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-rw-r--r--include/astra/Float32ProjectionData3D.h5
-rw-r--r--include/astra/Float32VolumeData3D.h5
-rw-r--r--matlab/mex/astra_mex_data3d_c.cpp110
-rw-r--r--python/astra/PyIncludes.pxd15
-rw-r--r--python/astra/data3d.py11
-rw-r--r--python/astra/data3d_c.pyx55
-rw-r--r--src/Float32ProjectionData3D.cpp9
-rw-r--r--src/Float32VolumeData3D.cpp9
8 files changed, 218 insertions, 1 deletions
diff --git a/include/astra/Float32ProjectionData3D.h b/include/astra/Float32ProjectionData3D.h
index 79b762e..329c9a4 100644
--- a/include/astra/Float32ProjectionData3D.h
+++ b/include/astra/Float32ProjectionData3D.h
@@ -196,6 +196,11 @@ public:
* @return pointer to projection geometry.
*/
virtual CProjectionGeometry3D* getGeometry() const;
+
+ /** Change the projection geometry.
+ * Note that this can't change the dimensions of the data.
+ */
+ virtual void changeGeometry(CProjectionGeometry3D* pGeometry);
};
diff --git a/include/astra/Float32VolumeData3D.h b/include/astra/Float32VolumeData3D.h
index d8f0ae9..07df78f 100644
--- a/include/astra/Float32VolumeData3D.h
+++ b/include/astra/Float32VolumeData3D.h
@@ -214,6 +214,11 @@ public:
* @return The geometry describing the data stored in this volume
*/
virtual CVolumeGeometry3D* getGeometry() const;
+
+ /** Change the projection geometry.
+ * Note that this can't change the dimensions of the data.
+ */
+ virtual void changeGeometry(CVolumeGeometry3D* pGeometry);
};
//----------------------------------------------------------------------------------------
diff --git a/matlab/mex/astra_mex_data3d_c.cpp b/matlab/mex/astra_mex_data3d_c.cpp
index 7efbdab..6096adc 100644
--- a/matlab/mex/astra_mex_data3d_c.cpp
+++ b/matlab/mex/astra_mex_data3d_c.cpp
@@ -310,6 +310,112 @@ void astra_mex_data3d_get_geometry(int nlhs, mxArray* plhs[], int nrhs, const mx
}
//-----------------------------------------------------------------------------------------
+/** astra_mex_data3d('change_geometry', id, geom);
+ *
+ * Change the geometry of a 3d data object.
+ * id: identifier of the 3d data object as stored in the astra-library.
+ * geom: the new geometry struct, as created by astra_create_vol/proj_geom
+ */
+void astra_mex_data3d_change_geometry(int nlhs, mxArray* plhs[], int nrhs, const mxArray* prhs[])
+{
+ // parse input
+ if (nrhs < 3) {
+ mexErrMsgTxt("Not enough arguments. See the help document for a detailed argument list. \n");
+ return;
+ }
+
+ // get data object
+ CFloat32Data3DMemory* pDataObject = NULL;
+ if (!checkID(mxGetScalar(prhs[1]), pDataObject)) {
+ mexErrMsgTxt("Data object not found or not initialized properly.\n");
+ return;
+ }
+
+ const mxArray * const geometry = prhs[2];
+
+ if (!checkStructs(geometry)) {
+ mexErrMsgTxt("Argument 3 is not a valid MATLAB struct.\n");
+ return;
+ }
+
+ CFloat32ProjectionData3D* pProjData = dynamic_cast<CFloat32ProjectionData3D*>(pDataObject);
+ if (pProjData) {
+ // Projection data
+
+ // Read geometry
+ astra::Config* cfg = structToConfig("ProjectionGeometry3D", geometry);
+ // FIXME: Change how the base class is created. (This is duplicated
+ // in Projector3D.cpp.)
