is launched from the test directory
-filename = os.path.join(".." , ".." , ".." , "data" ,"lena_gray_512.tif")
-
-Im = plt.imread(filename)                     
-Im = np.asarray(Im, dtype='float32')
-
-Im = Im/255
-
-perc = 0.075
-u0 = Im + np.random.normal(loc = Im ,
-                                  scale = perc * Im , 
-                                  size = np.shape(Im))
-# map the u0 u0->u0>0
-f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
-u0 = f(u0).astype('float32')
-
-## plot 
-fig = plt.figure()
-
-a=fig.add_subplot(2,4,1)
-a.set_title('noise')
-imgplot = plt.imshow(u0,cmap="gray"
-                     )
-
-reg_output = []
-##############################################################################
-# Call regularisers
-
-###################### FGP_TV #########################################
-
-start_time = timeit.default_timer()
-pars = {'algorithm' : FGP_TV , \
-        'input' : u0,\
-        'regularisation_parameter':0.07, \
-        'number_of_iterations' :300 ,\
-        'tolerance_constant':0.00001,\
-        'methodTV': 0 ,\
-        'nonneg': 0 ,\
-        'printingOut': 0 
-        }
-
-fgp = FGP_TV(pars['input'], 
-              pars['regularisation_parameter'],
-              pars['number_of_iterations'],
-              pars['tolerance_constant'], 
-              pars['methodTV'],
-              pars['nonneg'],
-              pars['printingOut'], 'cpu')  
-
-rms = rmse(Im, fgp)
-pars['rmse'] = rms
-
-txtstr = printParametersToString(pars)
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)       
-
-
-a=fig.add_subplot(2,4,3)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-imgplot = plt.imshow(fgp, \
-                     cmap="gray"
-                     )
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, txtstr, transform=a.transAxes, fontsize=14,
-        verticalalignment='top', bbox=props)
-
-# ###################### ROF_TV #########################################
-
-start_time = timeit.default_timer()
-
-pars = {'algorithm': ROF_TV , \
-        'input' : u0,\
-        'regularisation_parameter':0.07,\
-        'marching_step': 0.0025,\
-        'number_of_iterations': 300
-        }
-rof = ROF_TV(pars['input'],
-			 pars['regularisation_parameter'],
-             pars['number_of_iterations'],             
-             pars['marching_step'], 'cpu')
-
-rms = rmse(Im, rof)
-pars['rmse'] = rms
-
-txtstr = printParametersToString(pars)
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)
-a=fig.add_subplot(2,4,7)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, txtstr, transform=a.transAxes, fontsize=14,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow(rof, cmap="gray")
-
-plt.show()
-
-################################################################################
-##
-##  3D Regularizers
-##
-################################################################################
-##Example:
-## figure;
-## Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-## u0 = Im + .05*randn(size(Im)); u0(u0 < 0) = 0;
-## u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-#
-##filename = r"C:\Users\ofn77899\Documents\GitHub\CCPi-Reconstruction\python\test\reconstruction_example.mha"
-#filename = r"C:\Users\ofn77899\Documents\GitHub\CCPi-Simpleflex\data\head.mha"
-#
-#reader = vtk.vtkMetaImageReader()
-#reader.SetFileName(os.path.normpath(filename))
-#reader.Update()
-##vtk returns 3D images, let's take just the one slice there is as 2D
-#Im = Converter.vtk2numpy(reader.GetOutput())
-#Im = Im.astype('float32')
-##imgplot = plt.imshow(Im)
-#perc = 0.05
-#u0 = Im + (perc* np.random.normal(size=np.shape(Im)))
-## map the u0 u0->u0>0
-#f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
-#u0 = f(u0).astype('float32')
-#converter = Converter.numpy2vtkImporter(u0, reader.GetOutput().GetSpacing(),
-#                                        reader.GetOutput().GetOrigin())
-#converter.Update()
-#writer = vtk.vtkMetaImageWriter()
-#writer.SetInputData(converter.GetOutput())
-#writer.SetFileName(r"C:\Users\ofn77899\Documents\GitHub\CCPi-FISTA_reconstruction\data\noisy_head.mha")
-##writer.Write()
-#
-#
-### plot 
-#fig3D = plt.figure()
-##a=fig.add_subplot(3,3,1)
-##a.set_title('Original')
-##imgplot = plt.imshow(Im)
-#sliceNo = 32
-#
-#a=fig3D.add_subplot(2,4,1)
-#a.set_title('noise')
-#imgplot = plt.imshow(u0.T[sliceNo])
-#
-#reg_output3d = []
-#
-###############################################################################
-## Call regularizer
-#
-######################## SplitBregman_TV #####################################
-## u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-#
-##reg = Regularizer(Regularizer.Algorithm.SplitBregman_TV)
-#
-##out = reg(input=u0, regularization_parameter=10., #number_of_iterations=30,
-##          #tolerance_constant=1e-4, 
-##          TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-#
-#out2 = Regularizer.SplitBregman_TV(input=u0, regularization_parameter=10., number_of_iterations=30,
-#          tolerance_constant=1e-4, 
-#          TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-#
-#
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,4,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### FGP_TV #########################################
-## u = FGP_TV(single(u0), 0.05, 100, 1e-04);
-#out2 = Regularizer.FGP_TV(input=u0, regularization_parameter=0.005,
-#                          number_of_iterations=200)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,4,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### LLT_model #########################################
-## * u0 = Im + .03*randn(size(Im)); % adding noise
-## [Den] = LLT_model(single(u0), 10, 0.1, 1);
-##Den = LLT_model(single(u0), 25, 0.0003, 300, 0.0001, 0); 
-##input, regularization_parameter , time_step, number_of_iterations,
-##                  tolerance_constant, restrictive_Z_smoothing=0
-#out2 = Regularizer.LLT_model(input=u0, regularization_parameter=25,
-#                          time_step=0.0003,
-#                          tolerance_constant=0.0001,
-#                          number_of_iterations=300)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,4,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### PatchBased_Regul #########################################
-## Quick 2D denoising example in Matlab:   
-##   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-##   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-##   ImDen = PB_Regul_CPU(single(u0), 3, 1, 0.08, 0.05); 
-#
-#out2 = Regularizer.PatchBased_Regul(input=u0, regularization_parameter=0.05,
-#                          searching_window_ratio=3,
-#                          similarity_window_ratio=1,
-#                          PB_filtering_parameter=0.08)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,4,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-
-###################### TGV_PD #########################################
-# Quick 2D denoising example in Matlab:   
