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-rw-r--r--python/COPYING674
l---------python/LICENSE1
-rw-r--r--python/astra/ASTRAProjector.py138
-rw-r--r--python/astra/PyAlgorithmFactory.pxd36
-rw-r--r--python/astra/PyAlgorithmManager.pxd40
-rw-r--r--python/astra/PyData2DManager.pxd39
-rw-r--r--python/astra/PyData3DManager.pxd39
-rw-r--r--python/astra/PyIncludes.pxd215
-rw-r--r--python/astra/PyMatrixManager.pxd39
-rw-r--r--python/astra/PyProjector2DFactory.pxd35
-rw-r--r--python/astra/PyProjector2DManager.pxd39
-rw-r--r--python/astra/PyXMLDocument.pxd65
-rw-r--r--python/astra/__init__.py42
-rw-r--r--python/astra/algorithm.py76
-rw-r--r--python/astra/algorithm_c.pyx106
-rw-r--r--python/astra/astra.py58
-rw-r--r--python/astra/astra_c.pyx79
-rw-r--r--python/astra/creators.py563
-rw-r--r--python/astra/data2d.py120
-rw-r--r--python/astra/data2d_c.pyx241
-rw-r--r--python/astra/data3d.py108
-rw-r--r--python/astra/data3d_c.pyx188
-rw-r--r--python/astra/extrautils.pyx43
-rw-r--r--python/astra/functions.py270
-rw-r--r--python/astra/matlab.py112
-rw-r--r--python/astra/matrix.py86
-rw-r--r--python/astra/matrix_c.pyx116
-rw-r--r--python/astra/projector.py100
-rw-r--r--python/astra/projector_c.pyx119
-rw-r--r--python/astra/utils.pxd37
-rw-r--r--python/astra/utils.pyx260
-rw-r--r--python/builder.py70
l---------python/doc1
-rw-r--r--python/docSRC/ASTRAProjector.rst8
-rw-r--r--python/docSRC/Makefile153
-rw-r--r--python/docSRC/_build/doctrees/ASTRAProjector.doctreebin0 -> 40455 bytes
-rw-r--r--python/docSRC/_build/doctrees/algorithm.doctreebin0 -> 26360 bytes
-rw-r--r--python/docSRC/_build/doctrees/astra.doctreebin0 -> 18750 bytes
-rw-r--r--python/docSRC/_build/doctrees/creators.doctreebin0 -> 147449 bytes
-rw-r--r--python/docSRC/_build/doctrees/data2d.doctreebin0 -> 48456 bytes
-rw-r--r--python/docSRC/_build/doctrees/data3d.doctreebin0 -> 43583 bytes
-rw-r--r--python/docSRC/_build/doctrees/environment.picklebin0 -> 2590052 bytes
-rw-r--r--python/docSRC/_build/doctrees/functions.doctreebin0 -> 35085 bytes
-rw-r--r--python/docSRC/_build/doctrees/index.doctreebin0 -> 7240 bytes
-rw-r--r--python/docSRC/_build/doctrees/matlab.doctreebin0 -> 28503 bytes
-rw-r--r--python/docSRC/_build/doctrees/matrix.doctreebin0 -> 30783 bytes
-rw-r--r--python/docSRC/_build/doctrees/projector.doctreebin0 -> 36968 bytes
-rw-r--r--python/docSRC/_build/html/.buildinfo4
-rw-r--r--python/docSRC/_build/html/ASTRAProjector.html235
-rw-r--r--python/docSRC/_build/html/_modules/astra/ASTRAProjector.html243
-rw-r--r--python/docSRC/_build/html/_modules/astra/algorithm.html181
-rw-r--r--python/docSRC/_build/html/_modules/astra/astra.html163
-rw-r--r--python/docSRC/_build/html/_modules/astra/creators.html668
-rw-r--r--python/docSRC/_build/html/_modules/astra/data2d.html225
-rw-r--r--python/docSRC/_build/html/_modules/astra/data3d.html213
-rw-r--r--python/docSRC/_build/html/_modules/astra/functions.html375
-rw-r--r--python/docSRC/_build/html/_modules/astra/matlab.html217
-rw-r--r--python/docSRC/_build/html/_modules/astra/matrix.html191
-rw-r--r--python/docSRC/_build/html/_modules/astra/projector.html205
-rw-r--r--python/docSRC/_build/html/_modules/index.html112
-rw-r--r--python/docSRC/_build/html/_sources/ASTRAProjector.txt8
-rw-r--r--python/docSRC/_build/html/_sources/algorithm.txt8
-rw-r--r--python/docSRC/_build/html/_sources/astra.txt8
-rw-r--r--python/docSRC/_build/html/_sources/creators.txt8
-rw-r--r--python/docSRC/_build/html/_sources/data2d.txt8
-rw-r--r--python/docSRC/_build/html/_sources/data3d.txt8
-rw-r--r--python/docSRC/_build/html/_sources/functions.txt8
-rw-r--r--python/docSRC/_build/html/_sources/index.txt34
-rw-r--r--python/docSRC/_build/html/_sources/matlab.txt8
-rw-r--r--python/docSRC/_build/html/_sources/matrix.txt8
-rw-r--r--python/docSRC/_build/html/_sources/projector.txt8
-rw-r--r--python/docSRC/_build/html/_static/ajax-loader.gifbin0 -> 673 bytes
-rw-r--r--python/docSRC/_build/html/_static/basic.css537
-rw-r--r--python/docSRC/_build/html/_static/comment-bright.pngbin0 -> 3500 bytes
-rw-r--r--python/docSRC/_build/html/_static/comment-close.pngbin0 -> 3578 bytes
-rw-r--r--python/docSRC/_build/html/_static/comment.pngbin0 -> 3445 bytes
-rw-r--r--python/docSRC/_build/html/_static/default.css256
-rw-r--r--python/docSRC/_build/html/_static/doctools.js238
-rw-r--r--python/docSRC/_build/html/_static/down-pressed.pngbin0 -> 368 bytes
-rw-r--r--python/docSRC/_build/html/_static/down.pngbin0 -> 363 bytes
-rw-r--r--python/docSRC/_build/html/_static/file.pngbin0 -> 392 bytes
-rw-r--r--python/docSRC/_build/html/_static/jquery.js2
-rw-r--r--python/docSRC/_build/html/_static/minus.pngbin0 -> 199 bytes
-rw-r--r--python/docSRC/_build/html/_static/plus.pngbin0 -> 199 bytes
-rw-r--r--python/docSRC/_build/html/_static/pygments.css63
-rw-r--r--python/docSRC/_build/html/_static/searchtools.js622
-rw-r--r--python/docSRC/_build/html/_static/sidebar.js159
-rw-r--r--python/docSRC/_build/html/_static/underscore.js31
-rw-r--r--python/docSRC/_build/html/_static/up-pressed.pngbin0 -> 372 bytes
-rw-r--r--python/docSRC/_build/html/_static/up.pngbin0 -> 363 bytes
-rw-r--r--python/docSRC/_build/html/_static/websupport.js808
-rw-r--r--python/docSRC/_build/html/algorithm.html205
-rw-r--r--python/docSRC/_build/html/astra.html169
-rw-r--r--python/docSRC/_build/html/creators.html520
-rw-r--r--python/docSRC/_build/html/data2d.html277
-rw-r--r--python/docSRC/_build/html/data3d.html259
-rw-r--r--python/docSRC/_build/html/functions.html236
-rw-r--r--python/docSRC/_build/html/genindex.html575
-rw-r--r--python/docSRC/_build/html/index.html148
-rw-r--r--python/docSRC/_build/html/matlab.html184
-rw-r--r--python/docSRC/_build/html/matrix.html221
-rw-r--r--python/docSRC/_build/html/objects.invbin0 -> 928 bytes
-rw-r--r--python/docSRC/_build/html/projector.html234
-rw-r--r--python/docSRC/_build/html/py-modindex.html172
-rw-r--r--python/docSRC/_build/html/search.html118
-rw-r--r--python/docSRC/_build/html/searchindex.js1
-rw-r--r--python/docSRC/_templates/layout.html15
-rw-r--r--python/docSRC/algorithm.rst8
-rw-r--r--python/docSRC/astra.rst8
-rw-r--r--python/docSRC/conf.py287
-rw-r--r--python/docSRC/creators.rst8
-rw-r--r--python/docSRC/data2d.rst8
-rw-r--r--python/docSRC/data3d.rst8
-rw-r--r--python/docSRC/functions.rst8
-rw-r--r--python/docSRC/index.rst34
-rw-r--r--python/docSRC/make.bat190
-rw-r--r--python/docSRC/matlab.rst8
-rw-r--r--python/docSRC/matrix.rst8
-rw-r--r--python/docSRC/projector.rst8
119 files changed, 14095 insertions, 0 deletions
diff --git a/python/COPYING b/python/COPYING
new file mode 100644
index 0000000..94a9ed0
--- /dev/null
+++ b/python/COPYING
@@ -0,0 +1,674 @@
+ GNU GENERAL PUBLIC LICENSE
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+ 8. Termination.