+ std::string type = cfg->self->getAttribute("type");
+ astra::CProjectionGeometry3D* pGeometry = 0;
+ if (type == "parallel3d") {
+ pGeometry = new astra::CParallelProjectionGeometry3D();
+ } else if (type == "parallel3d_vec") {
+ pGeometry = new astra::CParallelVecProjectionGeometry3D();
+ } else if (type == "cone") {
+ pGeometry = new astra::CConeProjectionGeometry3D();
+ } else if (type == "cone_vec") {
+ pGeometry = new astra::CConeVecProjectionGeometry3D();
+ } else {
+ mexErrMsgTxt("Invalid geometry type.\n");
+ return;
+ }
+
+ if (!pGeometry->initialize(*cfg)) {
+ mexErrMsgTxt("Geometry class not initialized. \n");
+ delete pGeometry;
+ delete cfg;
+ return;
+ }
+ delete cfg;
+
+ // Check dimensions
+ if (pGeometry->getDetectorColCount() != pProjData->getDetectorColCount() ||
+ pGeometry->getProjectionCount() != pProjData->getAngleCount() ||
+ pGeometry->getDetectorRowCount() != pProjData->getDetectorRowCount())
+ {
+ mexErrMsgTxt("The dimensions of the data do not match those specified in the geometry. \n");
+ delete pGeometry;
+ return;
+ }
+
+ // If ok, change geometry
+ pProjData->changeGeometry(pGeometry);
+ delete pGeometry;
+ } else {
+ // Volume data
+ CFloat32VolumeData3D* pVolData = dynamic_cast<CFloat32VolumeData3D*>(pDataObject);
+ assert(pVolData);
+
+ // Read geometry
+ astra::Config* cfg = structToConfig("VolumeGeometry3D", geometry);
+ astra::CVolumeGeometry3D* pGeometry = new astra::CVolumeGeometry3D();
+ if (!pGeometry->initialize(*cfg))
+ {
+ mexErrMsgTxt("Geometry class not initialized. \n");
+ delete pGeometry;
+ delete cfg;
+ return;
+ }
+ delete cfg;
+
+ // Check dimensions
+ if (pGeometry->getGridColCount() != pVolData->getColCount() ||
+ pGeometry->getGridRowCount() != pVolData->getRowCount() ||
+ pGeometry->getGridSliceCount() != pVolData->getSliceCount())
+ {
+ mexErrMsgTxt("The dimensions of the data do not match those specified in the geometry. \n");
+ delete pGeometry;
+ return;
+ }
+
+ // If ok, change geometry
+ pVolData->changeGeometry(pGeometry);
+ delete pGeometry;
+ }
+}
+
+//-----------------------------------------------------------------------------------------
/**
* astra_mex_data3d('delete', did1, did2, ...);
*/
@@ -351,7 +457,7 @@ static void printHelp()
{
mexPrintf("Please specify a mode of operation.\n");
mexPrintf("Valid modes: create, get, get_single, delete, clear, info\n");
- mexPrintf(" dimensions\n");
+ mexPrintf(" dimensions, get_geometry, change_geometry\n");
}
@@ -398,6 +504,8 @@ void mexFunction(int nlhs, mxArray* plhs[],
astra_mex_data3d_dimensions(nlhs, plhs, nrhs, prhs);
} else if (sMode == std::string("get_geometry")) {
astra_mex_data3d_get_geometry(nlhs, plhs, nrhs, prhs);
+ } else if (sMode == std::string("change_geometry")) {
+ astra_mex_data3d_change_geometry(nlhs, plhs, nrhs, prhs);
} else {
printHelp();
}
diff --git a/python/astra/PyIncludes.pxd b/python/astra/PyIncludes.pxd
index 13329d1..1d8285b 100644
--- a/python/astra/PyIncludes.pxd
+++ b/python/astra/PyIncludes.pxd
@@ -201,12 +201,18 @@ cdef extern from "astra/VolumeGeometry3D.h" namespace "astra":
CVolumeGeometry3D()
bool initialize(Config)
Config * getConfiguration()
+ int getGridColCount()
+ int getGridRowCount()
+ int getGridSliceCount()
cdef extern from "astra/ProjectionGeometry3D.h" namespace "astra":
cdef cppclass CProjectionGeometry3D:
CProjectionGeometry3D()
bool initialize(Config)
Config * getConfiguration()
+ int getProjectionCount()
+ int getDetectorColCount()
+ int getDetectorRowCount()
cdef extern from "astra/Float32VolumeData3DMemory.h" namespace "astra":
@@ -214,6 +220,11 @@ cdef extern from "astra/Float32VolumeData3DMemory.h" namespace "astra":
CFloat32VolumeData3DMemory(CVolumeGeometry3D*)
CFloat32VolumeData3DMemory(CVolumeGeometry3D*, CFloat32CustomMemory*)
CVolumeGeometry3D* getGeometry()
+ void changeGeometry(CVolumeGeometry3D*)
+ int getRowCount()
+ int getColCount()
+ int getSliceCount()
+
cdef extern from "astra/ParallelProjectionGeometry3D.h" namespace "astra":
@@ -240,6 +251,10 @@ cdef extern from "astra/Float32ProjectionData3DMemory.h" namespace "astra":
CFloat32ProjectionData3DMemory(CProjectionGeometry3D*, CFloat32CustomMemory*)
CFloat32ProjectionData3DMemory(CConeProjectionGeometry3D*, CFloat32CustomMemory*)
CProjectionGeometry3D* getGeometry()
+ void changeGeometry(CProjectionGeometry3D*)
+ int getDetectorColCount()
+ int getDetectorRowCount()
+ int getAngleCount()
cdef extern from "astra/Float32Data3D.h" namespace "astra":
cdef cppclass CFloat32Data3D:
diff --git a/python/astra/data3d.py b/python/astra/data3d.py
index 4fdf9d7..e5ef6b0 100644
--- a/python/astra/data3d.py
+++ b/python/astra/data3d.py
@@ -112,6 +112,17 @@ def get_geometry(i):
"""
return d.get_geometry(i)
+def change_geometry(i, geometry):
+ """Change the geometry of a 3D object.
+
+ :param i: ID of object.