-#   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-#   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-#   u = PrimalDual_TGV(single(u0), 0.02, 1.3, 1, 550);
-
-
-#out2 = Regularizer.TGV_PD(input=u0, regularization_parameter=0.05,
-#                          first_order_term=1.3,
-#                          second_order_term=1,
-#                          number_of_iterations=550)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,4,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
diff --git a/Wrappers/Python/demos/demo_cpu_regularisers.py b/Wrappers/Python/demos/demo_cpu_regularisers.py
new file mode 100644
index 0000000..84d86c0
--- /dev/null
+++ b/Wrappers/Python/demos/demo_cpu_regularisers.py
@@ -0,0 +1,243 @@
+#!/usr/bin/env python3
+# -*- coding: utf-8 -*-
+"""
+Created on Thu Feb 22 11:39:43 2018
+
+Demonstration of CPU regularisers 
+
+@authors: Daniil Kazantsev, Edoardo Pasca
+"""
+
+import matplotlib.pyplot as plt
+import numpy as np
+import os
+import timeit
+from ccpi.filters.regularisers import ROF_TV, FGP_TV
+from qualitymetrics import rmse
+###############################################################################
+def printParametersToString(pars):
+        txt = r''
+        for key, value in pars.items():
+            if key== 'algorithm' :
+                txt += "{0} = {1}".format(key, value.__name__)
+            elif key == 'input':
+                txt += "{0} = {1}".format(key, np.shape(value))
+            else:
+                txt += "{0} = {1}".format(key, value)
+            txt += '\n'
+        return txt
+###############################################################################
+
+filename = os.path.join(".." , ".." , ".." , "data" ,"lena_gray_512.tif")
+
+# read image
+Im = plt.imread(filename)                     
+Im = np.asarray(Im, dtype='float32')
+
+Im = Im/255
+perc = 0.05
+u0 = Im + np.random.normal(loc = 0 ,
+                                  scale = perc * Im , 
+                                  size = np.shape(Im))
+# map the u0 u0->u0>0
+# f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
+u0 = u0.astype('float32')
+
+
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+print ("_______________ROF-TV (2D)_________________")
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+
+## plot 
+fig = plt.figure(1)
+plt.suptitle('Performance of ROF-TV regulariser using the CPU')
+a=fig.add_subplot(1,2,1)
+a.set_title('Noisy Image')
+imgplot = plt.imshow(u0,cmap="gray")
+
+# set parameters
+pars = {'algorithm': ROF_TV, \
+        'input' : u0,\
+        'regularisation_parameter':0.04,\
+        'number_of_iterations': 1200,\
+        'time_marching_parameter': 0.0025        
+        }
+print ("#############ROF TV CPU####################")
+start_time = timeit.default_timer()
+rof_cpu = ROF_TV(pars['input'],
+             pars['regularisation_parameter'],
+             pars['number_of_iterations'],
+             pars['time_marching_parameter'],'cpu')
+rms = rmse(Im, rof_cpu)
+pars['rmse'] = rms
+
+txtstr = printParametersToString(pars)
+txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
+print (txtstr)
+a=fig.add_subplot(1,2,2)
+
+# these are matplotlib.patch.Patch properties
+props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
+# place a text box in upper left in axes coords
+a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=14,
+         verticalalignment='top', bbox=props)
+imgplot = plt.imshow(rof_cpu, cmap="gray")
+plt.title('{}'.format('CPU results'))
+
+
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+print ("_______________FGP-TV (2D)__________________")
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+
+## plot 
+fig = plt.figure(2)
+plt.suptitle('Performance of FGP-TV regulariser using the CPU')
+a=fig.add_subplot(1,2,1)
+a.set_title('Noisy Image')
+imgplot = plt.imshow(u0,cmap="gray")
+
+# set parameters
+pars = {'algorithm' : FGP_TV, \
+        'input' : u0,\
+        'regularisation_parameter':0.04, \
+        'number_of_iterations' :1200 ,\
+        'tolerance_constant':0.00001,\
+        'methodTV': 0 ,\
+        'nonneg': 0 ,\
+        'printingOut': 0 
+        }
+        
+print ("#############FGP TV CPU####################")
+start_time = timeit.default_timer()
+fgp_cpu = FGP_TV(pars['input'], 
+              pars['regularisation_parameter'],
+              pars['number_of_iterations'],
+              pars['tolerance_constant'], 
+              pars['methodTV'],
+              pars['nonneg'],
+              pars['printingOut'],'cpu')  
+             
+             
+rms = rmse(Im, fgp_cpu)
+pars['rmse'] = rms
+
+txtstr = printParametersToString(pars)
+txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
+print (txtstr)
+a=fig.add_subplot(1,2,2)
+
+# these are matplotlib.patch.Patch properties
+props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
+# place a text box in upper left in axes coords
+a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=14,
+         verticalalignment='top', bbox=props)
+imgplot = plt.imshow(fgp_cpu, cmap="gray")
+plt.title('{}'.format('CPU results'))
+
+# Uncomment to test 3D regularisation performance 
+"""
+N = 512
+slices = 20
+
+Im = plt.imread(filename)
+Im = np.asarray(Im, dtype='float32')
+
+Im = Im/255
+perc = 0.05
+
+noisyVol = np.zeros((N,N,slices),dtype='float32')
+idealVol = np.zeros((N,N,slices),dtype='float32')
+
+for i in range (slices):
+    noisyVol[:,:,i] = Im + np.random.normal(loc = 0 , scale = perc * Im , size = np.shape(Im))
+    idealVol[:,:,i] = Im
+
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+print ("_______________ROF-TV (3D)_________________")
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+
+## plot 
+fig = plt.figure(3)
+plt.suptitle('Performance of ROF-TV regulariser using the CPU')
+a=fig.add_subplot(1,2,1)
+a.set_title('Noisy 15th slice of a volume')
+imgplot = plt.imshow(noisyVol[:,:,10],cmap="gray")
+
+# set parameters
+pars = {'algorithm': ROF_TV, \
+        'input' : noisyVol,\
+        'regularisation_parameter':0.04,\
+        'number_of_iterations': 500,\
+        'time_marching_parameter': 0.0025        
+        }
+print ("#############ROF TV CPU####################")
+start_time = timeit.default_timer()
+rof_cpu3D = ROF_TV(pars['input'],
+             pars['regularisation_parameter'],
+             pars['number_of_iterations'],
+             pars['time_marching_parameter'],'cpu')
+rms = rmse(idealVol, rof_cpu3D)
+pars['rmse'] = rms
+
+txtstr = printParametersToString(pars)
+txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
+print (txtstr)
+a=fig.add_subplot(1,2,2)
+
+# these are matplotlib.patch.Patch properties
+props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
+# place a text box in upper left in axes coords
+a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=14,
+         verticalalignment='top', bbox=props)
+imgplot = plt.imshow(rof_cpu3D[:,:,10], cmap="gray")