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+ You may not propagate or modify a covered work except as expressly
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+this License (including any patent licenses granted under the third
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+provisionally, unless and until the copyright holder explicitly and
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+reinstated, you do not qualify to receive new licenses for the same
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+
+ 9. Acceptance Not Required for Having Copies.
+
+ You are not required to accept this License in order to receive or
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+any patent claim is infringed by making, using, selling, offering for
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+ 11. Patents.
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+ A patent license is "discriminatory" if it does not include within
+the scope of its coverage, prohibits the exercise of, or is
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+or that patent license was granted, prior to 28 March 2007.
+
+ Nothing in this License shall be construed as excluding or limiting
+any implied license or other defenses to infringement that may
+otherwise be available to you under applicable patent law.
+
+ 12. No Surrender of Others' Freedom.
+
+ If conditions are imposed on you (whether by court order, agreement or
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+the Program, the only way you could satisfy both those terms and this
+License would be to refrain entirely from conveying the Program.
+
+ 13. Use with the GNU Affero General Public License.
+
+ Notwithstanding any other provision of this License, you have
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+
+ 14. Revised Versions of this License.
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+address new problems or concerns.
+
+ Each version is given a distinguishing version number. If the
+Program specifies that a certain numbered version of the GNU General
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+option of following the terms and conditions either of that numbered
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+Foundation. If the Program does not specify a version number of the
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+
+ If the Program specifies that a proxy can decide which future
+versions of the GNU General Public License can be used, that proxy's
+public statement of acceptance of a version permanently authorizes you
+to choose that version for the Program.
+
+ Later license versions may give you additional or different
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+
+ 15. Disclaimer of Warranty.
+
+ THERE IS NO WARRANTY FOR THE PROGRAM, TO THE EXTENT PERMITTED BY
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+HOLDERS AND/OR OTHER PARTIES PROVIDE THE PROGRAM "AS IS" WITHOUT WARRANTY
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+ 16. Limitation of Liability.
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+THE PROGRAM AS PERMITTED ABOVE, BE LIABLE TO YOU FOR DAMAGES, INCLUDING ANY
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+SUCH DAMAGES.
+
+ 17. Interpretation of Sections 15 and 16.
+
+ If the disclaimer of warranty and limitation of liability provided
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+reviewing courts shall apply local law that most closely approximates
+an absolute waiver of all civil liability in connection with the
+Program, unless a warranty or assumption of liability accompanies a
+copy of the Program in return for a fee.
+
+ END OF TERMS AND CONDITIONS
+
+ How to Apply These Terms to Your New Programs
+
+ If you develop a new program, and you want it to be of the greatest
+possible use to the public, the best way to achieve this is to make it
+free software which everyone can redistribute and change under these terms.
+
+ To do so, attach the following notices to the program. It is safest
+to attach them to the start of each source file to most effectively
+state the exclusion of warranty; and each file should have at least
+the "copyright" line and a pointer to where the full notice is found.
+
+ <one line to give the program's name and a brief idea of what it does.>
+ Copyright (C) <year> <name of author>
+
+ This program is free software: you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation, either version 3 of the License, or
+ (at your option) any later version.
+
+ This program is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+
+ You should have received a copy of the GNU General Public License
+ along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+Also add information on how to contact you by electronic and paper mail.
+
+ If the program does terminal interaction, make it output a short
+notice like this when it starts in an interactive mode:
+
+ <program> Copyright (C) <year> <name of author>
+ This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
+ This is free software, and you are welcome to redistribute it
+ under certain conditions; type `show c' for details.
+
+The hypothetical commands `show w' and `show c' should show the appropriate
+parts of the General Public License. Of course, your program's commands
+might be different; for a GUI interface, you would use an "about box".
+
+ You should also get your employer (if you work as a programmer) or school,
+if any, to sign a "copyright disclaimer" for the program, if necessary.
+For more information on this, and how to apply and follow the GNU GPL, see
+<http://www.gnu.org/licenses/>.
+
+ The GNU General Public License does not permit incorporating your program
+into proprietary programs. If your program is a subroutine library, you
+may consider it more useful to permit linking proprietary applications with
+the library. If this is what you want to do, use the GNU Lesser General
+Public License instead of this License. But first, please read
+<http://www.gnu.org/philosophy/why-not-lgpl.html>.
diff --git a/python/LICENSE b/python/LICENSE
new file mode 120000
index 0000000..d24842f
--- /dev/null
+++ b/python/LICENSE
@@ -0,0 +1 @@
+COPYING \ No newline at end of file
diff --git a/python/astra/ASTRAProjector.py b/python/astra/ASTRAProjector.py
new file mode 100644
index 0000000..96acb10
--- /dev/null
+++ b/python/astra/ASTRAProjector.py
@@ -0,0 +1,138 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+
+import math
+from . import creators as ac
+from . import data2d
+
+
+class ASTRAProjector2DTranspose():
+ """Implements the ``proj.T`` functionality.
+
+ Do not use directly, since it can be accessed as member ``.T`` of
+ an :class:`ASTRAProjector2D` object.
+
+ """
+ def __init__(self, parentProj):
+ self.parentProj = parentProj
+
+ def __mul__(self, data):
+ return self.parentProj.backProject(data)
+
+
+class ASTRAProjector2D(object):
+ """Helps with various common ASTRA Toolbox 2D operations.
+
+ This class can perform several often used toolbox operations, such as:
+
+ * Forward projecting
+ * Back projecting
+ * Reconstructing
+
+ Note that this class has a some computational overhead, because it
+ copies a lot of data. If you use many repeated operations, directly
+ using the PyAstraToolbox methods directly is faster.
