summaryrefslogtreecommitdiffstats
path: root/src/Python
diff options
context:
space:
mode:
authorDaniil Kazantsev <dkazanc@hotmail.com>2019-03-10 22:23:22 +0000
committerDaniil Kazantsev <dkazanc@hotmail.com>2019-03-10 22:23:22 +0000
commite2208bfc2ed540065bef2e8e12d914d873464da7 (patch)
tree36f91247b169ad423ff40a5850b19524f85d1f3e /src/Python
parent49761c3730e2ddf2ec40c84952572c43e9334ccb (diff)
downloadregularization-e2208bfc2ed540065bef2e8e12d914d873464da7.tar.gz
regularization-e2208bfc2ed540065bef2e8e12d914d873464da7.tar.bz2
regularization-e2208bfc2ed540065bef2e8e12d914d873464da7.tar.xz
regularization-e2208bfc2ed540065bef2e8e12d914d873464da7.zip
all python code updated
Diffstat (limited to 'src/Python')
-rw-r--r--src/Python/ccpi/filters/regularisers.py142
-rw-r--r--src/Python/src/cpu_regularisers.pyx503
-rw-r--r--src/Python/src/gpu_regularisers.pyx474
3 files changed, 594 insertions, 525 deletions
diff --git a/src/Python/ccpi/filters/regularisers.py b/src/Python/ccpi/filters/regularisers.py
index 09b465a..398e11c 100644
--- a/src/Python/ccpi/filters/regularisers.py
+++ b/src/Python/ccpi/filters/regularisers.py
@@ -7,7 +7,7 @@ try:
from ccpi.filters.gpu_regularisers import TV_ROF_GPU, TV_FGP_GPU, TV_SB_GPU, dTV_FGP_GPU, NDF_GPU, Diff4th_GPU, TGV_GPU, LLT_ROF_GPU, PATCHSEL_GPU
gpu_enabled = True
except ImportError:
- gpu_enabled = False
+ gpu_enabled = False
from ccpi.filters.cpu_regularisers import NDF_INPAINT_CPU, NVM_INPAINT_CPU
def ROF_TV(inputData, regularisation_parameter, iterations,
@@ -15,13 +15,13 @@ def ROF_TV(inputData, regularisation_parameter, iterations,
if device == 'cpu':
return TV_ROF_CPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
time_marching_parameter,
tolerance_param)
elif device == 'gpu' and gpu_enabled:
return TV_ROF_GPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
time_marching_parameter,
tolerance_param)
else:
@@ -35,14 +35,14 @@ def FGP_TV(inputData, regularisation_parameter,iterations,
if device == 'cpu':
return TV_FGP_CPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV,
nonneg)
elif device == 'gpu' and gpu_enabled:
return TV_FGP_GPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV,
nonneg)
@@ -56,13 +56,13 @@ def SB_TV(inputData, regularisation_parameter, iterations,
if device == 'cpu':
return TV_SB_CPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV)
elif device == 'gpu' and gpu_enabled:
return TV_SB_GPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV)
else:
@@ -81,91 +81,115 @@ def LLT_ROF(inputData, regularisation_parameterROF, regularisation_parameterLLT,
raise ValueError ('GPU is not available')
raise ValueError('Unknown device {0}. Expecting gpu or cpu'\
.format(device))
-def FGP_dTV(inputData, refdata, regularisation_parameter, iterations,
- tolerance_param, eta_const, methodTV, nonneg, printM, device='cpu'):
+def TGV(inputData, regularisation_parameter, alpha1, alpha0, iterations,
+ LipshitzConst, tolerance_param, device='cpu'):
if device == 'cpu':
- return dTV_FGP_CPU(inputData,
- refdata,
- regularisation_parameter,
- iterations,
- tolerance_param,
- eta_const,
- methodTV,
- nonneg,
- printM)
+ return TGV_CPU(inputData,
+ regularisation_parameter,
+ alpha1,
+ alpha0,
+ iterations,
+ LipshitzConst,
+ tolerance_param)
elif device == 'gpu' and gpu_enabled:
- return dTV_FGP_GPU(inputData,
- refdata,
- regularisation_parameter,
- iterations,
- tolerance_param,
- eta_const,
- methodTV,
- nonneg,
- printM)
+ return TGV_GPU(inputData,
+ regularisation_parameter,
+ alpha1,
+ alpha0,
+ iterations,
+ LipshitzConst,
+ tolerance_param)
else:
if not gpu_enabled and device == 'gpu':
raise ValueError ('GPU is not available')
raise ValueError('Unknown device {0}. Expecting gpu or cpu'\
.format(device))
-def TNV(inputData, regularisation_parameter, iterations, tolerance_param):
- return TNV_CPU(inputData,
- regularisation_parameter,
- iterations,
- tolerance_param)
def NDF(inputData, regularisation_parameter, edge_parameter, iterations,
- time_marching_parameter, penalty_type, device='cpu'):
+ time_marching_parameter, penalty_type, tolerance_param, device='cpu'):
if device == 'cpu':
return NDF_CPU(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
+ iterations,
time_marching_parameter,
- penalty_type)
+ penalty_type,
+ tolerance_param)
elif device == 'gpu' and gpu_enabled:
return NDF_GPU(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
+ iterations,
time_marching_parameter,
- penalty_type)
+ penalty_type,
+ tolerance_param)
else:
if not gpu_enabled and device == 'gpu':
raise ValueError ('GPU is not available')
raise ValueError('Unknown device {0}. Expecting gpu or cpu'\
.format(device))
def Diff4th(inputData, regularisation_parameter, edge_parameter, iterations,
- time_marching_parameter, device='cpu'):
+ time_marching_parameter, tolerance_param, device='cpu'):
if device == 'cpu':
return Diff4th_CPU(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
- time_marching_parameter)
+ iterations,
+ time_marching_parameter,
+ tolerance_param)
elif device == 'gpu' and gpu_enabled:
return Diff4th_GPU(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
- time_marching_parameter)
+ iterations,
+ time_marching_parameter,
+ tolerance_param)
else:
if not gpu_enabled and device == 'gpu':
raise ValueError ('GPU is not available')
raise ValueError('Unknown device {0}. Expecting gpu or cpu'\
.format(device))
-
+def FGP_dTV(inputData, refdata, regularisation_parameter, iterations,
+ tolerance_param, eta_const, methodTV, nonneg, device='cpu'):
+ if device == 'cpu':
+ return dTV_FGP_CPU(inputData,
+ refdata,
+ regularisation_parameter,
+ iterations,
+ tolerance_param,
+ eta_const,
+ methodTV,
+ nonneg)
+ elif device == 'gpu' and gpu_enabled:
+ return dTV_FGP_GPU(inputData,
+ refdata,
+ regularisation_parameter,
+ iterations,
+ tolerance_param,
+ eta_const,
+ methodTV,
+ nonneg)
+ else:
+ if not gpu_enabled and device == 'gpu':
+ raise ValueError ('GPU is not available')
+ raise ValueError('Unknown device {0}. Expecting gpu or cpu'\
+ .format(device))
+def TNV(inputData, regularisation_parameter, iterations, tolerance_param):
+ return TNV_CPU(inputData,
+ regularisation_parameter,
+ iterations,
+ tolerance_param)
def PatchSelect(inputData, searchwindow, patchwindow, neighbours, edge_parameter, device='cpu'):
if device == 'cpu':
return PATCHSEL_CPU(inputData,
searchwindow,
patchwindow,
- neighbours,
+ neighbours,
edge_parameter)
elif device == 'gpu' and gpu_enabled:
return PATCHSEL_GPU(inputData,
searchwindow,
patchwindow,
- neighbours,
+ neighbours,
edge_parameter)
else:
if not gpu_enabled and device == 'gpu':
@@ -177,36 +201,14 @@ def NLTV(inputData, H_i, H_j, H_k, Weights, regularisation_parameter, iterations
return NLTV_CPU(inputData,
H_i,
H_j,
- H_k,
+ H_k,
Weights,
regularisation_parameter,
iterations)
-
-def TGV(inputData, regularisation_parameter, alpha1, alpha0, iterations,
- LipshitzConst, device='cpu'):
- if device == 'cpu':
- return TGV_CPU(inputData,
- regularisation_parameter,
- alpha1,
- alpha0,
- iterations,
- LipshitzConst)
- elif device == 'gpu' and gpu_enabled:
- return TGV_GPU(inputData,
- regularisation_parameter,
- alpha1,
- alpha0,
- iterations,
- LipshitzConst)
- else:
- if not gpu_enabled and device == 'gpu':
- raise ValueError ('GPU is not available')
- raise ValueError('Unknown device {0}. Expecting gpu or cpu'\
- .format(device))
def NDF_INP(inputData, maskData, regularisation_parameter, edge_parameter, iterations,
time_marching_parameter, penalty_type):
- return NDF_INPAINT_CPU(inputData, maskData, regularisation_parameter,
+ return NDF_INPAINT_CPU(inputData, maskData, regularisation_parameter,