+plt.title('{}'.format('Recovered volume on the CPU using ROF-TV'))
+
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+print ("_______________FGP-TV (3D)__________________")
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+
+## plot 
+fig = plt.figure(4)
+plt.suptitle('Performance of FGP-TV regulariser using the CPU')
+a=fig.add_subplot(1,2,1)
+a.set_title('Noisy Image')
+imgplot = plt.imshow(noisyVol[:,:,10],cmap="gray")
+
+# set parameters
+pars = {'algorithm' : FGP_TV, \
+        'input' : noisyVol,\
+        'regularisation_parameter':0.04, \
+        'number_of_iterations' :300 ,\
+        'tolerance_constant':0.00001,\
+        'methodTV': 0 ,\
+        'nonneg': 0 ,\
+        'printingOut': 0 
+        }
+        
+print ("#############FGP TV CPU####################")
+start_time = timeit.default_timer()
+fgp_cpu3D = FGP_TV(pars['input'], 
+              pars['regularisation_parameter'],
+              pars['number_of_iterations'],
+              pars['tolerance_constant'], 
+              pars['methodTV'],
+              pars['nonneg'],
+              pars['printingOut'],'cpu')  
+             
+             
+rms = rmse(idealVol, fgp_cpu3D)
+pars['rmse'] = rms
+
+txtstr = printParametersToString(pars)
+txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
+print (txtstr)
+a=fig.add_subplot(1,2,2)
+
+# these are matplotlib.patch.Patch properties
+props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
+# place a text box in upper left in axes coords
+a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=14,
+         verticalalignment='top', bbox=props)
+imgplot = plt.imshow(fgp_cpu3D[:,:,10], cmap="gray")
+plt.title('{}'.format('Recovered volume on the CPU using FGP-TV'))
+"""
\ No newline at end of file
diff --git a/Wrappers/Python/test/test_cpu_vs_gpu_regularisers.py b/Wrappers/Python/demos/demo_cpu_vs_gpu_regularisers.py
index 15e9042..cfe2e7d 100644
--- a/Wrappers/Python/test/test_cpu_vs_gpu_regularisers.py
+++ b/Wrappers/Python/demos/demo_cpu_vs_gpu_regularisers.py
@@ -3,9 +3,9 @@
 """
 Created on Thu Feb 22 11:39:43 2018
 
-Testing CPU implementation against the GPU one
+Demonstration of CPU implementation against the GPU one
 
-@author: Daniil Kazantsev
+@authors: Daniil Kazantsev, Edoardo Pasca
 """
 
 import matplotlib.pyplot as plt
@@ -13,7 +13,7 @@ import numpy as np
 import os
 import timeit
 from ccpi.filters.regularisers import ROF_TV, FGP_TV
-
+from qualitymetrics import rmse
 ###############################################################################
 def printParametersToString(pars):
         txt = r''
@@ -27,11 +27,7 @@ def printParametersToString(pars):
             txt += '\n'
         return txt
 ###############################################################################
-def rmse(im1, im2):
-    a, b = im1.shape
-    rmse = np.sqrt(np.sum((im1 - im2) ** 2) / float(a * b))    
-    return rmse
-        
+
 filename = os.path.join(".." , ".." , ".." , "data" ,"lena_gray_512.tif")
 
 # read image
@@ -39,13 +35,13 @@ Im = plt.imread(filename)
 Im = np.asarray(Im, dtype='float32')
 
 Im = Im/255
-perc = 0.075
-u0 = Im + np.random.normal(loc = Im ,
+perc = 0.05
+u0 = Im + np.random.normal(loc = 0 ,
                                   scale = perc * Im , 
                                   size = np.shape(Im))
 # map the u0 u0->u0>0
-f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
-u0 = f(u0).astype('float32')
+# f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
+u0 = u0.astype('float32')
 
 
 print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
diff --git a/Wrappers/Python/demos/demo_gpu_regularisers.py b/Wrappers/Python/demos/demo_gpu_regularisers.py
new file mode 100644
index 0000000..fd7b32c
--- /dev/null
+++ b/Wrappers/Python/demos/demo_gpu_regularisers.py
@@ -0,0 +1,247 @@
+#!/usr/bin/env python3
+# -*- coding: utf-8 -*-
+"""
+Created on Thu Feb 22 11:39:43 2018
+
+Demonstration of GPU regularisers
+
+@authors: Daniil Kazantsev, Edoardo Pasca
+"""
+
+import matplotlib.pyplot as plt
+import numpy as np
+import os
+import timeit
+from ccpi.filters.regularisers import ROF_TV, FGP_TV
+from qualitymetrics import rmse
+###############################################################################
+def printParametersToString(pars):
+        txt = r''
+        for key, value in pars.items():
+            if key== 'algorithm' :
+                txt += "{0} = {1}".format(key, value.__name__)
+            elif key == 'input':
+                txt += "{0} = {1}".format(key, np.shape(value))
+            else:
+                txt += "{0} = {1}".format(key, value)
+            txt += '\n'
+        return txt
+###############################################################################
+
+filename = os.path.join(".." , ".." , ".." , "data" ,"lena_gray_512.tif")
+
+# read image
+Im = plt.imread(filename)                     
+Im = np.asarray(Im, dtype='float32')
+
+Im = Im/255
+perc = 0.05
+u0 = Im + np.random.normal(loc = 0 ,
+                                  scale = perc * Im , 
+                                  size = np.shape(Im))
+# map the u0 u0->u0>0
+# f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
+u0 = u0.astype('float32')
+
+
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+print ("____________ROF-TV bench___________________")
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+
+## plot 
+fig = plt.figure(1)
+plt.suptitle('Performance of the ROF-TV regulariser using the GPU')
+a=fig.add_subplot(1,4,1)
+a.set_title('Noisy Image')
+imgplot = plt.imshow(u0,cmap="gray")
+
+# set parameters
+pars = {'algorithm': ROF_TV, \
+        'input' : u0,\
+        'regularisation_parameter':0.04,\
+        'number_of_iterations': 1200,\
+        'time_marching_parameter': 0.0025        
+        }
+print ("##############ROF TV GPU##################")
+start_time = timeit.default_timer()
+rof_gpu = ROF_TV(pars['input'], 
+                     pars['regularisation_parameter'],
+                     pars['number_of_iterations'], 
+                     pars['time_marching_parameter'],'gpu')
+                     
+rms = rmse(Im, rof_gpu)
+pars['rmse'] = rms
+pars['algorithm'] = ROF_TV
+txtstr = printParametersToString(pars)
+txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
+print (txtstr)
+a=fig.add_subplot(1,4,3)
+
+# these are matplotlib.patch.Patch properties
+props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
+# place a text box in upper left in axes coords
+a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=14,
+         verticalalignment='top', bbox=props)
+imgplot = plt.imshow(rof_gpu, cmap="gray")
+plt.title('{}'.format('GPU results'))
+
+
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+print ("____________FGP-TV bench___________________")
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+
+## plot 
+fig = plt.figure(2)
+plt.suptitle('Performance of the FGP-TV regulariser using the GPU')
+a=fig.add_subplot(1,4,1)
+a.set_title('Noisy Image')