+
+ You can use this class as an abstracted weight matrix :math:`W`: multiplying an instance
+ ``proj`` of this class by an image results in a forward projection of the image, and multiplying
+ ``proj.T`` by a sinogram results in a backprojection of the sinogram::
+
+ proj = ASTRAProjector2D(...)
+ fp = proj*image
+ bp = proj.T*sinogram
+
+ :param proj_geom: The projection geometry.
+ :type proj_geom: :class:`dict`
+ :param vol_geom: The volume geometry.
+ :type vol_geom: :class:`dict`
+ :param proj_type: Projector type, such as ``'line'``, ``'linear'``, ...
+ :type proj_type: :class:`string`
+ :param useCUDA: If ``True``, use CUDA for calculations, when possible.
+ :type useCUDA: :class:`bool`
+ """
+
+ def __init__(self, proj_geom, vol_geom, proj_type, useCUDA=False):
+ self.vol_geom = vol_geom
+ self.recSize = vol_geom['GridColCount']
+ self.angles = proj_geom['ProjectionAngles']
+ self.nDet = proj_geom['DetectorCount']
+ nexpow = int(pow(2, math.ceil(math.log(2 * self.nDet, 2))))
+ self.filterSize = nexpow / 2 + 1
+ self.nProj = self.angles.shape[0]
+ self.proj_geom = proj_geom
+ self.proj_id = ac.create_projector(proj_type, proj_geom, vol_geom)
+ self.useCUDA = useCUDA
+ self.T = ASTRAProjector2DTranspose(self)
+
+ def backProject(self, data):
+ """Backproject a sinogram.
+
+ :param data: The sinogram data or ID.
+ :type data: :class:`numpy.ndarray` or :class:`int`
+ :returns: :class:`numpy.ndarray` -- The backprojection.
+
+ """
+ vol_id, vol = ac.create_backprojection(
+ data, self.proj_id, useCUDA=self.useCUDA, returnData=True)
+ data2d.delete(vol_id)
+ return vol
+
+ def forwardProject(self, data):
+ """Forward project an image.
+
+ :param data: The image data or ID.
+ :type data: :class:`numpy.ndarray` or :class:`int`
+ :returns: :class:`numpy.ndarray` -- The forward projection.
+
+ """
+ sin_id, sino = ac.create_sino(data, self.proj_id, useCUDA=self.useCUDA, returnData=True)
+ data2d.delete(sin_id)
+ return sino
+
+ def reconstruct(self, data, method, **kwargs):
+ """Reconstruct an image from a sinogram.
+
+ :param data: The sinogram data or ID.
+ :type data: :class:`numpy.ndarray` or :class:`int`
+ :param method: Name of the reconstruction algorithm.
+ :type method: :class:`string`
+ :param kwargs: Additional named parameters to pass to :func:`astra.creators.create_reconstruction`.
+ :returns: :class:`numpy.ndarray` -- The reconstruction.
+
+ Example of a SIRT reconstruction using CUDA::
+
+ proj = ASTRAProjector2D(...)
+ rec = proj.reconstruct(sinogram,'SIRT_CUDA',iterations=1000)
+
+ """
+ kwargs['returnData'] = True
+ rec_id, rec = ac.create_reconstruction(
+ method, self.proj_id, data, **kwargs)
+ data2d.delete(rec_id)
+ return rec
+
+ def __mul__(self, data):
+ return self.forwardProject(data)
diff --git a/python/astra/PyAlgorithmFactory.pxd b/python/astra/PyAlgorithmFactory.pxd
new file mode 100644
index 0000000..256d7b2
--- /dev/null
+++ b/python/astra/PyAlgorithmFactory.pxd
@@ -0,0 +1,36 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp.string cimport string
+from libcpp cimport bool
+from .PyIncludes cimport *
+
+cdef extern from "astra/AstraObjectFactory.h" namespace "astra":
+ cdef cppclass CAlgorithmFactory:
+ CAlgorithmFactory()
+ CAlgorithm *create(string)
+
+cdef extern from "astra/AstraObjectFactory.h" namespace "astra::CAlgorithmFactory":
+ cdef CAlgorithmFactory* getSingletonPtr()
diff --git a/python/astra/PyAlgorithmManager.pxd b/python/astra/PyAlgorithmManager.pxd
new file mode 100644
index 0000000..a99a807
--- /dev/null
+++ b/python/astra/PyAlgorithmManager.pxd
@@ -0,0 +1,40 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp.string cimport string
+from libcpp cimport bool
+from .PyIncludes cimport *
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra":
+ cdef cppclass CAlgorithmManager:
+ int store(CAlgorithm *)
+ CAlgorithm * get(int)
+ void remove(int)
+ void clear()
+ string info()
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra::CAlgorithmManager":
+ cdef CAlgorithmManager* getSingletonPtr()
+
diff --git a/python/astra/PyData2DManager.pxd b/python/astra/PyData2DManager.pxd
new file mode 100644
index 0000000..db8ec84
--- /dev/null
+++ b/python/astra/PyData2DManager.pxd
@@ -0,0 +1,39 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp.string cimport string
+
+from .PyIncludes cimport *
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra":
+ cdef cppclass CData2DManager:
+ string info()
+ void clear()
+ void remove(int i)
+ int store(CFloat32Data2D *)
+ CFloat32Data2D * get(int i)
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra::CData2DManager":
+ cdef CData2DManager* getSingletonPtr()
diff --git a/python/astra/PyData3DManager.pxd b/python/astra/PyData3DManager.pxd
new file mode 100644
index 0000000..9264a82
--- /dev/null
+++ b/python/astra/PyData3DManager.pxd
@@ -0,0 +1,39 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp.string cimport string
+
+from .PyIncludes cimport *
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra":
+ cdef cppclass CData3DManager:
+ string info()
+ void clear()
+ void remove(int i)
+ int store(CFloat32Data3D *)
+ CFloat32Data3D * get(int i)
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra::CData3DManager":
+ cdef CData3DManager* getSingletonPtr()
diff --git a/python/astra/PyIncludes.pxd b/python/astra/PyIncludes.pxd
new file mode 100644
index 0000000..fc5980f
--- /dev/null
+++ b/python/astra/PyIncludes.pxd
@@ -0,0 +1,215 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp cimport bool
+from libcpp.string cimport string
+from .PyXMLDocument cimport XMLNode
+
+cdef extern from "astra/Globals.h" namespace "astra":
+ ctypedef float float32
+ ctypedef double float64
+ ctypedef unsigned short int uint16
+ ctypedef signed short int sint16
+ ctypedef unsigned char uchar8
+ ctypedef signed char schar8
+ ctypedef int int32
+ ctypedef short int int16
+
+cdef extern from "astra/Config.h" namespace "astra":
+ cdef cppclass Config:
+ Config()
+ XMLNode *self
+
+cdef extern from "astra/VolumeGeometry2D.h" namespace "astra":
+ cdef cppclass CVolumeGeometry2D:
+ bool initialize(Config)
+ int getGridColCount()