edge_parameter, iterations, time_marching_parameter, penalty_type)
-
+
def NVM_INP(inputData, maskData, SW_increment, iterations):
return NVM_INPAINT_CPU(inputData, maskData, SW_increment, iterations)
diff --git a/src/Python/src/cpu_regularisers.pyx b/src/Python/src/cpu_regularisers.pyx
index f2276bb..add641b 100644
--- a/src/Python/src/cpu_regularisers.pyx
+++ b/src/Python/src/cpu_regularisers.pyx
@@ -22,11 +22,11 @@ cdef extern float TV_ROF_CPU_main(float *Input, float *Output, float *infovector
cdef extern float TV_FGP_CPU_main(float *Input, float *Output, float *infovector, float lambdaPar, int iterationsNumb, float epsil, int methodTV, int nonneg, int dimX, int dimY, int dimZ);
cdef extern float SB_TV_CPU_main(float *Input, float *Output, float *infovector, float mu, int iter, float epsil, int methodTV, int dimX, int dimY, int dimZ);
cdef extern float LLT_ROF_CPU_main(float *Input, float *Output, float *infovector, float lambdaROF, float lambdaLLT, int iterationsNumb, float tau, float epsil, int dimX, int dimY, int dimZ);
-cdef extern float TGV_main(float *Input, float *Output, float lambdaPar, float alpha1, float alpha0, int iterationsNumb, float L2, int dimX, int dimY, int dimZ);
-cdef extern float Diffusion_CPU_main(float *Input, float *Output, float lambdaPar, float sigmaPar, int iterationsNumb, float tau, int penaltytype, int dimX, int dimY, int dimZ);
-cdef extern float Diffus4th_CPU_main(float *Input, float *Output, float lambdaPar, float sigmaPar, int iterationsNumb, float tau, int dimX, int dimY, int dimZ);
+cdef extern float TGV_main(float *Input, float *Output, float *infovector, float lambdaPar, float alpha1, float alpha0, int iterationsNumb, float L2, float epsil, int dimX, int dimY, int dimZ);
+cdef extern float Diffusion_CPU_main(float *Input, float *Output, float *infovector, float lambdaPar, float sigmaPar, int iterationsNumb, float tau, int penaltytype, float epsil, int dimX, int dimY, int dimZ);
+cdef extern float Diffus4th_CPU_main(float *Input, float *Output, float *infovector, float lambdaPar, float sigmaPar, int iterationsNumb, float tau, float epsil, int dimX, int dimY, int dimZ);
+cdef extern float dTV_FGP_CPU_main(float *Input, float *InputRef, float *Output, float *infovector, float lambdaPar, int iterationsNumb, float epsil, float eta, int methodTV, int nonneg, int dimX, int dimY, int dimZ);
cdef extern float TNV_CPU_main(float *Input, float *u, float lambdaPar, int maxIter, float tol, int dimX, int dimY, int dimZ);
-cdef extern float dTV_FGP_CPU_main(float *Input, float *InputRef, float *Output, float lambdaPar, int iterationsNumb, float epsil, float eta, int methodTV, int nonneg, int printM, int dimX, int dimY, int dimZ);
cdef extern float PatchSelect_CPU_main(float *Input, unsigned short *H_i, unsigned short *H_j, unsigned short *H_k, float *Weights, int dimX, int dimY, int dimZ, int SearchWindow, int SimilarWin, int NumNeighb, float h, int switchM);
cdef extern float Nonlocal_TV_CPU_main(float *A_orig, float *Output, unsigned short *H_i, unsigned short *H_j, unsigned short *H_k, float *Weights, int dimX, int dimY, int dimZ, int NumNeighb, float lambdaReg, int IterNumb);
@@ -43,7 +43,7 @@ def TV_ROF_CPU(inputData, regularisation_parameter, iterationsNumb, marching_ste
elif inputData.ndim == 3:
return TV_ROF_3D(inputData, regularisation_parameter, iterationsNumb, marching_step_parameter,tolerance_param)
-def TV_ROF_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def TV_ROF_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
int iterationsNumb,
float marching_step_parameter,
@@ -51,18 +51,18 @@ def TV_ROF_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
- # Run ROF iterations for 2D data
+
+ # Run ROF iterations for 2D data
TV_ROF_CPU_main(&inputData[0,0], &outputData[0,0], &infovec[0], regularisation_parameter, iterationsNumb, marching_step_parameter, tolerance_param, dims[1], dims[0], 1)
-
+
return (outputData,infovec)
-
-def TV_ROF_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def TV_ROF_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
int iterationsNumb,
float marching_step_parameter,
@@ -71,13 +71,13 @@ def TV_ROF_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
- # Run ROF iterations for 3D data
+
+ # Run ROF iterations for 3D data
TV_ROF_CPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0], regularisation_parameter, iterationsNumb, marching_step_parameter, tolerance_param, dims[2], dims[1], dims[0])
return (outputData,infovec)
@@ -92,9 +92,9 @@ def TV_FGP_CPU(inputData, regularisation_parameter, iterationsNumb, tolerance_pa
elif inputData.ndim == 3:
return TV_FGP_3D(inputData, regularisation_parameter, iterationsNumb, tolerance_param, methodTV, nonneg)
-def TV_FGP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def TV_FGP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
- int iterationsNumb,
+ int iterationsNumb,
float tolerance_param,
int methodTV,
int nonneg):
@@ -102,35 +102,35 @@ def TV_FGP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
-
+
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
+
#/* Run FGP-TV iterations for 2D data */
- TV_FGP_CPU_main(&inputData[0,0], &outputData[0,0], &infovec[0], regularisation_parameter,
- iterationsNumb,
+ TV_FGP_CPU_main(&inputData[0,0], &outputData[0,0], &infovec[0], regularisation_parameter,
+ iterationsNumb,
tolerance_param,
methodTV,
nonneg,
dims[1],dims[0],1)
-
+
return (outputData,infovec)
-
-def TV_FGP_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def TV_FGP_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
- int iterationsNumb,
+ int iterationsNumb,
float tolerance_param,
int methodTV,
int nonneg):
-
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0], dims[1], dims[2]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
@@ -138,7 +138,7 @@ def TV_FGP_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
#/* Run FGP-TV iterations for 3D data */
TV_FGP_CPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0], regularisation_parameter,
- iterationsNumb,
+ iterationsNumb,
tolerance_param,
methodTV,
nonneg,
@@ -155,54 +155,54 @@ def TV_SB_CPU(inputData, regularisation_parameter, iterationsNumb, tolerance_par
elif inputData.ndim == 3:
return TV_SB_3D(inputData, regularisation_parameter, iterationsNumb, tolerance_param, methodTV)
-def TV_SB_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def TV_SB_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
- int iterationsNumb,
+ int iterationsNumb,
float tolerance_param,
int methodTV):
-
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.zeros([2], dtype='float32')
-
+
#/* Run SB-TV iterations for 2D data */
SB_TV_CPU_main(&inputData[0,0], &outputData[0,0], &infovec[0],
- regularisation_parameter,
- iterationsNumb,
+ regularisation_parameter,
+ iterationsNumb,
tolerance_param,
methodTV,
dims[1],dims[0], 1)
-
+
return (outputData,infovec)
-
-def TV_SB_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def TV_SB_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
- int iterationsNumb,
+ int iterationsNumb,
float tolerance_param,
int methodTV):
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0], dims[1], dims[2]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.zeros([2], dtype='float32')
-
+
#/* Run SB-TV iterations for 3D data */
SB_TV_CPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0],
regularisation_parameter,
- iterationsNumb,
+ iterationsNumb,
tolerance_param,
methodTV,
dims[2], dims[1], dims[0])
- return (outputData,infovec)
+ return (outputData,infovec)
#***************************************************************#
#******************* ROF - LLT regularisation ******************#