+ :type i: :class:`int`
+ :param geometry: Volume or projection geometry.
+ :type geometry: :class:`dict`
+
+ """
+ return d.change_geometry(i, geometry)
+
def dimensions(i):
"""Get dimensions of a 3D object.
diff --git a/python/astra/data3d_c.pyx b/python/astra/data3d_c.pyx
index f2c6e26..84472c1 100644
--- a/python/astra/data3d_c.pyx
+++ b/python/astra/data3d_c.pyx
@@ -139,6 +139,61 @@ def get_geometry(i):
raise Exception("Not a known data object")
return geom
+def change_geometry(i, geom):
+ cdef CFloat32Data3DMemory * pDataObject = dynamic_cast_mem(getObject(i))
+ cdef CFloat32ProjectionData3DMemory * pDataObject2
+ cdef CFloat32VolumeData3DMemory * pDataObject3
+ if pDataObject.getType() == THREEPROJECTION:
+ pDataObject2 = <CFloat32ProjectionData3DMemory * >pDataObject
+ # TODO: Reduce code duplication here
+ cfg = utils.dictToConfig(six.b('ProjectionGeometry'), geom)
+ tpe = wrap_from_bytes(cfg.self.getAttribute(six.b('type')))
+ if (tpe == "parallel3d"):
+ ppGeometry = <CProjectionGeometry3D*> new CParallelProjectionGeometry3D();
+ elif (tpe == "parallel3d_vec"):
+ ppGeometry = <CProjectionGeometry3D*> new CParallelVecProjectionGeometry3D();
+ elif (tpe == "cone"):
+ ppGeometry = <CProjectionGeometry3D*> new CConeProjectionGeometry3D();
+ elif (tpe == "cone_vec"):
+ ppGeometry = <CProjectionGeometry3D*> new CConeVecProjectionGeometry3D();
+ else:
+ raise Exception("Invalid geometry type.")
+ if not ppGeometry.initialize(cfg[0]):
+ del cfg
+ del ppGeometry
+ raise Exception('Geometry class not initialized.')
+ del cfg
+ if (ppGeometry.getDetectorColCount() != pDataObject2.getDetectorColCount() or \
+ ppGeometry.getProjectionCount() != pDataObject2.getAngleCount() or \
+ ppGeometry.getDetectorRowCount() != pDataObject2.getDetectorRowCount()):
+ del ppGeometry
+ raise Exception(
+ "The dimensions of the data do not match those specified in the geometry.")
+ pDataObject2.changeGeometry(ppGeometry)
+ del ppGeometry
+
+ elif pDataObject.getType() == THREEVOLUME:
+ pDataObject3 = <CFloat32VolumeData3DMemory * >pDataObject
+ cfg = utils.dictToConfig(six.b('VolumeGeometry'), geom)
+ pGeometry = new CVolumeGeometry3D()
+ if not pGeometry.initialize(cfg[0]):
+ del cfg
+ del pGeometry
+ raise Exception('Geometry class not initialized.')
+ del cfg
+ if (pGeometry.getGridColCount() != pDataObject3.getColCount() or \
+ pGeometry.getGridRowCount() != pDataObject3.getRowCount() or \
+ pGeometry.getGridSliceCount() != pDataObject3.getSliceCount()):
+ del pGeometry
+ raise Exception(
+ "The dimensions of the data do not match those specified in the geometry.")
+ pDataObject3.changeGeometry(pGeometry)
+ del pGeometry
+
+ else:
+ raise Exception("Not a known data object")
+
+
cdef fillDataObject(CFloat32Data3DMemory * obj, data):
if data is None:
fillDataObjectScalar(obj, 0)
diff --git a/src/Float32ProjectionData3D.cpp b/src/Float32ProjectionData3D.cpp
index d039c83..2bd0447 100644
--- a/src/Float32ProjectionData3D.cpp
+++ b/src/Float32ProjectionData3D.cpp
@@ -270,4 +270,13 @@ CFloat32ProjectionData3D& CFloat32ProjectionData3D::operator-=(const float32& _f
return *this;
}
+void CFloat32ProjectionData3D::changeGeometry(CProjectionGeometry3D* _pGeometry)
+{
+ if (!m_bInitialized) return;
+
+ delete m_pGeometry;
+ m_pGeometry = _pGeometry->clone();
+}
+
+
} // end namespace astra
diff --git a/src/Float32VolumeData3D.cpp b/src/Float32VolumeData3D.cpp
index ce00a10..bd78001 100644
--- a/src/Float32VolumeData3D.cpp
+++ b/src/Float32VolumeData3D.cpp
@@ -266,4 +266,13 @@ CFloat32VolumeData3D& CFloat32VolumeData3D::operator-=(const float32& _fScalar)
return *this;
}
+void CFloat32VolumeData3D::changeGeometry(CVolumeGeometry3D* _pGeometry)
+{
+ if (!m_bInitialized) return;
+
+ delete m_pGeometry;
+ m_pGeometry = _pGeometry->clone();
+}
+
+
} // end namespace astra
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