+ int getGridRowCount()
+ int getGridTotCount()
+ float32 getWindowLengthX()
+ float32 getWindowLengthY()
+ float32 getWindowArea()
+ float32 getPixelLengthX()
+ float32 getPixelLengthY()
+ float32 getPixelArea()
+ float32 getWindowMinX()
+ float32 getWindowMinY()
+ float32 getWindowMaxX()
+ float32 getWindowMaxY()
+
+
+cdef extern from "astra/Float32VolumeData2D.h" namespace "astra":
+ cdef cppclass CFloat32VolumeData2D:
+ CFloat32VolumeData2D(CVolumeGeometry2D*)
+ CVolumeGeometry2D * getGeometry()
+ int getWidth()
+ int getHeight()
+ void changeGeometry(CVolumeGeometry2D*)
+
+
+
+cdef extern from "astra/ProjectionGeometry2D.h" namespace "astra":
+ cdef cppclass CProjectionGeometry2D:
+ CProjectionGeometry2D()
+ bool initialize(Config)
+ int getDetectorCount()
+ int getProjectionAngleCount()
+ bool isOfType(string)
+ float32 getProjectionAngle(int)
+ float32 getDetectorWidth()
+
+cdef extern from "astra/Float32Data2D.h" namespace "astra::CFloat32Data2D":
+ cdef enum EDataType:
+ BASE,PROJECTION,VOLUME
+
+cdef extern from "astra/Float32Data2D.h" namespace "astra":
+ cdef cppclass CFloat32Data2D:
+ bool isInitialized()
+ int getSize()
+ float32 *getData()
+ float32 **getData2D()
+ int getWidth()
+ int getHeight()
+ EDataType getType()
+
+
+
+
+cdef extern from "astra/SparseMatrixProjectionGeometry2D.h" namespace "astra":
+ cdef cppclass CSparseMatrixProjectionGeometry2D:
+ CSparseMatrixProjectionGeometry2D()
+
+cdef extern from "astra/FanFlatProjectionGeometry2D.h" namespace "astra":
+ cdef cppclass CFanFlatProjectionGeometry2D:
+ CFanFlatProjectionGeometry2D()
+
+cdef extern from "astra/FanFlatVecProjectionGeometry2D.h" namespace "astra":
+ cdef cppclass CFanFlatVecProjectionGeometry2D:
+ CFanFlatVecProjectionGeometry2D()
+
+cdef extern from "astra/ParallelProjectionGeometry2D.h" namespace "astra":
+ cdef cppclass CParallelProjectionGeometry2D:
+ CParallelProjectionGeometry2D()
+
+
+cdef extern from "astra/Float32ProjectionData2D.h" namespace "astra":
+ cdef cppclass CFloat32ProjectionData2D:
+ CFloat32ProjectionData2D(CProjectionGeometry2D*)
+ CProjectionGeometry2D * getGeometry()
+ void changeGeometry(CProjectionGeometry2D*)
+ int getDetectorCount()
+ int getAngleCount()
+
+cdef extern from "astra/Algorithm.h" namespace "astra":
+ cdef cppclass CAlgorithm:
+ bool initialize(Config)
+ void run(int)
+ bool isInitialized()
+
+cdef extern from "astra/ReconstructionAlgorithm2D.h" namespace "astra":
+ cdef cppclass CReconstructionAlgorithm2D:
+ bool getResidualNorm(float32&)
+
+cdef extern from "astra/Projector2D.h" namespace "astra":
+ cdef cppclass CProjector2D:
+ bool isInitialized()
+ CProjectionGeometry2D* getProjectionGeometry()
+ CVolumeGeometry2D* getVolumeGeometry()
+ CSparseMatrix* getMatrix()
+
+cdef extern from "astra/SparseMatrix.h" namespace "astra":
+ cdef cppclass CSparseMatrix:
+ CSparseMatrix(unsigned int,unsigned int,unsigned long)
+ unsigned int m_iWidth
+ unsigned int m_iHeight
+ unsigned long m_lSize
+ bool isInitialized()
+ float32* m_pfValues
+ unsigned int* m_piColIndices
+ unsigned long* m_plRowStarts
+
+cdef extern from "astra/Float32Data3DMemory.h" namespace "astra":
+ cdef cppclass CFloat32Data3DMemory:
+ CFloat32Data3DMemory()
+ bool isInitialized()
+ int getSize()
+ int getWidth()
+ int getHeight()
+ int getDepth()
+ void updateStatistics()
+ float32 *getData()
+ float32 ***getData3D()
+
+
+cdef extern from "astra/VolumeGeometry3D.h" namespace "astra":
+ cdef cppclass CVolumeGeometry3D:
+ CVolumeGeometry3D()
+ bool initialize(Config)
+
+cdef extern from "astra/ProjectionGeometry3D.h" namespace "astra":
+ cdef cppclass CProjectionGeometry3D:
+ CProjectionGeometry3D()
+ bool initialize(Config)
+
+
+cdef extern from "astra/Float32VolumeData3DMemory.h" namespace "astra":
+ cdef cppclass CFloat32VolumeData3DMemory:
+ CFloat32VolumeData3DMemory(CVolumeGeometry3D*)
+
+
+cdef extern from "astra/ParallelProjectionGeometry3D.h" namespace "astra":
+ cdef cppclass CParallelProjectionGeometry3D:
+ CParallelProjectionGeometry3D()
+
+cdef extern from "astra/ParallelVecProjectionGeometry3D.h" namespace "astra":
+ cdef cppclass CParallelVecProjectionGeometry3D:
+ CParallelVecProjectionGeometry3D()
+
+cdef extern from "astra/ConeProjectionGeometry3D.h" namespace "astra":
+ cdef cppclass CConeProjectionGeometry3D:
+ CConeProjectionGeometry3D()
+ bool initialize(Config)
+
+cdef extern from "astra/ConeVecProjectionGeometry3D.h" namespace "astra":
+ cdef cppclass CConeVecProjectionGeometry3D:
+ CConeVecProjectionGeometry3D()
+
+cdef extern from "astra/Float32ProjectionData3DMemory.h" namespace "astra":
+ cdef cppclass CFloat32ProjectionData3DMemory:
+ CFloat32ProjectionData3DMemory(CProjectionGeometry3D*)
+ CFloat32ProjectionData3DMemory(CConeProjectionGeometry3D*)
+
+cdef extern from "astra/Float32Data3D.h" namespace "astra":
+ cdef cppclass CFloat32Data3D:
+ CFloat32Data3D()
+ bool isInitialized()
+ int getSize()
+ int getWidth()
+ int getHeight()
+ int getDepth()
+ void updateStatistics()
+
+
+
diff --git a/python/astra/PyMatrixManager.pxd b/python/astra/PyMatrixManager.pxd
new file mode 100644
index 0000000..b2b84c4
--- /dev/null
+++ b/python/astra/PyMatrixManager.pxd
@@ -0,0 +1,39 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp.string cimport string
+
+from .PyIncludes cimport *
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra":
+ cdef cppclass CMatrixManager:
+ string info()
+ void clear()
+ void remove(int i)
+ int store(CSparseMatrix *)
+ CSparseMatrix * get(int i)
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra::CMatrixManager":
+ cdef CMatrixManager* getSingletonPtr()
diff --git a/python/astra/PyProjector2DFactory.pxd b/python/astra/PyProjector2DFactory.pxd
new file mode 100644
index 0000000..3314544
--- /dev/null
+++ b/python/astra/PyProjector2DFactory.pxd
@@ -0,0 +1,35 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp.string cimport string
+from libcpp cimport bool
+from .PyIncludes cimport *
+
+cdef extern from "astra/AstraObjectFactory.h" namespace "astra":
+ cdef cppclass CProjector2DFactory:
+ CProjector2D *create(Config)
+
+cdef extern from "astra/AstraObjectFactory.h" namespace "astra::CProjector2DFactory":