+imgplot = plt.imshow(u0,cmap="gray")
+
+# set parameters
+pars = {'algorithm' : FGP_TV, \
+        'input' : u0,\
+        'regularisation_parameter':0.04, \
+        'number_of_iterations' :1200 ,\
+        'tolerance_constant':0.00001,\
+        'methodTV': 0 ,\
+        'nonneg': 0 ,\
+        'printingOut': 0 
+        }
+
+print ("##############FGP TV GPU##################")
+start_time = timeit.default_timer()
+fgp_gpu = FGP_TV(pars['input'], 
+              pars['regularisation_parameter'],
+              pars['number_of_iterations'],
+              pars['tolerance_constant'], 
+              pars['methodTV'],
+              pars['nonneg'],
+              pars['printingOut'],'gpu')
+                                   
+rms = rmse(Im, fgp_gpu)
+pars['rmse'] = rms
+pars['algorithm'] = FGP_TV
+txtstr = printParametersToString(pars)
+txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
+print (txtstr)
+a=fig.add_subplot(1,4,3)
+
+# these are matplotlib.patch.Patch properties
+props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
+# place a text box in upper left in axes coords
+a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=14,
+         verticalalignment='top', bbox=props)
+imgplot = plt.imshow(fgp_gpu, cmap="gray")
+plt.title('{}'.format('GPU results'))
+
+
+# Uncomment to test 3D regularisation performance 
+"""
+N = 512
+slices = 20
+
+Im = plt.imread(filename)
+Im = np.asarray(Im, dtype='float32')
+
+Im = Im/255
+perc = 0.05
+
+noisyVol = np.zeros((N,N,slices),dtype='float32')
+idealVol = np.zeros((N,N,slices),dtype='float32')
+
+for i in range (slices):
+    noisyVol[:,:,i] = Im + np.random.normal(loc = 0 , scale = perc * Im , size = np.shape(Im))
+    idealVol[:,:,i] = Im
+
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+print ("_______________ROF-TV (3D)_________________")
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+
+## plot 
+fig = plt.figure(3)
+plt.suptitle('Performance of ROF-TV regulariser using the GPU')
+a=fig.add_subplot(1,2,1)
+a.set_title('Noisy 15th slice of a volume')
+imgplot = plt.imshow(noisyVol[:,:,10],cmap="gray")
+
+# set parameters
+pars = {'algorithm': ROF_TV, \
+        'input' : noisyVol,\
+        'regularisation_parameter':0.04,\
+        'number_of_iterations': 500,\
+        'time_marching_parameter': 0.0025        
+        }
+print ("#############ROF TV CPU####################")
+start_time = timeit.default_timer()
+rof_gpu3D = ROF_TV(pars['input'],
+             pars['regularisation_parameter'],
+             pars['number_of_iterations'],
+             pars['time_marching_parameter'],'gpu')
+rms = rmse(idealVol, rof_gpu3D)
+pars['rmse'] = rms
+
+txtstr = printParametersToString(pars)
+txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
+print (txtstr)
+a=fig.add_subplot(1,2,2)
+
+# these are matplotlib.patch.Patch properties
+props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
+# place a text box in upper left in axes coords
+a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=14,
+         verticalalignment='top', bbox=props)
+imgplot = plt.imshow(rof_gpu3D[:,:,10], cmap="gray")
+plt.title('{}'.format('Recovered volume on the GPU using ROF-TV'))
+
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+print ("_______________FGP-TV (3D)__________________")
+print ("%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%")
+
+## plot 
+fig = plt.figure(4)
+plt.suptitle('Performance of FGP-TV regulariser using the GPU')
+a=fig.add_subplot(1,2,1)
+a.set_title('Noisy Image')
+imgplot = plt.imshow(noisyVol[:,:,10],cmap="gray")
+
+# set parameters
+pars = {'algorithm' : FGP_TV, \
+        'input' : noisyVol,\
+        'regularisation_parameter':0.04, \
+        'number_of_iterations' :300 ,\
+        'tolerance_constant':0.00001,\
+        'methodTV': 0 ,\
+        'nonneg': 0 ,\
+        'printingOut': 0 
+        }
+        
+print ("#############FGP TV CPU####################")
+start_time = timeit.default_timer()
+fgp_gpu3D = FGP_TV(pars['input'], 
+              pars['regularisation_parameter'],
+              pars['number_of_iterations'],
+              pars['tolerance_constant'], 
+              pars['methodTV'],
+              pars['nonneg'],
+              pars['printingOut'],'gpu')  
+             
+             
+rms = rmse(idealVol, fgp_gpu3D)
+pars['rmse'] = rms
+
+txtstr = printParametersToString(pars)
+txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
+print (txtstr)
+a=fig.add_subplot(1,2,2)
+
+# these are matplotlib.patch.Patch properties
+props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
+# place a text box in upper left in axes coords
+a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=14,
+         verticalalignment='top', bbox=props)
+imgplot = plt.imshow(fgp_gpu3D[:,:,10], cmap="gray")
+plt.title('{}'.format('Recovered volume on the GPU using FGP-TV'))
+
+"""
+
+
diff --git a/Wrappers/Python/test/metrics.py b/Wrappers/Python/demos/qualitymetrics.py
index 53f68fb..32fa479 100644
--- a/Wrappers/Python/test/metrics.py
+++ b/Wrappers/Python/demos/qualitymetrics.py
@@ -3,7 +3,7 @@
 """
 Created on Wed Feb 21 13:34:32 2018
 # quality metrics
-@author: algol
+@authors: Daniil Kazantsev, Edoardo Pasca
 """
 import numpy as np
 
@@ -17,4 +17,4 @@ def nrmse(im1, im2):
 def rmse(im1, im2):
     a, b = im1.shape
     rmse = np.sqrt(np.sum((im1 - im2) ** 2) / float(a * b))    
-    return rmse
\ No newline at end of file
+    return rmse
diff --git a/Wrappers/Python/test/__pycache__/metrics.cpython-35.pyc b/Wrappers/Python/test/__pycache__/metrics.cpython-35.pyc
new file mode 100644
index 0000000..2196a53
--- /dev/null
+++ b/Wrappers/Python/test/__pycache__/metrics.cpython-35.pyc
diff --git a/Wrappers/Python/test/test_cpu_regularisers.py b/Wrappers/Python/test/test_cpu_regularisers.py
deleted file mode 100644
index 9713baa..0000000
--- a/Wrappers/Python/test/test_cpu_regularisers.py
+++ /dev/null
@@ -1,442 +0,0 @@
-# -*- coding: utf-8 -*-
-"""
-Created on Fri Aug  4 11:10:05 2017
-
-@author: ofn77899
-"""
-
-
-import matplotlib.pyplot as plt
-import numpy as np
-import os    
-from enum import Enum
-import timeit
-from ccpi.filters.cpu_regularizers_boost import SplitBregman_TV , FGP_TV ,\
-                                                 LLT_model, PatchBased_Regul ,\
-                                                 TGV_PD
-
-###############################################################################
-#https://stackoverflow.com/questions/13875989/comparing-image-in-url-to-image-in-filesystem-in-python/13884956#13884956
-#NRMSE a normalization of the root of the mean squared error
-#NRMSE is simply 1 - [RMSE / (maxval - minval)]. Where maxval is the maximum
-# intensity from the two images being compared, and respectively the same for
-# minval. RMSE is given by the square root of MSE: 
-# sqrt[(sum(A - B) ** 2) / |A|],
-# where |A| means the number of elements in A. By doing this, the maximum value
-# given by RMSE is maxval.