#***************************************************************#
@@ -212,288 +212,321 @@ def LLT_ROF_CPU(inputData, regularisation_parameterROF, regularisation_parameter
elif inputData.ndim == 3:
return LLT_ROF_3D(inputData, regularisation_parameterROF, regularisation_parameterLLT, iterations, time_marching_parameter, tolerance_param)
-def LLT_ROF_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def LLT_ROF_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameterROF,
float regularisation_parameterLLT,
- int iterations,
+ int iterations,
float time_marching_parameter,
float tolerance_param):
-
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.zeros([2], dtype='float32')
-
+
#/* Run ROF-LLT iterations for 2D data */
- LLT_ROF_CPU_main(&inputData[0,0], &outputData[0,0], &infovec[0], regularisation_parameterROF, regularisation_parameterLLT, iterations, time_marching_parameter,
+ LLT_ROF_CPU_main(&inputData[0,0], &outputData[0,0], &infovec[0], regularisation_parameterROF, regularisation_parameterLLT, iterations, time_marching_parameter,
tolerance_param,
dims[1],dims[0],1)
- return (outputData,infovec)
+ return (outputData,infovec)
-def LLT_ROF_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+def LLT_ROF_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameterROF,
float regularisation_parameterLLT,
- int iterations,
+ int iterations,
float time_marching_parameter,
float tolerance_param):
-
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0], dims[1], dims[2]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.zeros([2], dtype='float32')
-
+
#/* Run ROF-LLT iterations for 3D data */
- LLT_ROF_CPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0], regularisation_parameterROF, regularisation_parameterLLT, iterations,
+ LLT_ROF_CPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0], regularisation_parameterROF, regularisation_parameterLLT, iterations,
time_marching_parameter,
- tolerance_param,
+ tolerance_param,
dims[2], dims[1], dims[0])
return (outputData,infovec)
#***************************************************************#
#***************** Total Generalised Variation *****************#
#***************************************************************#
-def TGV_CPU(inputData, regularisation_parameter, alpha1, alpha0, iterations, LipshitzConst):
+def TGV_CPU(inputData, regularisation_parameter, alpha1, alpha0, iterations, LipshitzConst, tolerance_param):
if inputData.ndim == 2:
- return TGV_2D(inputData, regularisation_parameter, alpha1, alpha0,
- iterations, LipshitzConst)
+ return TGV_2D(inputData, regularisation_parameter, alpha1, alpha0,
+ iterations, LipshitzConst, tolerance_param)
elif inputData.ndim == 3:
- return TGV_3D(inputData, regularisation_parameter, alpha1, alpha0,
- iterations, LipshitzConst)
+ return TGV_3D(inputData, regularisation_parameter, alpha1, alpha0,
+ iterations, LipshitzConst, tolerance_param)
-def TGV_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def TGV_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
float alpha1,
float alpha0,
- int iterationsNumb,
- float LipshitzConst):
-
+ int iterationsNumb,
+ float LipshitzConst,
+ float tolerance_param):
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
-
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.zeros([2], dtype='float32')
+
#/* Run TGV iterations for 2D data */
- TGV_main(&inputData[0,0], &outputData[0,0], regularisation_parameter,
+ TGV_main(&inputData[0,0], &outputData[0,0], &infovec[0], regularisation_parameter,
alpha1,
alpha0,
- iterationsNumb,
+ iterationsNumb,
LipshitzConst,
+ tolerance_param,
dims[1],dims[0],1)
- return outputData
-def TGV_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+ return (outputData,infovec)
+def TGV_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
float alpha1,
float alpha0,
- int iterationsNumb,
- float LipshitzConst):
-
+ int iterationsNumb,
+ float LipshitzConst,
+ float tolerance_param):
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0], dims[1], dims[2]], dtype='float32')
-
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.zeros([2], dtype='float32')
+
#/* Run TGV iterations for 3D data */
- TGV_main(&inputData[0,0,0], &outputData[0,0,0], regularisation_parameter,
+ TGV_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0], regularisation_parameter,
alpha1,
alpha0,
- iterationsNumb,
+ iterationsNumb,
LipshitzConst,
+ tolerance_param,
dims[2], dims[1], dims[0])
- return outputData
-
+ return (outputData,infovec)
#****************************************************************#
-#**************Directional Total-variation FGP ******************#
+#***************Nonlinear (Isotropic) Diffusion******************#
#****************************************************************#
-#******** Directional TV Fast-Gradient-Projection (FGP)*********#
-def dTV_FGP_CPU(inputData, refdata, regularisation_parameter, iterationsNumb, tolerance_param, eta_const, methodTV, nonneg, printM):
+def NDF_CPU(inputData, regularisation_parameter, edge_parameter, iterationsNumb,time_marching_parameter, penalty_type,tolerance_param):
if inputData.ndim == 2:
- return dTV_FGP_2D(inputData, refdata, regularisation_parameter, iterationsNumb, tolerance_param, eta_const, methodTV, nonneg, printM)
+ return NDF_2D(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type, tolerance_param)
elif inputData.ndim == 3:
- return dTV_FGP_3D(inputData, refdata, regularisation_parameter, iterationsNumb, tolerance_param, eta_const, methodTV, nonneg, printM)
+ return NDF_3D(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type, tolerance_param)
-def dTV_FGP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
- np.ndarray[np.float32_t, ndim=2, mode="c"] refdata,
+def NDF_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
- int iterationsNumb,
- float tolerance_param,
- float eta_const,
- int methodTV,
- int nonneg,
- int printM):
-
+ float edge_parameter,
+ int iterationsNumb,
+ float time_marching_parameter,
+ int penalty_type,
+ float tolerance_param):
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
-
- #/* Run FGP-dTV iterations for 2D data */
- dTV_FGP_CPU_main(&inputData[0,0], &refdata[0,0], &outputData[0,0], regularisation_parameter,
- iterationsNumb,
- tolerance_param,
- eta_const,
- methodTV,
- nonneg,
- printM,
- dims[1], dims[0], 1)
-
- return outputData
-
-def dTV_FGP_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
- np.ndarray[np.float32_t, ndim=3, mode="c"] refdata,
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.zeros([2], dtype='float32')
+
+ # Run Nonlinear Diffusion iterations for 2D data
+ Diffusion_CPU_main(&inputData[0,0], &outputData[0,0], &infovec[0],
+ regularisation_parameter, edge_parameter, iterationsNumb,
+ time_marching_parameter, penalty_type,
+ tolerance_param,
+ dims[1], dims[0], 1)
+ return (outputData,infovec)
+
+def NDF_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
- int iterationsNumb,
- float tolerance_param,
- float eta_const,
- int methodTV,
- int nonneg,
- int printM):
+ float edge_parameter,
+ int iterationsNumb,
+ float time_marching_parameter,
+ int penalty_type,
+ float tolerance_param):
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
- np.zeros([dims[0], dims[1], dims[2]], dtype='float32')
-
- #/* Run FGP-dTV iterations for 3D data */
- dTV_FGP_CPU_main(&inputData[0,0,0], &refdata[0,0,0], &outputData[0,0,0], regularisation_parameter,
- iterationsNumb,
- tolerance_param,
- eta_const,
- methodTV,
- nonneg,
- printM,
- dims[2], dims[1], dims[0])
- return outputData
-
+ np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.zeros([2], dtype='float32')
+
+ # Run Nonlinear Diffusion iterations for 3D data