+ cdef CProjector2DFactory* getSingletonPtr()
diff --git a/python/astra/PyProjector2DManager.pxd b/python/astra/PyProjector2DManager.pxd
new file mode 100644
index 0000000..92176ba
--- /dev/null
+++ b/python/astra/PyProjector2DManager.pxd
@@ -0,0 +1,39 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp.string cimport string
+
+from .PyIncludes cimport *
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra":
+ cdef cppclass CProjector2DManager:
+ string info()
+ void clear()
+ void remove(int i)
+ int store(CProjector2D *)
+ CProjector2D * get(int i)
+
+cdef extern from "astra/AstraObjectManager.h" namespace "astra::CProjector2DManager":
+ cdef CProjector2DManager* getSingletonPtr()
diff --git a/python/astra/PyXMLDocument.pxd b/python/astra/PyXMLDocument.pxd
new file mode 100644
index 0000000..69781f1
--- /dev/null
+++ b/python/astra/PyXMLDocument.pxd
@@ -0,0 +1,65 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+# distutils: language = c++
+# distutils: libraries = astra
+
+from libcpp.string cimport string
+from libcpp cimport bool
+from libcpp.list cimport list
+from libcpp.vector cimport vector
+
+cdef extern from "astra/Globals.h" namespace "astra":
+ ctypedef float float32
+ ctypedef double float64
+ ctypedef unsigned short int uint16
+ ctypedef signed short int sint16
+ ctypedef unsigned char uchar8
+ ctypedef signed char schar8
+ ctypedef int int32
+ ctypedef short int int16
+
+cdef extern from "astra/XMLNode.h" namespace "astra":
+ cdef cppclass XMLNode:
+ string getName()
+ XMLNode *addChildNode(string name)
+ XMLNode *addChildNode(string, string)
+ void addAttribute(string, string)
+ void addAttribute(string, float32)
+ void addOption(string, string)
+ bool hasOption(string)
+ string getAttribute(string)
+ list[XMLNode *] getNodes()
+ vector[float32] getContentNumericalArray()
+ string getContent()
+ bool hasAttribute(string)
+
+cdef extern from "astra/XMLDocument.h" namespace "astra":
+ cdef cppclass XMLDocument:
+ void saveToFile(string sFilename)
+ XMLNode *getRootNode()
+
+cdef extern from "astra/XMLDocument.h" namespace "astra::XMLDocument":
+ cdef XMLDocument *createDocument(string rootname)
diff --git a/python/astra/__init__.py b/python/astra/__init__.py
new file mode 100644
index 0000000..a61aafc
--- /dev/null
+++ b/python/astra/__init__.py
@@ -0,0 +1,42 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from . import matlab as m
+from .creators import astra_dict,create_vol_geom, create_proj_geom, create_backprojection, create_sino, create_reconstruction, create_projector,create_sino3d_gpu, create_backprojection3d_gpu
+from .functions import data_op, add_noise_to_sino, clear, move_vol_geom
+from .extrautils import clipCircle
+from .ASTRAProjector import ASTRAProjector2D
+from . import data2d
+from . import astra
+from . import data3d
+from . import algorithm
+from . import projector
+from . import matrix
+
+import os
+try:
+ astra.set_gpu_index(int(os.environ['ASTRA_GPU_INDEX']))
+except KeyError:
+ pass
diff --git a/python/astra/algorithm.py b/python/astra/algorithm.py
new file mode 100644
index 0000000..46cfccc
--- /dev/null
+++ b/python/astra/algorithm.py
@@ -0,0 +1,76 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+
+from . import algorithm_c as a
+
+def create(config):
+ """Create algorithm object.
+
+ :param config: Algorithm options.
+ :type config: :class:`dict`
+ :returns: :class:`int` -- the ID of the constructed object.
+
+ """
+ return a.create(config)
+
+def run(i, iterations=1):
+ """Run an algorithm.
+
+ :param i: ID of object.
+ :type i: :class:`int`
+ :param iterations: Number of iterations to run.
+ :type iterations: :class:`int`
+
+ """
+ return a.run(i,iterations)
+
+def get_res_norm(i):
+ """Get residual norm of algorithm.
+
+ :param i: ID of object.
+ :type i: :class:`int`
+ :returns: :class:`float` -- The residual norm.
+
+ """
+
+ return a.get_res_norm(i)
+
+def delete(ids):
+ """Delete a matrix object.
+
+ :param ids: ID or list of ID's to delete.
+ :type ids: :class:`int` or :class:`list`
+
+ """
+ return a.delete(ids)
+
+def clear():
+ """Clear all matrix objects."""
+ return a.clear()
+
+def info():
+ """Print info on matrix objects in memory."""
+ return a.info()
diff --git a/python/astra/algorithm_c.pyx b/python/astra/algorithm_c.pyx
new file mode 100644
index 0000000..0c2999c
--- /dev/null
+++ b/python/astra/algorithm_c.pyx
@@ -0,0 +1,106 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+
+# distutils: language = c++
+# distutils: libraries = astra
+
+import six
+from .PyIncludes cimport *
+
+cimport PyAlgorithmManager
+from .PyAlgorithmManager cimport CAlgorithmManager
+
+cimport PyAlgorithmFactory
+from .PyAlgorithmFactory cimport CAlgorithmFactory
+
+cimport PyXMLDocument
+from .PyXMLDocument cimport XMLDocument
+
+cimport utils
+from .utils import wrap_from_bytes
+
+cdef CAlgorithmManager * manAlg = <CAlgorithmManager * >PyAlgorithmManager.getSingletonPtr()
+
+cdef extern from *:
+ CReconstructionAlgorithm2D * dynamic_cast_recAlg "dynamic_cast<CReconstructionAlgorithm2D*>" (CAlgorithm * ) except NULL
+
+
+def create(config):
+ cdef XMLDocument * xml = utils.dict2XML(six.b('Algorithm'), config)
+ cdef Config cfg
+ cdef CAlgorithm * alg
+ cfg.self = xml.getRootNode()
+ alg = PyAlgorithmFactory.getSingletonPtr().create(cfg.self.getAttribute(six.b('type')))
+ if alg == NULL:
+ del xml
+ raise Exception("Unknown algorithm.")
+ if not alg.initialize(cfg):
+ del xml
+ del alg
+ raise Exception("Algorithm not initialized.")
+ del xml
+ return manAlg.store(alg)
+
+cdef CAlgorithm * getAlg(i) except NULL:
+ cdef CAlgorithm * alg = manAlg.get(i)
+ if alg == NULL:
+ raise Exception("Unknown algorithm.")
+ if not alg.isInitialized():
+ raise Exception("Algorithm not initialized.")
+ return alg
+
+
+def run(i, iterations=0):
+ cdef CAlgorithm * alg = getAlg(i)
+ alg.run(iterations)
+
+
+def get_res_norm(i):
+ cdef CReconstructionAlgorithm2D * pAlg2D
+ cdef CAlgorithm * alg = getAlg(i)
+ cdef float32 res = 0.0
+ pAlg2D = dynamic_cast_recAlg(alg)
+ if pAlg2D == NULL:
+ raise Exception("Operation not supported.")