-
-def nrmse(im1, im2):
-    a, b = im1.shape
-    rmse = np.sqrt(np.sum((im2 - im1) ** 2) / float(a * b))
-    max_val = max(np.max(im1), np.max(im2))
-    min_val = min(np.min(im1), np.min(im2))
-    return 1 - (rmse / (max_val - min_val))
-###############################################################################
-def printParametersToString(pars):
-        txt = r''
-        for key, value in pars.items():
-            if key== 'algorithm' :
-                txt += "{0} = {1}".format(key, value.__name__)
-            elif key == 'input':
-                txt += "{0} = {1}".format(key, np.shape(value))
-            else:
-                txt += "{0} = {1}".format(key, value)
-            txt += '\n'
-        return txt
-###############################################################################
-#
-#  2D Regularizers
-#
-###############################################################################
-#Example:
-# figure;
-# Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-# u0 = Im + .05*randn(size(Im)); u0(u0 < 0) = 0;
-# u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-
-# assumes the script is launched from the test directory
-filename = os.path.join(".." , ".." , ".." , "data" ,"lena_gray_512.tif")
-#filename = r"C:\Users\ofn77899\Documents\GitHub\CCPi-FISTA_reconstruction\data\lena_gray_512.tif"
-#filename = r"/home/ofn77899/Reconstruction/CCPi-FISTA_Reconstruction/data/lena_gray_512.tif"
-#filename = r'/home/algol/Documents/Python/STD_test_images/lena_gray_512.tif'
-
-Im = plt.imread(filename)                     
-Im = np.asarray(Im, dtype='float32')
-
-perc = 0.15
-u0 = Im + np.random.normal(loc = Im ,
-                                  scale = perc * Im , 
-                                  size = np.shape(Im))
-# map the u0 u0->u0>0
-f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
-u0 = f(u0).astype('float32')
-
-## plot 
-fig = plt.figure()
-
-a=fig.add_subplot(2,3,1)
-a.set_title('noise')
-imgplot = plt.imshow(u0#,cmap="gray"
-                     )
-
-reg_output = []
-##############################################################################
-# Call regularizer
-
-####################### SplitBregman_TV #####################################
-# u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-
-start_time = timeit.default_timer()
-pars = {'algorithm' : SplitBregman_TV , \
-        'input' : u0,
-        'regularization_parameter':10. , \
-'number_of_iterations' :35 ,\
-'tolerance_constant':0.0001 , \
-'TV_penalty': 0
-}
-
-out = SplitBregman_TV (pars['input'], pars['regularization_parameter'],
-                              pars['number_of_iterations'],
-                              pars['tolerance_constant'],
-                              pars['TV_penalty'])  
-splitbregman = out[0]
-txtstr = printParametersToString(pars) 
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)
-    
-
-a=fig.add_subplot(2,3,2)
-
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, txtstr, transform=a.transAxes, fontsize=14,
-        verticalalignment='top', bbox=props)
-imgplot = plt.imshow(splitbregman,\
-                     #cmap="gray"
-                     )
-
-###################### FGP_TV #########################################
-# u = FGP_TV(single(u0), 0.05, 100, 1e-04);
-start_time = timeit.default_timer()
-pars = {'algorithm' : FGP_TV , \
-        'input' : u0,
-        'regularization_parameter':5e-4, \
-        'number_of_iterations' :10 ,\
-        'tolerance_constant':0.001,\
-        'TV_penalty': 0
-}
-
-out = FGP_TV (pars['input'], 
-              pars['regularization_parameter'],
-              pars['number_of_iterations'],
-              pars['tolerance_constant'], 
-              pars['TV_penalty'])  
-
-fgp = out[0]
-txtstr = printParametersToString(pars)
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)       
-
-
-a=fig.add_subplot(2,3,3)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-imgplot = plt.imshow(fgp, \
-                     #cmap="gray"
-                     )
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, txtstr, transform=a.transAxes, fontsize=14,
-        verticalalignment='top', bbox=props)
-
-###################### LLT_model #########################################
-
-start_time = timeit.default_timer()
-
-pars = {'algorithm': LLT_model , \
-        'input' : u0,
-        'regularization_parameter': 25,\
-        'time_step':0.0003, \
-        'number_of_iterations' :300,\
-        'tolerance_constant':0.001,\
-        'restrictive_Z_smoothing': 0
-}
-out = LLT_model(pars['input'], 
-                pars['regularization_parameter'],
-                pars['time_step'] , 
-                pars['number_of_iterations'],
-                pars['tolerance_constant'],
-                pars['restrictive_Z_smoothing'] )
-
-llt = out[0]
-txtstr = printParametersToString(pars)
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)
-a=fig.add_subplot(2,3,4)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, txtstr, transform=a.transAxes, fontsize=14,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow(llt,\
-                     #cmap="gray"
-                     )
-
-
-# ###################### PatchBased_Regul #########################################
-# # Quick 2D denoising example in Matlab:   
-# #   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-# #   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-# #   ImDen = PB_Regul_CPU(single(u0), 3, 1, 0.08, 0.05); 
-start_time = timeit.default_timer()
-
-pars = {'algorithm': PatchBased_Regul , \
-        'input' : u0,
-        'regularization_parameter': 0.05,\
-        'searching_window_ratio':3, \
-        'similarity_window_ratio':1,\
-        'PB_filtering_parameter': 0.08
-}
-out = PatchBased_Regul(pars['input'], 
-                       pars['regularization_parameter'],
-                       pars['searching_window_ratio'] , 
-                       pars['similarity_window_ratio'] , 
-                       pars['PB_filtering_parameter'])
-pbr = out[0]
-txtstr = printParametersToString(pars)
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)
-
-a=fig.add_subplot(2,3,5)
-
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, txtstr, transform=a.transAxes, fontsize=14,
-        verticalalignment='top', bbox=props)
-imgplot = plt.imshow(pbr #,cmap="gray"
-                     )
-
-
-# ###################### TGV_PD #########################################
-# # Quick 2D denoising example in Matlab:   
-# #   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-# #   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-# #   u = PrimalDual_TGV(single(u0), 0.02, 1.3, 1, 550);
-
-start_time = timeit.default_timer()
-
-pars = {'algorithm': TGV_PD , \
-        'input' : u0,\
-        'regularization_parameter':0.05,\
-        'first_order_term': 1.3,\
-        'second_order_term': 1, \
-        'number_of_iterations': 550
-        }
-out = TGV_PD(pars['input'],
-             pars['regularization_parameter'],
-             pars['first_order_term'] , 
-             pars['second_order_term'] , 
-             pars['number_of_iterations'])
-tgv = out[0]
-txtstr = printParametersToString(pars)
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)
-a=fig.add_subplot(2,3,6)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, txtstr, transform=a.transAxes, fontsize=14,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow(tgv #, cmap="gray")
-                     )
-
-
-plt.show()
-
-################################################################################
-##
-##  3D Regularizers
-##
-################################################################################
-##Example:
-## figure;
-## Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-## u0 = Im + .05*randn(size(Im)); u0(u0 < 0) = 0;
-## u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-#
-##filename = r"C:\Users\ofn77899\Documents\GitHub\CCPi-Reconstruction\python\test\reconstruction_example.mha"
-#filename = r"C:\Users\ofn77899\Documents\GitHub\CCPi-Simpleflex\data\head.mha"
-#
-#reader = vtk.vtkMetaImageReader()
-#reader.SetFileName(os.path.normpath(filename))
-#reader.Update()
-##vtk returns 3D images, let's take just the one slice there is as 2D
-#Im = Converter.vtk2numpy(reader.GetOutput())
-#Im = Im.astype('float32')
-##imgplot = plt.imshow(Im)
-#perc = 0.05
-#u0 = Im + (perc* np.random.normal(size=np.shape(Im)))
-## map the u0 u0->u0>0
-#f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
-#u0 = f(u0).astype('float32')
-#converter = Converter.numpy2vtkImporter(u0, reader.GetOutput().GetSpacing(),
-#                                        reader.GetOutput().GetOrigin())
-#converter.Update()
-#writer = vtk.vtkMetaImageWriter()
-#writer.SetInputData(converter.GetOutput())
-#writer.SetFileName(r"C:\Users\ofn77899\Documents\GitHub\CCPi-FISTA_reconstruction\data\noisy_head.mha")