+ Diffusion_CPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0],
+ regularisation_parameter, edge_parameter, iterationsNumb,
+ time_marching_parameter, penalty_type,
+ tolerance_param,
+ dims[2], dims[1], dims[0])
+ return (outputData,infovec)
#****************************************************************#
-#*********************Total Nuclear Variation********************#
+#*************Anisotropic Fourth-Order diffusion*****************#
#****************************************************************#
-def TNV_CPU(inputData, regularisation_parameter, iterationsNumb, tolerance_param):
+def Diff4th_CPU(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter,tolerance_param):
if inputData.ndim == 2:
- return
+ return Diff4th_2D(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter,tolerance_param)
elif inputData.ndim == 3:
- return TNV_3D(inputData, regularisation_parameter, iterationsNumb, tolerance_param)
+ return Diff4th_3D(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter,tolerance_param)
+
+def Diff4th_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+ float regularisation_parameter,
+ float edge_parameter,
+ int iterationsNumb,
+ float time_marching_parameter,
+ float tolerance_param):
+ cdef long dims[2]
+ dims[0] = inputData.shape[0]
+ dims[1] = inputData.shape[1]
-def TNV_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+ cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
+ np.zeros([dims[0],dims[1]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.zeros([2], dtype='float32')
+
+ # Run Anisotropic Fourth-Order diffusion for 2D data
+ Diffus4th_CPU_main(&inputData[0,0], &outputData[0,0], &infovec[0],
+ regularisation_parameter,
+ edge_parameter, iterationsNumb,
+ time_marching_parameter,
+ tolerance_param,
+ dims[1], dims[0], 1)
+ return (outputData,infovec)
+
+def Diff4th_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
+ float edge_parameter,
int iterationsNumb,
+ float time_marching_parameter,
float tolerance_param):
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
-
- # Run TNV iterations for 3D (X,Y,Channels) data
- TNV_CPU_main(&inputData[0,0,0], &outputData[0,0,0], regularisation_parameter, iterationsNumb, tolerance_param, dims[2], dims[1], dims[0])
- return outputData
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.zeros([2], dtype='float32')
+
+ # Run Anisotropic Fourth-Order diffusion for 3D data
+ Diffus4th_CPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0],
+ regularisation_parameter, edge_parameter,
+ iterationsNumb, time_marching_parameter,
+ tolerance_param,
+ dims[2], dims[1], dims[0])
+ return (outputData,infovec)
#****************************************************************#
-#***************Nonlinear (Isotropic) Diffusion******************#
+#**************Directional Total-variation FGP ******************#
#****************************************************************#
-def NDF_CPU(inputData, regularisation_parameter, edge_parameter, iterationsNumb,time_marching_parameter, penalty_type):
+#******** Directional TV Fast-Gradient-Projection (FGP)*********#
+def dTV_FGP_CPU(inputData, refdata, regularisation_parameter, iterationsNumb, tolerance_param, eta_const, methodTV, nonneg):
if inputData.ndim == 2:
- return NDF_2D(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type)
+ return dTV_FGP_2D(inputData, refdata, regularisation_parameter, iterationsNumb, tolerance_param, eta_const, methodTV, nonneg)
elif inputData.ndim == 3:
- return NDF_3D(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type)
+ return dTV_FGP_3D(inputData, refdata, regularisation_parameter, iterationsNumb, tolerance_param, eta_const, methodTV, nonneg)
-def NDF_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def dTV_FGP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+ np.ndarray[np.float32_t, ndim=2, mode="c"] refdata,
float regularisation_parameter,
- float edge_parameter,
- int iterationsNumb,
- float time_marching_parameter,
- int penalty_type):
+ int iterationsNumb,
+ float tolerance_param,
+ float eta_const,
+ int methodTV,
+ int nonneg):
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
- np.zeros([dims[0],dims[1]], dtype='float32')
-
- # Run Nonlinear Diffusion iterations for 2D data
- Diffusion_CPU_main(&inputData[0,0], &outputData[0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type, dims[1], dims[0], 1)
- return outputData
-
-def NDF_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+ np.zeros([dims[0],dims[1]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.zeros([2], dtype='float32')
+
+ #/* Run FGP-dTV iterations for 2D data */
+ dTV_FGP_CPU_main(&inputData[0,0], &refdata[0,0], &outputData[0,0], &infovec[0],
+ regularisation_parameter,
+ iterationsNumb,
+ tolerance_param,
+ eta_const,
+ methodTV,
+ nonneg,
+ dims[1], dims[0], 1)
+ return (outputData,infovec)
+
+def dTV_FGP_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+ np.ndarray[np.float32_t, ndim=3, mode="c"] refdata,
float regularisation_parameter,
- float edge_parameter,
- int iterationsNumb,
- float time_marching_parameter,
- int penalty_type):
+ int iterationsNumb,
+ float tolerance_param,
+ float eta_const,
+ int methodTV,
+ int nonneg):
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
- np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
-
- # Run Nonlinear Diffusion iterations for 3D data
- Diffusion_CPU_main(&inputData[0,0,0], &outputData[0,0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type, dims[2], dims[1], dims[0])
+ np.zeros([dims[0], dims[1], dims[2]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.zeros([2], dtype='float32')
- return outputData
+ #/* Run FGP-dTV iterations for 3D data */
+ dTV_FGP_CPU_main(&inputData[0,0,0], &refdata[0,0,0], &outputData[0,0,0], &infovec[0],
+ regularisation_parameter,
+ iterationsNumb,
+ tolerance_param,
+ eta_const,
+ methodTV,
+ nonneg,
+ dims[2], dims[1], dims[0])
+ return (outputData,infovec)
#****************************************************************#
-#*************Anisotropic Fourth-Order diffusion*****************#
+#*********************Total Nuclear Variation********************#
#****************************************************************#
-def Diff4th_CPU(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter):
+def TNV_CPU(inputData, regularisation_parameter, iterationsNumb, tolerance_param):
if inputData.ndim == 2:
- return Diff4th_2D(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter)
+ return
elif inputData.ndim == 3:
- return Diff4th_3D(inputData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter)
+ return TNV_3D(inputData, regularisation_parameter, iterationsNumb, tolerance_param)
-def Diff4th_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def TNV_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
- float edge_parameter,
- int iterationsNumb,
- float time_marching_parameter):
- cdef long dims[2]
- dims[0] = inputData.shape[0]
- dims[1] = inputData.shape[1]
-
- cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
- np.zeros([dims[0],dims[1]], dtype='float32')
-
- # Run Anisotropic Fourth-Order diffusion for 2D data
- Diffus4th_CPU_main(&inputData[0,0], &outputData[0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, dims[1], dims[0], 1)
- return outputData
-
-def Diff4th_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
- float regularisation_parameter,
- float edge_parameter,
int iterationsNumb,
- float time_marching_parameter):
+ float tolerance_param):
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
-
- # Run Anisotropic Fourth-Order diffusion for 3D data