+ if not pAlg2D.getResidualNorm(res):
+ raise Exception("Operation not supported.")
+ return res
+
+
+def delete(ids):
+ try:
+ for i in ids:
+ manAlg.remove(i)
+ except TypeError:
+ manAlg.remove(ids)
+
+
+def clear():
+ manAlg.clear()
+
+
+def info():
+ six.print_(wrap_from_bytes(manAlg.info()))
diff --git a/python/astra/astra.py b/python/astra/astra.py
new file mode 100644
index 0000000..26b1ff0
--- /dev/null
+++ b/python/astra/astra.py
@@ -0,0 +1,58 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+
+from . import astra_c as a
+
+def credits():
+ """Print credits of the ASTRA Toolbox."""
+ return a.credits()
+
+
+def use_cuda():
+ """Test if CUDA is enabled.
+
+ :returns: :class:`bool` -- ``True`` if CUDA is enabled.
+ """
+ return a.use_cuda()
+
+
+def version(printToScreen=False):
+ """Check version of the ASTRA Toolbox.
+
+ :param printToScreen: If ``True``, print version string. If ``False``, return version integer.
+ :type printToScreen: :class:`bool`
+ :returns: :class:`string` or :class:`int` -- The version string or integer.
+
+ """
+ return a.version(printToScreen)
+
+def set_gpu_index(idx):
+ """Set default GPU index to use.
+
+ :param idx: GPU index
+ :type idx: :class:`int`
+ """
+ a.set_gpu_index(idx)
diff --git a/python/astra/astra_c.pyx b/python/astra/astra_c.pyx
new file mode 100644
index 0000000..342a214
--- /dev/null
+++ b/python/astra/astra_c.pyx
@@ -0,0 +1,79 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+# distutils: language = c++
+# distutils: libraries = astra
+
+include "config.pxi"
+import six
+from .utils import wrap_from_bytes
+
+from libcpp.string cimport string
+from libcpp cimport bool
+cdef extern from "astra/Globals.h" namespace "astra":
+ int getVersion()
+ string getVersionString()
+ bool cudaEnabled()
+
+IF HAVE_CUDA==True:
+ cdef extern from "../cuda/2d/darthelper.h" namespace "astraCUDA":
+ bool setGPUIndex(int)
+ELSE:
+ def setGPUIndex():
+ pass
+
+def credits():
+ six.print_("""
+All Scale Tomographic Reconstruction Antwerp Toolbox (ASTRA-Toolbox)
+was developed at the University of Antwerp by
+ * Prof. dr. Joost Batenburg
+ * Andrei Dabravolski
+ * Gert Merckx
+ * Willem Jan Palenstijn
+ * Tom Roelandts
+ * Prof. dr. Jan Sijbers
+ * dr. Wim van Aarle
+ * Sander van der Maar
+ * dr. Gert Van Gompel
+
+Python interface written by
+ * Daniel M. Pelt (CWI, Amsterdam)""")
+
+
+def use_cuda():
+ return cudaEnabled()
+
+
+def version(printToScreen=False):
+ if printToScreen:
+ six.print_(wrap_from_bytes(getVersionString()))
+ else:
+ return getVersion()
+
+def set_gpu_index(idx):
+ if use_cuda()==True:
+ ret = setGPUIndex(idx)
+ if not ret:
+ six.print_("Failed to set GPU " + str(idx))
diff --git a/python/astra/creators.py b/python/astra/creators.py
new file mode 100644
index 0000000..9aba464
--- /dev/null
+++ b/python/astra/creators.py
@@ -0,0 +1,563 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+
+import six
+import numpy as np
+import math
+from . import data2d
+from . import data3d
+from . import projector
+from . import algorithm
+
+def astra_dict(intype):
+ """Creates a dict to use with the ASTRA Toolbox.
+
+ :param intype: Type of the ASTRA object.
+ :type intype: :class:`string`
+ :returns: :class:`dict` -- An ASTRA dict of type ``intype``.
+
+ """
+ if intype == 'SIRT_CUDA2':
+ intype = 'SIRT_CUDA'
+ six.print_('SIRT_CUDA2 has been deprecated. Use SIRT_CUDA instead.')
+ elif intype == 'FP_CUDA2':
+ intype = 'FP_CUDA'
+ six.print_('FP_CUDA2 has been deprecated. Use FP_CUDA instead.')
+ return {'type': intype}
+
+def create_vol_geom(*varargin):
+ """Create a volume geometry structure.
+
+This method can be called in a number of ways:
+
+``create_vol_geom(N)``:
+ :returns: A 2D volume geometry of size :math:`N \\times N`.
+
+``create_vol_geom((M, N))``:
+ :returns: A 2D volume geometry of size :math:`M \\times N`.
+
+``create_vol_geom(M, N)``:
+ :returns: A 2D volume geometry of size :math:`M \\times N`.
+
+``create_vol_geom(M, N, minx, maxx, miny, maxy)``:
+ :returns: A 2D volume geometry of size :math:`M \\times N`, windowed as :math:`minx \\leq x \\leq maxx` and :math:`miny \\leq y \\leq maxy`.
+
+``create_vol_geom((M, N, Z))``:
+ :returns: A 3D volume geometry of size :math:`M \\times N \\times Z`.
+
+``create_vol_geom(M, N, Z)``:
+ :returns: A 3D volume geometry of size :math:`M \\times N \\times Z`.
+
+"""
+ vol_geom = {'option': {}}
+ # astra_create_vol_geom(row_count)
+ if len(varargin) == 1 and isinstance(varargin[0], int) == 1:
+ vol_geom['GridRowCount'] = varargin[0]
+ vol_geom['GridColCount'] = varargin[0]
+ vol_geom['option']['WindowMinX'] = -varargin[0] / 2.
+ vol_geom['option']['WindowMaxX'] = varargin[0] / 2.
+ vol_geom['option']['WindowMinY'] = -varargin[0] / 2.
+ vol_geom['option']['WindowMaxY'] = varargin[0] / 2.
+ # astra_create_vol_geom([row_count col_count])
+ elif len(varargin) == 1 and len(varargin[0]) == 2:
+ vol_geom['GridRowCount'] = varargin[0][0]
+ vol_geom['GridColCount'] = varargin[0][1]
+ vol_geom['option']['WindowMinX'] = -varargin[0][1] / 2.
+ vol_geom['option']['WindowMaxX'] = varargin[0][1] / 2.
+ vol_geom['option']['WindowMinY'] = -varargin[0][0] / 2.
+ vol_geom['option']['WindowMaxY'] = varargin[0][0] / 2.
+ # astra_create_vol_geom([row_count col_count slice_count])
+ elif len(varargin) == 1 and len(varargin[0]) == 3:
+ vol_geom['GridRowCount'] = varargin[0][0]
+ vol_geom['GridColCount'] = varargin[0][1]
+ vol_geom['GridSliceCount'] = varargin[0][2]
+ vol_geom['option']['WindowMinX'] = -varargin[0][1] / 2.
+ vol_geom['option']['WindowMaxX'] = varargin[0][1] / 2.
+ vol_geom['option']['WindowMinY'] = -varargin[0][0] / 2.