-##writer.Write()
-#
-#
-### plot 
-#fig3D = plt.figure()
-##a=fig.add_subplot(3,3,1)
-##a.set_title('Original')
-##imgplot = plt.imshow(Im)
-#sliceNo = 32
-#
-#a=fig3D.add_subplot(2,3,1)
-#a.set_title('noise')
-#imgplot = plt.imshow(u0.T[sliceNo])
-#
-#reg_output3d = []
-#
-###############################################################################
-## Call regularizer
-#
-######################## SplitBregman_TV #####################################
-## u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-#
-##reg = Regularizer(Regularizer.Algorithm.SplitBregman_TV)
-#
-##out = reg(input=u0, regularization_parameter=10., #number_of_iterations=30,
-##          #tolerance_constant=1e-4, 
-##          TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-#
-#out2 = Regularizer.SplitBregman_TV(input=u0, regularization_parameter=10., number_of_iterations=30,
-#          tolerance_constant=1e-4, 
-#          TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-#
-#
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### FGP_TV #########################################
-## u = FGP_TV(single(u0), 0.05, 100, 1e-04);
-#out2 = Regularizer.FGP_TV(input=u0, regularization_parameter=0.005,
-#                          number_of_iterations=200)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### LLT_model #########################################
-## * u0 = Im + .03*randn(size(Im)); % adding noise
-## [Den] = LLT_model(single(u0), 10, 0.1, 1);
-##Den = LLT_model(single(u0), 25, 0.0003, 300, 0.0001, 0); 
-##input, regularization_parameter , time_step, number_of_iterations,
-##                  tolerance_constant, restrictive_Z_smoothing=0
-#out2 = Regularizer.LLT_model(input=u0, regularization_parameter=25,
-#                          time_step=0.0003,
-#                          tolerance_constant=0.0001,
-#                          number_of_iterations=300)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### PatchBased_Regul #########################################
-## Quick 2D denoising example in Matlab:   
-##   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-##   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-##   ImDen = PB_Regul_CPU(single(u0), 3, 1, 0.08, 0.05); 
-#
-#out2 = Regularizer.PatchBased_Regul(input=u0, regularization_parameter=0.05,
-#                          searching_window_ratio=3,
-#                          similarity_window_ratio=1,
-#                          PB_filtering_parameter=0.08)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-
-###################### TGV_PD #########################################
-# Quick 2D denoising example in Matlab:   
-#   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-#   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-#   u = PrimalDual_TGV(single(u0), 0.02, 1.3, 1, 550);
-
-
-#out2 = Regularizer.TGV_PD(input=u0, regularization_parameter=0.05,
-#                          first_order_term=1.3,
-#                          second_order_term=1,
-#                          number_of_iterations=550)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
diff --git a/Wrappers/Python/test/test_gpu_regularisers.py b/Wrappers/Python/test/test_gpu_regularisers.py
deleted file mode 100644
index 2103c0e..0000000
--- a/Wrappers/Python/test/test_gpu_regularisers.py
+++ /dev/null
@@ -1,143 +0,0 @@
-#!/usr/bin/env python3
-# -*- coding: utf-8 -*-
-"""
-Created on Tue Jan 30 10:24:26 2018
-
-@author: ofn77899
-"""
-
-import matplotlib.pyplot as plt
-import numpy as np
-import os    
-from enum import Enum
-import timeit
-from ccpi.filters.regularisers import ROF_TV, FGP_TV
-###############################################################################
-def printParametersToString(pars):
-        txt = r''
-        for key, value in pars.items():
-            if key== 'algorithm' :
-                txt += "{0} = {1}".format(key, value.__name__)
-            elif key == 'input':
-                txt += "{0} = {1}".format(key, np.shape(value))
-            else:
-                txt += "{0} = {1}".format(key, value)
-            txt += '\n'
-        return txt
-###############################################################################
-def rmse(im1, im2):
-    a, b = im1.shape
-    rmse = np.sqrt(np.sum((im1 - im2) ** 2) / float(a * b))    
-    return rmse
-        
-filename = os.path.join(".." , ".." , ".." , "data" ,"lena_gray_512.tif")
-
-Im = plt.imread(filename)                     
-Im = np.asarray(Im, dtype='float32')
-
-Im = Im/255
-perc = 0.075
-u0 = Im + np.random.normal(loc = Im ,
-                                  scale = perc * Im , 
-                                  size = np.shape(Im))
-# map the u0 u0->u0>0
-f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
-u0 = f(u0).astype('float32')
-
-## plot 
-fig = plt.figure()
-
-a=fig.add_subplot(2,4,1)
-a.set_title('noise')
-imgplot = plt.imshow(u0,cmap="gray")
-
-
-        
-## Rudin-Osher-Fatemi (ROF) TV regularisation
-start_time = timeit.default_timer()
-pars = {
-'algorithm' : ROF_TV , \
-        'input' : u0,
-        'regularisation_parameter': 0.04,\
-        'number_of_iterations':300,\
-        'time_marching_parameter': 0.0025
-        
-	}
-	
-rof_tv = TV_ROF_GPU(pars['input'], 
-                     pars['regularisation_parameter'],
-                     pars['number_of_iterations'], 
-                     pars['time_marching_parameter'],'gpu')
-                     
-rms = rmse(Im, rof_tv)
-pars['rmse'] = rms
-txtstr = printParametersToString(pars)
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)
-a=fig.add_subplot(2,4,4)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
-# place a text box in upper left in axes coords
-a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=12,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow(rof_tv, cmap="gray")
-
-a=fig.add_subplot(2,4,8)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, 'rof_tv - u0', transform=a.transAxes, fontsize=14,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow((rof_tv - u0)**2, vmin=0, vmax=0.03, cmap="gray")
-plt.colorbar(ticks=[0, 0.03], orientation='vertical')
-plt.show()
-
-## Fast-Gradient Projection TV regularisation
-"""
-start_time = timeit.default_timer()
-
-pars = {'algorithm' : FGP_TV, \
-        'input' : u0,\
-        'regularisation_parameter':0.04, \
-        'number_of_iterations' :1200 ,\
-        'tolerance_constant':0.00001,\
-        'methodTV': 0 ,\
-        'nonneg': 0 ,\
-        'printingOut': 0 
-        }
-
-fgp_gpu = FGP_TV(pars['input'], 
-              pars['regularisation_parameter'],
-              pars['number_of_iterations'],
-              pars['tolerance_constant'], 
-              pars['methodTV'],
-              pars['nonneg'],
-              pars['printingOut'],'gpu')
-                                   
-rms = rmse(Im, fgp_gpu)
-pars['rmse'] = rms
-txtstr = printParametersToString(pars)
-txtstr += "%s = %.3fs" % ('elapsed time',timeit.default_timer() - start_time)
-print (txtstr)
-a=fig.add_subplot(2,4,4)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.75)
-# place a text box in upper left in axes coords
-a.text(0.15, 0.25, txtstr, transform=a.transAxes, fontsize=12,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow(fgp_gpu, cmap="gray")
-
-a=fig.add_subplot(2,4,8)
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, 'fgp_gpu - u0', transform=a.transAxes, fontsize=14,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow((fgp_gpu - u0)**2, vmin=0, vmax=0.03, cmap="gray")
-plt.colorbar(ticks=[0, 0.03], orientation='vertical')
-plt.show()
-"""
diff --git a/Wrappers/Python/test/test_regularisers_3d.py b/Wrappers/Python/test/test_regularisers_3d.py
deleted file mode 100644
index 2d11a7e..0000000
--- a/Wrappers/Python/test/test_regularisers_3d.py
+++ /dev/null
@@ -1,425 +0,0 @@
-# -*- coding: utf-8 -*-
-"""
-Created on Fri Aug  4 11:10:05 2017
-
-@author: ofn77899
-"""
-
-#from ccpi.viewer.CILViewer2D import Converter
-#import vtk
-
-import matplotlib.pyplot as plt
-import numpy as np
-import os    
-from enum import Enum
-import timeit
-#from PIL import Image
-#from Regularizer import Regularizer
-from ccpi.imaging.Regularizer import Regularizer
-
-###############################################################################
-#https://stackoverflow.com/questions/13875989/comparing-image-in-url-to-image-in-filesystem-in-python/13884956#13884956
-#NRMSE a normalization of the root of the mean squared error
-#NRMSE is simply 1 - [RMSE / (maxval - minval)]. Where maxval is the maximum
-# intensity from the two images being compared, and respectively the same for
-# minval. RMSE is given by the square root of MSE: 
-# sqrt[(sum(A - B) ** 2) / |A|],
-# where |A| means the number of elements in A. By doing this, the maximum value
-# given by RMSE is maxval.