- Diffus4th_CPU_main(&inputData[0,0,0], &outputData[0,0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, dims[2], dims[1], dims[0])
+ # Run TNV iterations for 3D (X,Y,Channels) data
+ TNV_CPU_main(&inputData[0,0,0], &outputData[0,0,0], regularisation_parameter, iterationsNumb, tolerance_param, dims[2], dims[1], dims[0])
return outputData
-
#****************************************************************#
#***************Patch-based weights calculation******************#
#****************************************************************#
@@ -511,14 +544,14 @@ def PatchSel_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
dims[0] = neighbours
dims[1] = inputData.shape[0]
dims[2] = inputData.shape[1]
-
-
+
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] Weights = \
np.zeros([dims[0], dims[1],dims[2]], dtype='float32')
-
+
cdef np.ndarray[np.uint16_t, ndim=3, mode="c"] H_i = \
np.zeros([dims[0], dims[1],dims[2]], dtype='uint16')
-
+
cdef np.ndarray[np.uint16_t, ndim=3, mode="c"] H_j = \
np.zeros([dims[0], dims[1],dims[2]], dtype='uint16')
@@ -536,16 +569,16 @@ def PatchSel_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
dims[3] = neighbours
-
+
cdef np.ndarray[np.float32_t, ndim=4, mode="c"] Weights = \
np.zeros([dims[3],dims[0],dims[1],dims[2]], dtype='float32')
-
+
cdef np.ndarray[np.uint16_t, ndim=4, mode="c"] H_i = \
np.zeros([dims[3],dims[0],dims[1],dims[2]], dtype='uint16')
-
+
cdef np.ndarray[np.uint16_t, ndim=4, mode="c"] H_j = \
np.zeros([dims[3],dims[0],dims[1],dims[2]], dtype='uint16')
-
+
cdef np.ndarray[np.uint16_t, ndim=4, mode="c"] H_k = \
np.zeros([dims[3],dims[0],dims[1],dims[2]], dtype='uint16')
@@ -573,10 +606,10 @@ def NLTV_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
neighbours = H_i.shape[0]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
-
+
# Run nonlocal TV regularisation
Nonlocal_TV_CPU_main(&inputData[0,0], &outputData[0,0], &H_i[0,0,0], &H_j[0,0,0], &H_i[0,0,0], &Weights[0,0,0], dims[1], dims[0], 0, neighbours, regularisation_parameter, iterations)
return outputData
@@ -590,7 +623,7 @@ def NDF_INPAINT_CPU(inputData, maskData, regularisation_parameter, edge_paramete
elif inputData.ndim == 3:
return NDF_INP_3D(inputData, maskData, regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type)
-def NDF_INP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def NDF_INP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
np.ndarray[np.uint8_t, ndim=2, mode="c"] maskData,
float regularisation_parameter,
float edge_parameter,
@@ -605,12 +638,12 @@ def NDF_INP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
-
- # Run Inpaiting by Diffusion iterations for 2D data
+
+ # Run Inpaiting by Diffusion iterations for 2D data
Diffusion_Inpaint_CPU_main(&inputData[0,0], &maskData[0,0], &outputData[0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type, dims[1], dims[0], 1)
return outputData
-
-def NDF_INP_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def NDF_INP_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
np.ndarray[np.uint8_t, ndim=3, mode="c"] maskData,
float regularisation_parameter,
float edge_parameter,
@@ -621,11 +654,11 @@ def NDF_INP_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
-
- # Run Inpaiting by Diffusion iterations for 3D data
+
+ # Run Inpaiting by Diffusion iterations for 3D data
Diffusion_Inpaint_CPU_main(&inputData[0,0,0], &maskData[0,0,0], &outputData[0,0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type, dims[2], dims[1], dims[0])
return outputData
@@ -636,27 +669,27 @@ def NVM_INPAINT_CPU(inputData, maskData, SW_increment, iterationsNumb):
if inputData.ndim == 2:
return NVM_INP_2D(inputData, maskData, SW_increment, iterationsNumb)
elif inputData.ndim == 3:
- return
+ return
-def NVM_INP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def NVM_INP_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
np.ndarray[np.uint8_t, ndim=2, mode="c"] maskData,
int SW_increment,
int iterationsNumb):
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
- np.zeros([dims[0],dims[1]], dtype='float32')
-
+ np.zeros([dims[0],dims[1]], dtype='float32')
+
cdef np.ndarray[np.uint8_t, ndim=2, mode="c"] maskData_upd = \
np.zeros([dims[0],dims[1]], dtype='uint8')
-
- # Run Inpaiting by Nonlocal vertical marching method for 2D data
- NonlocalMarching_Inpaint_main(&inputData[0,0], &maskData[0,0], &outputData[0,0],
+
+ # Run Inpaiting by Nonlocal vertical marching method for 2D data
+ NonlocalMarching_Inpaint_main(&inputData[0,0], &maskData[0,0], &outputData[0,0],
&maskData_upd[0,0],
SW_increment, iterationsNumb, 1, dims[1], dims[0], 1)
-
+
return (outputData, maskData_upd)
@@ -669,36 +702,36 @@ def TV_ENERGY(inputData, inputData0, regularisation_parameter, typeFunctional):
elif inputData.ndim == 3:
return TV_ENERGY_3D(inputData, inputData0, regularisation_parameter, typeFunctional)
-def TV_ENERGY_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
- np.ndarray[np.float32_t, ndim=2, mode="c"] inputData0,
+def TV_ENERGY_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+ np.ndarray[np.float32_t, ndim=2, mode="c"] inputData0,
float regularisation_parameter,
int typeFunctional):
-
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] outputData = \
np.zeros([1], dtype='float32')
-
- # run function
+
+ # run function
TV_energy2D(&inputData[0,0], &inputData0[0,0], &outputData[0], regularisation_parameter, typeFunctional, dims[1], dims[0])
-
+
return outputData
-
+
def TV_ENERGY_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
- np.ndarray[np.float32_t, ndim=3, mode="c"] inputData0,
+ np.ndarray[np.float32_t, ndim=3, mode="c"] inputData0,
float regularisation_parameter,
int typeFunctional):
-
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] outputData = \
np.zeros([1], dtype='float32')
-
+
# Run function
TV_energy3D(&inputData[0,0,0], &inputData0[0,0,0], &outputData[0], regularisation_parameter, typeFunctional, dims[2], dims[1], dims[0])
diff --git a/src/Python/src/gpu_regularisers.pyx b/src/Python/src/gpu_regularisers.pyx
index 6fc4135..84ee981 100644
--- a/src/Python/src/gpu_regularisers.pyx
+++ b/src/Python/src/gpu_regularisers.pyx
@@ -24,68 +24,68 @@ cdef extern int TV_ROF_GPU_main(float* Input, float* Output, float *infovector,
cdef extern int TV_FGP_GPU_main(float *Input, float *Output, float *infovector, float lambdaPar, int iter, float epsil, int methodTV, int nonneg, int N, int M, int Z);
cdef extern int TV_SB_GPU_main(float *Input, float *Output, float *infovector, float lambdaPar, int iter, float epsil, int methodTV, int N, int M, int Z);
cdef extern int LLT_ROF_GPU_main(float *Input, float *Output, float *infovector, float lambdaROF, float lambdaLLT, int iterationsNumb, float tau, float epsil, int N, int M, int Z);
-cdef extern int TGV_GPU_main(float *Input, float *Output, float lambdaPar, float alpha1, float alpha0, int iterationsNumb, float L2, int dimX, int dimY, int dimZ);
-cdef extern int NonlDiff_GPU_main(float *Input, float *Output, float lambdaPar, float sigmaPar, int iterationsNumb, float tau, int penaltytype, int N, int M, int Z);
-cdef extern int dTV_FGP_GPU_main(float *Input, float *InputRef, float *Output, float lambdaPar, int iterationsNumb, float epsil, float eta, int methodTV, int nonneg, int printM, int N, int M, int Z);
-cdef extern int Diffus4th_GPU_main(float *Input, float *Output, float lambdaPar, float sigmaPar, int iterationsNumb, float tau, int N, int M, int Z);
+cdef extern int TGV_GPU_main(float *Input, float *Output, float *infovector, float lambdaPar, float alpha1, float alpha0, int iterationsNumb, float L2, float epsil, int dimX, int dimY, int dimZ);