+ vol_geom['option']['WindowMaxY'] = varargin[0][0] / 2.
+ vol_geom['option']['WindowMinZ'] = -varargin[0][2] / 2.
+ vol_geom['option']['WindowMaxZ'] = varargin[0][2] / 2.
+ # astra_create_vol_geom(row_count, col_count)
+ elif len(varargin) == 2:
+ vol_geom['GridRowCount'] = varargin[0]
+ vol_geom['GridColCount'] = varargin[1]
+ vol_geom['option']['WindowMinX'] = -varargin[1] / 2.
+ vol_geom['option']['WindowMaxX'] = varargin[1] / 2.
+ vol_geom['option']['WindowMinY'] = -varargin[0] / 2.
+ vol_geom['option']['WindowMaxY'] = varargin[0] / 2.
+ # astra_create_vol_geom(row_count, col_count, min_x, max_x, min_y, max_y)
+ elif len(varargin) == 6:
+ vol_geom['GridRowCount'] = varargin[0]
+ vol_geom['GridColCount'] = varargin[1]
+ vol_geom['option']['WindowMinX'] = varargin[2]
+ vol_geom['option']['WindowMaxX'] = varargin[3]
+ vol_geom['option']['WindowMinY'] = varargin[4]
+ vol_geom['option']['WindowMaxY'] = varargin[5]
+ # astra_create_vol_geom(row_count, col_count, slice_count)
+ elif len(varargin) == 3:
+ vol_geom['GridRowCount'] = varargin[0]
+ vol_geom['GridColCount'] = varargin[1]
+ vol_geom['GridSliceCount'] = varargin[2]
+ return vol_geom
+
+
+def create_proj_geom(intype, *args):
+ """Create a projection geometry.
+
+This method can be called in a number of ways:
+
+``create_proj_geom('parallel', detector_spacing, det_count, angles)``:
+
+:param detector_spacing: Distance between two adjacent detector pixels.
+:type detector_spacing: :class:`float`
+:param det_count: Number of detector pixels.
+:type det_count: :class:`int`
+:param angles: Array of angles in radians.
+:type angles: :class:`numpy.ndarray`
+:returns: A parallel projection geometry.
+
+
+``create_proj_geom('fanflat', det_width, det_count, angles, source_origin, source_det)``:
+
+:param det_width: Size of a detector pixel.
+:type det_width: :class:`float`
+:param det_count: Number of detector pixels.
+:type det_count: :class:`int`
+:param angles: Array of angles in radians.
+:type angles: :class:`numpy.ndarray`
+:param source_origin: Position of the source.
+:param source_det: Position of the detector
+:returns: A fan-beam projection geometry.
+
+``create_proj_geom('fanflat_vec', det_count, V)``:
+
+:param det_count: Number of detector pixels.
+:type det_count: :class:`int`
+:param V: Vector array.
+:type V: :class:`numpy.ndarray`
+:returns: A fan-beam projection geometry.
+
+``create_proj_geom('parallel3d', detector_spacing_x, detector_spacing_y, det_row_count, det_col_count, angles)``:
+
+:param detector_spacing_*: Distance between two adjacent detector pixels.
+:type detector_spacing_*: :class:`float`
+:param det_row_count: Number of detector pixel rows.
+:type det_row_count: :class:`int`
+:param det_col_count: Number of detector pixel columns.
+:type det_col_count: :class:`int`
+:param angles: Array of angles in radians.
+:type angles: :class:`numpy.ndarray`
+:returns: A parallel projection geometry.
+
+``create_proj_geom('cone', detector_spacing_x, detector_spacing_y, det_row_count, det_col_count, angles, source_origin, source_det)``:
+
+:param detector_spacing_*: Distance between two adjacent detector pixels.
+:type detector_spacing_*: :class:`float`
+:param det_row_count: Number of detector pixel rows.
+:type det_row_count: :class:`int`
+:param det_col_count: Number of detector pixel columns.
+:type det_col_count: :class:`int`
+:param angles: Array of angles in radians.
+:type angles: :class:`numpy.ndarray`
+:param source_origin: Distance between point source and origin.
+:type source_origin: :class:`float`
+:param source_det: Distance between the detector and origin.
+:type source_det: :class:`float`
+:returns: A cone-beam projection geometry.
+
+``create_proj_geom('cone_vec', det_row_count, det_col_count, V)``:
+
+:param det_row_count: Number of detector pixel rows.
+:type det_row_count: :class:`int`
+:param det_col_count: Number of detector pixel columns.
+:type det_col_count: :class:`int`
+:param V: Vector array.
+:type V: :class:`numpy.ndarray`
+:returns: A cone-beam projection geometry.
+
+``create_proj_geom('parallel3d_vec', det_row_count, det_col_count, V)``:
+
+:param det_row_count: Number of detector pixel rows.
+:type det_row_count: :class:`int`
+:param det_col_count: Number of detector pixel columns.
+:type det_col_count: :class:`int`
+:param V: Vector array.
+:type V: :class:`numpy.ndarray`
+:returns: A parallel projection geometry.
+
+``create_proj_geom('sparse_matrix', det_width, det_count, angles, matrix_id)``:
+
+:param det_width: Size of a detector pixel.
+:type det_width: :class:`float`
+:param det_count: Number of detector pixels.
+:type det_count: :class:`int`
+:param angles: Array of angles in radians.
+:type angles: :class:`numpy.ndarray`
+:param matrix_id: ID of the sparse matrix.
+:type matrix_id: :class:`int`
+:returns: A projection geometry based on a sparse matrix.
+
+"""
+ if intype == 'parallel':
+ if len(args) < 3:
+ raise Exception(
+ 'not enough variables: astra_create_proj_geom(parallel, detector_spacing, det_count, angles)')
+ return {'type': 'parallel', 'DetectorWidth': args[0], 'DetectorCount': args[1], 'ProjectionAngles': args[2]}
+ elif intype == 'fanflat':
+ if len(args) < 5:
+ raise Exception('not enough variables: astra_create_proj_geom(fanflat, det_width, det_count, angles, source_origin, source_det)')
+ return {'type': 'fanflat', 'DetectorWidth': args[0], 'DetectorCount': args[1], 'ProjectionAngles': args[2], 'DistanceOriginSource': args[3], 'DistanceOriginDetector': args[4]}
+ elif intype == 'fanflat_vec':
+ if len(args) < 2:
+ raise Exception('not enough variables: astra_create_proj_geom(fanflat_vec, det_count, V)')
+ if not args[1].shape[1] == 6:
+ raise Exception('V should be a Nx6 matrix, with N the number of projections')
+ return {'type':'fanflat_vec', 'DetectorCount':args[0], 'Vectors':args[1]}
+ elif intype == 'parallel3d':
+ if len(args) < 5:
+ raise Exception('not enough variables: astra_create_proj_geom(parallel3d, detector_spacing_x, detector_spacing_y, det_row_count, det_col_count, angles)')
+ return {'type':'parallel3d', 'DetectorSpacingX':args[0], 'DetectorSpacingY':args[1], 'DetectorRowCount':args[2], 'DetectorColCount':args[3],'ProjectionAngles':args[4]}
+ elif intype == 'cone':
+ if len(args) < 7:
+ raise Exception('not enough variables: astra_create_proj_geom(cone, detector_spacing_x, detector_spacing_y, det_row_count, det_col_count, angles, source_origin, source_det)')
+ return {'type': 'cone','DetectorSpacingX':args[0], 'DetectorSpacingY':args[1], 'DetectorRowCount':args[2],'DetectorColCount':args[3],'ProjectionAngles':args[4],'DistanceOriginSource': args[5],'DistanceOriginDetector':args[6]}
+ elif intype == 'cone_vec':
+ if len(args) < 3:
+ raise Exception('not enough variables: astra_create_proj_geom(cone_vec, det_row_count, det_col_count, V)')
+ if not args[2].shape[1] == 12:
+ raise Exception('V should be a Nx12 matrix, with N the number of projections')
+ return {'type': 'cone_vec','DetectorRowCount':args[0],'DetectorColCount':args[1],'Vectors':args[2]}
+ elif intype == 'parallel3d_vec':
+ if len(args) < 3:
+ raise Exception('not enough variables: astra_create_proj_geom(parallel3d_vec, det_row_count, det_col_count, V)')
+ if not args[2].shape[1] == 12:
+ raise Exception('V should be a Nx12 matrix, with N the number of projections')
+ return {'type': 'parallel3d_vec','DetectorRowCount':args[0],'DetectorColCount':args[1],'Vectors':args[2]}
+ elif intype == 'sparse_matrix':
+ if len(args) < 4:
+ raise Exception(
+ 'not enough variables: astra_create_proj_geom(sparse_matrix, det_width, det_count, angles, matrix_id)')
+ return {'type': 'sparse_matrix', 'DetectorWidth': args[0], 'DetectorCount': args[1], 'ProjectionAngles': args[2], 'MatrixID': args[3]}
+ else:
+ raise Exception('Error: unknown type ' + intype)
+
+
+def create_backprojection(data, proj_id, useCUDA=False, returnData=True):
+ """Create a backprojection of a sinogram (2D).