-
-def nrmse(im1, im2):
-    a, b = im1.shape
-    rmse = np.sqrt(np.sum((im2 - im1) ** 2) / float(a * b))
-    max_val = max(np.max(im1), np.max(im2))
-    min_val = min(np.min(im1), np.min(im2))
-    return 1 - (rmse / (max_val - min_val))
-###############################################################################
-
-###############################################################################
-#
-#  2D Regularizers
-#
-###############################################################################
-#Example:
-# figure;
-# Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-# u0 = Im + .05*randn(size(Im)); u0(u0 < 0) = 0;
-# u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-
-
-#filename = r"C:\Users\ofn77899\Documents\GitHub\CCPi-FISTA_reconstruction\data\lena_gray_512.tif"
-filename = r"/home/ofn77899/Reconstruction/CCPi-FISTA_Reconstruction/data/lena_gray_512.tif"
-#filename = r'/home/algol/Documents/Python/STD_test_images/lena_gray_512.tif'
-
-#reader = vtk.vtkTIFFReader()
-#reader.SetFileName(os.path.normpath(filename))
-#reader.Update()
-Im = plt.imread(filename)                     
-#Im = Image.open('/home/algol/Documents/Python/STD_test_images/lena_gray_512.tif')/255
-#img.show()
-Im = np.asarray(Im, dtype='float32')
-
-# create a 3D image by stacking N of this images
-
-
-#imgplot = plt.imshow(Im)
-perc = 0.05
-u_n = Im + (perc* np.random.normal(size=np.shape(Im)))
-y,z = np.shape(u_n)
-u_n = np.reshape(u_n , (1,y,z))
-
-u0 = u_n.copy()
-for i in range (19):
-    u_n = Im + (perc* np.random.normal(size=np.shape(Im)))
-    u_n = np.reshape(u_n , (1,y,z))
-
-    u0 = np.vstack ( (u0, u_n) )
-
-# map the u0 u0->u0>0
-f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
-u0 = f(u0).astype('float32')
-
-print ("Passed image shape {0}".format(np.shape(u0)))
-
-## plot 
-fig = plt.figure()
-#a=fig.add_subplot(3,3,1)
-#a.set_title('Original')
-#imgplot = plt.imshow(Im)
-sliceno = 10
-
-a=fig.add_subplot(2,3,1)
-a.set_title('noise')
-imgplot = plt.imshow(u0[sliceno],cmap="gray")
-
-reg_output = []
-##############################################################################
-# Call regularizer
-
-####################### SplitBregman_TV #####################################
-# u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-
-use_object = True
-if use_object:
-    reg = Regularizer(Regularizer.Algorithm.SplitBregman_TV)
-    print (reg.pars)
-    reg.setParameter(input=u0)    
-    reg.setParameter(regularization_parameter=10.)
-    # or 
-    # reg.setParameter(input=u0, regularization_parameter=10., #number_of_iterations=30,
-              #tolerance_constant=1e-4, 
-              #TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-    plotme = reg() [0]
-    pars = reg.pars
-    textstr = reg.printParametersToString() 
-    
-    #out = reg(input=u0, regularization_parameter=10., #number_of_iterations=30,
-              #tolerance_constant=1e-4, 
-    #          TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-    
-#out2 = Regularizer.SplitBregman_TV(input=u0, regularization_parameter=10., number_of_iterations=30,
-#          tolerance_constant=1e-4, 
-#          TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-
-else:
-    out2 = Regularizer.SplitBregman_TV(input=u0, regularization_parameter=10. )
-    pars = out2[2]
-    reg_output.append(out2)
-    plotme = reg_output[-1][0]
-    textstr = out2[-1]
-
-a=fig.add_subplot(2,3,2)
-
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-        verticalalignment='top', bbox=props)
-imgplot = plt.imshow(plotme[sliceno],cmap="gray")
-
-###################### FGP_TV #########################################
-# u = FGP_TV(single(u0), 0.05, 100, 1e-04);
-out2 = Regularizer.FGP_TV(input=u0, regularization_parameter=0.0005,
-                          number_of_iterations=50)
-pars = out2[-2]
-
-reg_output.append(out2)
-
-a=fig.add_subplot(2,3,3)
-
-textstr = out2[-1]
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow(reg_output[-1][0][sliceno])
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-        verticalalignment='top', bbox=props)
-imgplot = plt.imshow(reg_output[-1][0][sliceno],cmap="gray")
-
-###################### LLT_model #########################################
-# * u0 = Im + .03*randn(size(Im)); % adding noise
-# [Den] = LLT_model(single(u0), 10, 0.1, 1);
-#Den = LLT_model(single(u0), 25, 0.0003, 300, 0.0001, 0); 
-#input, regularization_parameter , time_step, number_of_iterations,
-#                  tolerance_constant, restrictive_Z_smoothing=0
-out2 = Regularizer.LLT_model(input=u0, regularization_parameter=25,
-                          time_step=0.0003,
-                          tolerance_constant=0.0001,
-                          number_of_iterations=300)
-pars = out2[-2]
-
-reg_output.append(out2)
-
-a=fig.add_subplot(2,3,4)
-
-textstr = out2[-1]
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow(reg_output[-1][0][sliceno],cmap="gray")
-
-
-# ###################### PatchBased_Regul #########################################
-# # Quick 2D denoising example in Matlab:   
-# #   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-# #   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-# #   ImDen = PB_Regul_CPU(single(u0), 3, 1, 0.08, 0.05); 
-
-out2 = Regularizer.PatchBased_Regul(input=u0, regularization_parameter=0.05,
-                       searching_window_ratio=3,
-                       similarity_window_ratio=1,
-                       PB_filtering_parameter=0.08)
-pars = out2[-2]
-reg_output.append(out2)
-
-a=fig.add_subplot(2,3,5)
-
-
-textstr = out2[-1]
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-        verticalalignment='top', bbox=props)
-imgplot = plt.imshow(reg_output[-1][0][sliceno],cmap="gray")
-
-
-# ###################### TGV_PD #########################################
-# # Quick 2D denoising example in Matlab:   
-# #   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-# #   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-# #   u = PrimalDual_TGV(single(u0), 0.02, 1.3, 1, 550);