+cdef extern int NonlDiff_GPU_main(float *Input, float *Output, float *infovector, float lambdaPar, float sigmaPar, int iterationsNumb, float tau, int penaltytype, float epsil, int N, int M, int Z);
+cdef extern int Diffus4th_GPU_main(float *Input, float *Output, float *infovector, float lambdaPar, float sigmaPar, int iterationsNumb, float tau, float epsil, int N, int M, int Z);
+cdef extern int dTV_FGP_GPU_main(float *Input, float *InputRef, float *Output, float *infovector, float lambdaPar, int iterationsNumb, float epsil, float eta, int methodTV, int nonneg, int N, int M, int Z);
cdef extern int PatchSelect_GPU_main(float *Input, unsigned short *H_i, unsigned short *H_j, float *Weights, int N, int M, int SearchWindow, int SimilarWin, int NumNeighb, float h);
# Total-variation Rudin-Osher-Fatemi (ROF)
def TV_ROF_GPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
time_marching_parameter,
tolerance_param):
if inputData.ndim == 2:
- return ROFTV2D(inputData,
+ return ROFTV2D(inputData,
regularisation_parameter,
iterations,
time_marching_parameter,
tolerance_param)
elif inputData.ndim == 3:
- return ROFTV3D(inputData,
+ return ROFTV3D(inputData,
regularisation_parameter,
- iterations,
+ iterations,
time_marching_parameter,
tolerance_param)
-
+
# Total-variation Fast-Gradient-Projection (FGP)
def TV_FGP_GPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV,
nonneg):
if inputData.ndim == 2:
return FGPTV2D(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV,
nonneg)
elif inputData.ndim == 3:
return FGPTV3D(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV,
nonneg)
# Total-variation Split Bregman (SB)
def TV_SB_GPU(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV):
if inputData.ndim == 2:
return SBTV2D(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV)
elif inputData.ndim == 3:
return SBTV3D(inputData,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
methodTV)
# LLT-ROF model
@@ -95,90 +95,93 @@ def LLT_ROF_GPU(inputData, regularisation_parameterROF, regularisation_parameter
elif inputData.ndim == 3:
return LLT_ROF_GPU3D(inputData, regularisation_parameterROF, regularisation_parameterLLT, iterations, time_marching_parameter, tolerance_param)
# Total Generilised Variation (TGV)
-def TGV_GPU(inputData, regularisation_parameter, alpha1, alpha0, iterations, LipshitzConst):
+def TGV_GPU(inputData, regularisation_parameter, alpha1, alpha0, iterations, LipshitzConst, tolerance_param):
if inputData.ndim == 2:
- return TGV2D(inputData, regularisation_parameter, alpha1, alpha0, iterations, LipshitzConst)
+ return TGV2D(inputData, regularisation_parameter, alpha1, alpha0, iterations, LipshitzConst, tolerance_param)
elif inputData.ndim == 3:
- return TGV3D(inputData, regularisation_parameter, alpha1, alpha0, iterations, LipshitzConst)
+ return TGV3D(inputData, regularisation_parameter, alpha1, alpha0, iterations, LipshitzConst, tolerance_param)
# Directional Total-variation Fast-Gradient-Projection (FGP)
def dTV_FGP_GPU(inputData,
refdata,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
eta_const,
methodTV,
- nonneg,
- printM):
+ nonneg):
if inputData.ndim == 2:
return FGPdTV2D(inputData,
refdata,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
eta_const,
methodTV,
- nonneg,
- printM)
+ nonneg)
elif inputData.ndim == 3:
return FGPdTV3D(inputData,
refdata,
regularisation_parameter,
- iterations,
+ iterations,
tolerance_param,
eta_const,
methodTV,
- nonneg,
- printM)
+ nonneg)
# Nonlocal Isotropic Diffusion (NDF)
def NDF_GPU(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
+ iterations,
time_marching_parameter,
- penalty_type):
+ penalty_type,
+ tolerance_param):
if inputData.ndim == 2:
return NDF_GPU_2D(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
+ iterations,
time_marching_parameter,
- penalty_type)
+ penalty_type,
+ tolerance_param)
elif inputData.ndim == 3:
return NDF_GPU_3D(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
+ iterations,
time_marching_parameter,
- penalty_type)
+ penalty_type,
+ tolerance_param)
# Anisotropic Fourth-Order diffusion
def Diff4th_GPU(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
- time_marching_parameter):
+ iterations,
+ time_marching_parameter,
+ tolerance_param):
if inputData.ndim == 2:
return Diff4th_2D(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
- time_marching_parameter)
+ iterations,
+ time_marching_parameter,
+ tolerance_param)
elif inputData.ndim == 3:
return Diff4th_3D(inputData,
regularisation_parameter,
edge_parameter,
- iterations,
- time_marching_parameter)
-
+ iterations,
+ time_marching_parameter,
+ tolerance_param)
+
#****************************************************************#
#********************** Total-variation ROF *********************#
#****************************************************************#
-def ROFTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def ROFTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
- int iterations,
+ int iterations,
float time_marching_parameter,
float tolerance_param):
-
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -187,25 +190,25 @@ def ROFTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
np.zeros([dims[0],dims[1]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
+
# Running CUDA code here
if (TV_ROF_GPU_main(
&inputData[0,0], &outputData[0,0], &infovec[0],
regularisation_parameter,
- iterations,
- time_marching_parameter,
+ iterations,
+ time_marching_parameter,
tolerance_param,
dims[1], dims[0], 1)==0):
return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
-def ROFTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def ROFTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
- int iterations,
+ int iterations,
float time_marching_parameter,
float tolerance_param):
-
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -215,13 +218,13 @@ def ROFTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
- # Running CUDA code here
+
+ # Running CUDA code here
if (TV_ROF_GPU_main(
&inputData[0,0,0], &outputData[0,0,0], &infovec[0],
regularisation_parameter,
- iterations,
- time_marching_parameter,
+ iterations,
+ time_marching_parameter,
tolerance_param,
dims[2], dims[1], dims[0])==0):
return (outputData,infovec)
@@ -231,13 +234,13 @@ def ROFTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
#********************** Total-variation FGP *********************#
#****************************************************************#
#******** Total-variation Fast-Gradient-Projection (FGP)*********#
-def FGPTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def FGPTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
- int iterations,
+ int iterations,
float tolerance_param,
int methodTV,
int nonneg):
-
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -246,10 +249,10 @@ def FGPTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
np.zeros([dims[0],dims[1]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
- # Running CUDA code here
+
+ # Running CUDA code here
if (TV_FGP_GPU_main(&inputData[0,0], &outputData[0,0], &infovec[0],
- regularisation_parameter,
+ regularisation_parameter,
iterations,
tolerance_param,
methodTV,
@@ -258,14 +261,14 @@ def FGPTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
-def FGPTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def FGPTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
- int iterations,
+ int iterations,
float tolerance_param,
int methodTV,
int nonneg):
-
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -276,11 +279,11 @@ def FGPTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
- # Running CUDA code here
+
+ # Running CUDA code here
if (TV_FGP_GPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0],
- regularisation_parameter,
- iterations,
+ regularisation_parameter,
+ iterations,
tolerance_param,
methodTV,
nonneg,
@@ -293,12 +296,12 @@ def FGPTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
#********************** Total-variation SB *********************#
#***************************************************************#
#*************** Total-variation Split Bregman (SB)*************#
-def SBTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def SBTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
- int iterations,
+ int iterations,
float tolerance_param,
int methodTV):
-
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -307,11 +310,11 @@ def SBTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
np.zeros([dims[0],dims[1]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
+
# Running CUDA code here
if (TV_SB_GPU_main(&inputData[0,0], &outputData[0,0],&infovec[0],
- regularisation_parameter,
- iterations,
+ regularisation_parameter,
+ iterations,
tolerance_param,
methodTV,
dims[1], dims[0], 1)==0):
@@ -319,13 +322,13 @@ def SBTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
else:
raise ValueError(CUDAErrorMessage);
-
-def SBTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def SBTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
- int iterations,
+ int iterations,
float tolerance_param,
int methodTV):
-
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -335,11 +338,11 @@ def SBTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
- # Running CUDA code here
+
+ # Running CUDA code here
if (TV_SB_GPU_main(&inputData[0,0,0], &outputData[0,0,0],&infovec[0],
- regularisation_parameter ,
- iterations,
+ regularisation_parameter ,
+ iterations,
tolerance_param,
methodTV,
dims[2], dims[1], dims[0])==0):
@@ -352,13 +355,13 @@ def SBTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
#************************ LLT-ROF model ************************#
#***************************************************************#
#************Joint LLT-ROF model for higher order **************#
-def LLT_ROF_GPU2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def LLT_ROF_GPU2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameterROF,
float regularisation_parameterLLT,
- int iterations,
+ int iterations,
float time_marching_parameter,
float tolerance_param):
-
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -367,24 +370,24 @@ def LLT_ROF_GPU2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
np.zeros([dims[0],dims[1]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
- # Running CUDA code here
- if (LLT_ROF_GPU_main(&inputData[0,0], &outputData[0,0],&infovec[0],regularisation_parameterROF, regularisation_parameterLLT, iterations,
- time_marching_parameter,
+
+ # Running CUDA code here
+ if (LLT_ROF_GPU_main(&inputData[0,0], &outputData[0,0],&infovec[0],regularisation_parameterROF, regularisation_parameterLLT, iterations,
+ time_marching_parameter,
tolerance_param,
dims[1],dims[0],1)==0):
return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
-def LLT_ROF_GPU3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def LLT_ROF_GPU3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameterROF,
float regularisation_parameterLLT,
- int iterations,
+ int iterations,
float time_marching_parameter,
float tolerance_param):
-
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -394,11 +397,11 @@ def LLT_ROF_GPU3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
np.ones([2], dtype='float32')
-
+
# Running CUDA code here
- if (LLT_ROF_GPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0], regularisation_parameterROF, regularisation_parameterLLT,
- iterations,
- time_marching_parameter,
+ if (LLT_ROF_GPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0], regularisation_parameterROF, regularisation_parameterLLT,
+ iterations,
+ time_marching_parameter,
tolerance_param,
dims[2], dims[1], dims[0])==0):
return (outputData,infovec)
@@ -409,38 +412,43 @@ def LLT_ROF_GPU3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
#***************************************************************#
#***************** Total Generalised Variation *****************#
#***************************************************************#
-def TGV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def TGV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
float alpha1,
float alpha0,
- int iterationsNumb,
- float LipshitzConst):
-
+ int iterationsNumb,
+ float LipshitzConst,
+ float tolerance_param):
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
-
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.ones([2], dtype='float32')
+
#/* Run TGV iterations for 2D data */
- if (TGV_GPU_main(&inputData[0,0], &outputData[0,0], regularisation_parameter,
+ if (TGV_GPU_main(&inputData[0,0], &outputData[0,0], &infovec[0], regularisation_parameter,
alpha1,
alpha0,
- iterationsNumb,
+ iterationsNumb,
LipshitzConst,
+ tolerance_param,
dims[1],dims[0], 1)==0):
- return outputData
+ return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-def TGV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+def TGV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
float alpha1,
float alpha0,
- int iterationsNumb,
- float LipshitzConst):
-
+ int iterationsNumb,
+ float LipshitzConst,
+ float tolerance_param):
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
@@ -448,178 +456,205 @@ def TGV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
-
- # Running CUDA code here
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.ones([2], dtype='float32')
+
+ # Running CUDA code here
if (TGV_GPU_main(
- &inputData[0,0,0], &outputData[0,0,0], regularisation_parameter,
+ &inputData[0,0,0], &outputData[0,0,0], &infovec[0], regularisation_parameter,
alpha1,
alpha0,
- iterationsNumb,
+ iterationsNumb,
LipshitzConst,
+ tolerance_param,
dims[2], dims[1], dims[0])==0):
- return outputData;
+ return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
#****************************************************************#
-#**************Directional Total-variation FGP ******************#
+#***************Nonlinear (Isotropic) Diffusion******************#
#****************************************************************#
-#******** Directional TV Fast-Gradient-Projection (FGP)*********#
-def FGPdTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
- np.ndarray[np.float32_t, ndim=2, mode="c"] refdata,
+def NDF_GPU_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
- int iterations,
- float tolerance_param,
- float eta_const,
- int methodTV,
- int nonneg,
- int printM):
-
+ float edge_parameter,
+ int iterationsNumb,
+ float time_marching_parameter,
+ int penalty_type,
+ float tolerance_param):
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
- np.zeros([dims[0],dims[1]], dtype='float32')
-
- # Running CUDA code here
- if (dTV_FGP_GPU_main(&inputData[0,0], &refdata[0,0], &outputData[0,0],
- regularisation_parameter,
- iterations,
- tolerance_param,
- eta_const,
- methodTV,
- nonneg,
- printM,
- dims[1], dims[0], 1)==0):
- return outputData
+ np.zeros([dims[0],dims[1]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.ones([2], dtype='float32')
+
+ #rangecheck = penalty_type < 1 and penalty_type > 3
+ #if not rangecheck:
+# raise ValueError('Choose penalty type as 1 for Huber, 2 - Perona-Malik, 3 - Tukey Biweight')
+
+ # Run Nonlinear Diffusion iterations for 2D data
+ # Running CUDA code here
+ if (NonlDiff_GPU_main(&inputData[0,0], &outputData[0,0],&infovec[0],
+ regularisation_parameter,
+ edge_parameter, iterationsNumb,
+ time_marching_parameter, penalty_type,
+ tolerance_param,
+ dims[1], dims[0], 1)==0):