-
-
-out2 = Regularizer.TGV_PD(input=u0, regularization_parameter=0.05,
-                           first_order_term=1.3,
-                           second_order_term=1,
-                           number_of_iterations=550)
-pars = out2[-2]
-reg_output.append(out2)
-
-a=fig.add_subplot(2,3,6)
-
-
-textstr = out2[-1]
-
-
-# these are matplotlib.patch.Patch properties
-props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-# place a text box in upper left in axes coords
-a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-         verticalalignment='top', bbox=props)
-imgplot = plt.imshow(reg_output[-1][0][sliceno],cmap="gray")
-
-
-plt.show()
-
-################################################################################
-##
-##  3D Regularizers
-##
-################################################################################
-##Example:
-## figure;
-## Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-## u0 = Im + .05*randn(size(Im)); u0(u0 < 0) = 0;
-## u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-#
-##filename = r"C:\Users\ofn77899\Documents\GitHub\CCPi-Reconstruction\python\test\reconstruction_example.mha"
-#filename = r"C:\Users\ofn77899\Documents\GitHub\CCPi-Simpleflex\data\head.mha"
-#
-#reader = vtk.vtkMetaImageReader()
-#reader.SetFileName(os.path.normpath(filename))
-#reader.Update()
-##vtk returns 3D images, let's take just the one slice there is as 2D
-#Im = Converter.vtk2numpy(reader.GetOutput())
-#Im = Im.astype('float32')
-##imgplot = plt.imshow(Im)
-#perc = 0.05
-#u0 = Im + (perc* np.random.normal(size=np.shape(Im)))
-## map the u0 u0->u0>0
-#f = np.frompyfunc(lambda x: 0 if x < 0 else x, 1,1)
-#u0 = f(u0).astype('float32')
-#converter = Converter.numpy2vtkImporter(u0, reader.GetOutput().GetSpacing(),
-#                                        reader.GetOutput().GetOrigin())
-#converter.Update()
-#writer = vtk.vtkMetaImageWriter()
-#writer.SetInputData(converter.GetOutput())
-#writer.SetFileName(r"C:\Users\ofn77899\Documents\GitHub\CCPi-FISTA_reconstruction\data\noisy_head.mha")
-##writer.Write()
-#
-#
-### plot 
-#fig3D = plt.figure()
-##a=fig.add_subplot(3,3,1)
-##a.set_title('Original')
-##imgplot = plt.imshow(Im)
-#sliceNo = 32
-#
-#a=fig3D.add_subplot(2,3,1)
-#a.set_title('noise')
-#imgplot = plt.imshow(u0.T[sliceNo])
-#
-#reg_output3d = []
-#
-###############################################################################
-## Call regularizer
-#
-######################## SplitBregman_TV #####################################
-## u = SplitBregman_TV(single(u0), 10, 30, 1e-04);
-#
-##reg = Regularizer(Regularizer.Algorithm.SplitBregman_TV)
-#
-##out = reg(input=u0, regularization_parameter=10., #number_of_iterations=30,
-##          #tolerance_constant=1e-4, 
-##          TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-#
-#out2 = Regularizer.SplitBregman_TV(input=u0, regularization_parameter=10., number_of_iterations=30,
-#          tolerance_constant=1e-4, 
-#          TV_Penalty=Regularizer.TotalVariationPenalty.l1)
-#
-#
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### FGP_TV #########################################
-## u = FGP_TV(single(u0), 0.05, 100, 1e-04);
-#out2 = Regularizer.FGP_TV(input=u0, regularization_parameter=0.005,
-#                          number_of_iterations=200)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### LLT_model #########################################
-## * u0 = Im + .03*randn(size(Im)); % adding noise
-## [Den] = LLT_model(single(u0), 10, 0.1, 1);
-##Den = LLT_model(single(u0), 25, 0.0003, 300, 0.0001, 0); 
-##input, regularization_parameter , time_step, number_of_iterations,
-##                  tolerance_constant, restrictive_Z_smoothing=0
-#out2 = Regularizer.LLT_model(input=u0, regularization_parameter=25,
-#                          time_step=0.0003,
-#                          tolerance_constant=0.0001,
-#                          number_of_iterations=300)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-####################### PatchBased_Regul #########################################
-## Quick 2D denoising example in Matlab:   
-##   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-##   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-##   ImDen = PB_Regul_CPU(single(u0), 3, 1, 0.08, 0.05); 
-#
-#out2 = Regularizer.PatchBased_Regul(input=u0, regularization_parameter=0.05,
-#                          searching_window_ratio=3,
-#                          similarity_window_ratio=1,
-#                          PB_filtering_parameter=0.08)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
-#
-
-###################### TGV_PD #########################################
-# Quick 2D denoising example in Matlab:   
-#   Im = double(imread('lena_gray_256.tif'))/255;  % loading image
-#   u0 = Im + .03*randn(size(Im)); u0(u0<0) = 0; % adding noise
-#   u = PrimalDual_TGV(single(u0), 0.02, 1.3, 1, 550);
-
-
-#out2 = Regularizer.TGV_PD(input=u0, regularization_parameter=0.05,
-#                          first_order_term=1.3,
-#                          second_order_term=1,
-#                          number_of_iterations=550)
-#pars = out2[-2]
-#reg_output3d.append(out2)
-#
-#a=fig3D.add_subplot(2,3,2)
-#
-#
-#textstr = out2[-1]
-#
-#
-## these are matplotlib.patch.Patch properties
-#props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
-## place a text box in upper left in axes coords
-#a.text(0.05, 0.95, textstr, transform=a.transAxes, fontsize=14,
-#        verticalalignment='top', bbox=props)
-#imgplot = plt.imshow(reg_output3d[-1][0].T[sliceNo])
diff --git a/Wrappers/Python/test/view_result.py b/Wrappers/Python/test/view_result.py
deleted file mode 100644
index f89a90c..0000000
--- a/Wrappers/Python/test/view_result.py
+++ /dev/null
@@ -1,12 +0,0 @@
-import numpy
-from ccpi.viewer.CILViewer2D import *
-import sys
-#reader = vtk.vtkMetaImageReader()
-#reader.SetFileName("X_out_os_s.mhd")
-#reader.Update()
-
-X = numpy.load(sys.argv[1])
-
-v = CILViewer2D()
-v.setInputAsNumpy(X)
-v.startRenderLoop()