+ return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
-
-def FGPdTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
- np.ndarray[np.float32_t, ndim=3, mode="c"] refdata,
+def NDF_GPU_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
- int iterations,
- float tolerance_param,
- float eta_const,
- int methodTV,
- int nonneg,
- int printM):
-
+ float edge_parameter,
+ int iterationsNumb,
+ float time_marching_parameter,
+ int penalty_type,
+ float tolerance_param):
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
- np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
-
- # Running CUDA code here
- if (dTV_FGP_GPU_main(&inputData[0,0,0], &refdata[0,0,0], &outputData[0,0,0],
- regularisation_parameter ,
- iterations,
- tolerance_param,
- eta_const,
- methodTV,
- nonneg,
- printM,
- dims[2], dims[1], dims[0])==0):
- return outputData;
+ np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.ones([2], dtype='float32')
+
+ # Run Nonlinear Diffusion iterations for 3D data
+ # Running CUDA code here
+ if (NonlDiff_GPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0],
+ regularisation_parameter, edge_parameter,
+ iterationsNumb, time_marching_parameter,
+ penalty_type,
+ tolerance_param,
+ dims[2], dims[1], dims[0])==0):
+ return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
#****************************************************************#
-#***************Nonlinear (Isotropic) Diffusion******************#
+#************Anisotropic Fourth-Order diffusion******************#
#****************************************************************#
-def NDF_GPU_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+def Diff4th_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
float regularisation_parameter,
float edge_parameter,
- int iterationsNumb,
+ int iterationsNumb,
float time_marching_parameter,
- int penalty_type):
+ float tolerance_param):
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
np.zeros([dims[0],dims[1]], dtype='float32')
-
- #rangecheck = penalty_type < 1 and penalty_type > 3
- #if not rangecheck:
-# raise ValueError('Choose penalty type as 1 for Huber, 2 - Perona-Malik, 3 - Tukey Biweight')
-
- # Run Nonlinear Diffusion iterations for 2D data
- # Running CUDA code here
- if (NonlDiff_GPU_main(&inputData[0,0], &outputData[0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type, dims[1], dims[0], 1)==0):
- return outputData;
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.ones([2], dtype='float32')
+
+ # Run Anisotropic Fourth-Order diffusion for 2D data
+ # Running CUDA code here
+ if (Diffus4th_GPU_main(&inputData[0,0], &outputData[0,0], &infovec[0],
+ regularisation_parameter, edge_parameter, iterationsNumb,
+ time_marching_parameter,
+ tolerance_param,
+ dims[1], dims[0], 1)==0):
+ return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
-def NDF_GPU_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+def Diff4th_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
float regularisation_parameter,
float edge_parameter,
- int iterationsNumb,
+ int iterationsNumb,
float time_marching_parameter,
- int penalty_type):
+ float tolerance_param):
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
- np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
-
- # Run Nonlinear Diffusion iterations for 3D data
- # Running CUDA code here
- if (NonlDiff_GPU_main(&inputData[0,0,0], &outputData[0,0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, penalty_type, dims[2], dims[1], dims[0])==0):
- return outputData;
+ np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.ones([2], dtype='float32')
+
+ # Run Anisotropic Fourth-Order diffusion for 3D data
+ # Running CUDA code here
+ if (Diffus4th_GPU_main(&inputData[0,0,0], &outputData[0,0,0], &infovec[0],
+ regularisation_parameter, edge_parameter,
+ iterationsNumb, time_marching_parameter,
+ tolerance_param,
+ dims[2], dims[1], dims[0])==0):
+ return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
#****************************************************************#
-#************Anisotropic Fourth-Order diffusion******************#
+#**************Directional Total-variation FGP ******************#
#****************************************************************#
-def Diff4th_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+#******** Directional TV Fast-Gradient-Projection (FGP)*********#
+def FGPdTV2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
+ np.ndarray[np.float32_t, ndim=2, mode="c"] refdata,
float regularisation_parameter,
- float edge_parameter,
- int iterationsNumb,
- float time_marching_parameter):
+ int iterations,
+ float tolerance_param,
+ float eta_const,
+ int methodTV,
+ int nonneg):
+
cdef long dims[2]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
-
+
cdef np.ndarray[np.float32_t, ndim=2, mode="c"] outputData = \
- np.zeros([dims[0],dims[1]], dtype='float32')
-
- # Run Anisotropic Fourth-Order diffusion for 2D data
- # Running CUDA code here
- if (Diffus4th_GPU_main(&inputData[0,0], &outputData[0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, dims[1], dims[0], 1)==0):
- return outputData
+ np.zeros([dims[0],dims[1]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.ones([2], dtype='float32')
+
+ # Running CUDA code here
+ if (dTV_FGP_GPU_main(&inputData[0,0], &refdata[0,0], &outputData[0,0], &infovec[0],
+ regularisation_parameter,
+ iterations,
+ tolerance_param,
+ eta_const,
+ methodTV,
+ nonneg,
+ dims[1], dims[0], 1)==0):
+ return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
-
-def Diff4th_3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+
+def FGPdTV3D(np.ndarray[np.float32_t, ndim=3, mode="c"] inputData,
+ np.ndarray[np.float32_t, ndim=3, mode="c"] refdata,
float regularisation_parameter,
- float edge_parameter,
- int iterationsNumb,
- float time_marching_parameter):
+ int iterations,
+ float tolerance_param,
+ float eta_const,
+ int methodTV,
+ int nonneg):
+
cdef long dims[3]
dims[0] = inputData.shape[0]
dims[1] = inputData.shape[1]
dims[2] = inputData.shape[2]
-
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] outputData = \
- np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
-
- # Run Anisotropic Fourth-Order diffusion for 3D data
- # Running CUDA code here
- if (Diffus4th_GPU_main(&inputData[0,0,0], &outputData[0,0,0], regularisation_parameter, edge_parameter, iterationsNumb, time_marching_parameter, dims[2], dims[1], dims[0])==0):
- return outputData;
+ np.zeros([dims[0],dims[1],dims[2]], dtype='float32')
+ cdef np.ndarray[np.float32_t, ndim=1, mode="c"] infovec = \
+ np.ones([2], dtype='float32')
+
+ # Running CUDA code here
+ if (dTV_FGP_GPU_main(&inputData[0,0,0], &refdata[0,0,0], &outputData[0,0,0], &infovec[0],
+ regularisation_parameter ,
+ iterations,
+ tolerance_param,
+ eta_const,
+ methodTV,
+ nonneg,
+ dims[2], dims[1], dims[0])==0):
+ return (outputData,infovec)
else:
raise ValueError(CUDAErrorMessage);
@@ -639,14 +674,14 @@ def PatchSel_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
cdef long dims[3]
dims[0] = neighbours
dims[1] = inputData.shape[0]
- dims[2] = inputData.shape[1]
-
+ dims[2] = inputData.shape[1]
+
cdef np.ndarray[np.float32_t, ndim=3, mode="c"] Weights = \
np.zeros([dims[0], dims[1],dims[2]], dtype='float32')
-
+
cdef np.ndarray[np.uint16_t, ndim=3, mode="c"] H_i = \
np.zeros([dims[0], dims[1],dims[2]], dtype='uint16')
-
+
cdef np.ndarray[np.uint16_t, ndim=3, mode="c"] H_j = \
np.zeros([dims[0], dims[1],dims[2]], dtype='uint16')
@@ -655,4 +690,3 @@ def PatchSel_2D(np.ndarray[np.float32_t, ndim=2, mode="c"] inputData,
return H_i, H_j, Weights;
else:
raise ValueError(CUDAErrorMessage);
-