+
+:param data: Sinogram data or ID.
+:type data: :class:`numpy.ndarray` or :class:`int`
+:param proj_id: ID of the projector to use.
+:type proj_id: :class:`int`
+:param useCUDA: If ``True``, use CUDA for the calculation.
+:type useCUDA: :class:`bool`
+:param returnData: If False, only return the ID of the backprojection.
+:type returnData: :class:`bool`
+:returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`) -- If ``returnData=False``, returns the ID of the backprojection. Otherwise, returns a tuple containing the ID of the backprojection and the backprojection itself, in that order.
+
+"""
+ proj_geom = projector.projection_geometry(proj_id)
+ vol_geom = projector.volume_geometry(proj_id)
+ if isinstance(data, np.ndarray):
+ sino_id = data2d.create('-sino', proj_geom, data)
+ else:
+ sino_id = data
+ vol_id = data2d.create('-vol', vol_geom, 0)
+
+ algString = 'BP'
+ if useCUDA:
+ algString = algString + '_CUDA'
+
+ cfg = astra_dict(algString)
+ if not useCUDA:
+ cfg['ProjectorId'] = proj_id
+ cfg['ProjectionDataId'] = sino_id
+ cfg['ReconstructionDataId'] = vol_id
+ alg_id = algorithm.create(cfg)
+ algorithm.run(alg_id)
+ algorithm.delete(alg_id)
+
+ if isinstance(data, np.ndarray):
+ data2d.delete(sino_id)
+
+ if returnData:
+ return vol_id, data2d.get(vol_id)
+ else:
+ return vol_id
+
+def create_backprojection3d_gpu(data, proj_geom, vol_geom, returnData=True):
+ """Create a backprojection of a sinogram (3D) using CUDA.
+
+:param data: Sinogram data or ID.
+:type data: :class:`numpy.ndarray` or :class:`int`
+:param proj_geom: Projection geometry.
+:type proj_geom: :class:`dict`
+:param vol_geom: Volume geometry.
+:type vol_geom: :class:`dict`
+:param returnData: If False, only return the ID of the backprojection.
+:type returnData: :class:`bool`
+:returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`) -- If ``returnData=False``, returns the ID of the backprojection. Otherwise, returns a tuple containing the ID of the backprojection and the backprojection itself, in that order.
+
+"""
+ if isinstance(data, np.ndarray):
+ sino_id = data3d.create('-sino', proj_geom, data)
+ else:
+ sino_id = data
+
+ vol_id = data3d.create('-vol', vol_geom, 0)
+
+ cfg = astra_dict('BP3D_CUDA')
+ cfg['ProjectionDataId'] = sino_id
+ cfg['ReconstructionDataId'] = vol_id
+ alg_id = algorithm.create(cfg)
+ algorithm.run(alg_id)
+ algorithm.delete(alg_id)
+
+ if isinstance(data, np.ndarray):
+ data3d.delete(sino_id)
+
+ if returnData:
+ return vol_id, data3d.get(vol_id)
+ else:
+ return vol_id
+
+
+def create_sino(data, proj_id=None, proj_geom=None, vol_geom=None,
+ useCUDA=False, returnData=True, gpuIndex=None):
+ """Create a forward projection of an image (2D).
+
+ :param data: Image data or ID.
+ :type data: :class:`numpy.ndarray` or :class:`int`
+ :param proj_id: ID of the projector to use.
+ :type proj_id: :class:`int`
+ :param proj_geom: Projection geometry.
+ :type proj_geom: :class:`dict`
+ :param vol_geom: Volume geometry.
+ :type vol_geom: :class:`dict`
+ :param useCUDA: If ``True``, use CUDA for the calculation.
+ :type useCUDA: :class:`bool`
+ :param returnData: If False, only return the ID of the forward projection.
+ :type returnData: :class:`bool`
+ :param gpuIndex: Optional GPU index.
+ :type gpuIndex: :class:`int`
+ :returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`)
+
+ If ``returnData=False``, returns the ID of the forward
+ projection. Otherwise, returns a tuple containing the ID of the
+ forward projection and the forward projection itself, in that
+ order.
+
+ The geometry of setup is defined by ``proj_id`` or with
+ ``proj_geom`` and ``vol_geom``. If ``proj_id`` is given, then
+ ``proj_geom`` and ``vol_geom`` must be None and vice versa.
+"""
+ if proj_id is not None:
+ proj_geom = projector.projection_geometry(proj_id)
+ vol_geom = projector.volume_geometry(proj_id)
+ elif proj_geom is not None and vol_geom is not None:
+ if not useCUDA:
+ # We need more parameters to create projector.
+ raise ValueError(
+ """A ``proj_id`` is needed when CUDA is not used.""")
+ else:
+ raise Exception("""The geometry setup is not defined.
+ The geometry of setup is defined by ``proj_id`` or with
+ ``proj_geom`` and ``vol_geom``. If ``proj_id`` is given, then
+ ``proj_geom`` and ``vol_geom`` must be None and vice versa.""")
+
+ if isinstance(data, np.ndarray):
+ volume_id = data2d.create('-vol', vol_geom, data)
+ else:
+ volume_id = data
+ sino_id = data2d.create('-sino', proj_geom, 0)
+ algString = 'FP'
+ if useCUDA:
+ algString = algString + '_CUDA'
+ cfg = astra_dict(algString)
+ if not useCUDA:
+ cfg['ProjectorId'] = proj_id
+ if gpuIndex is not None:
+ cfg['option'] = {'GPUindex': gpuIndex}
+ cfg['ProjectionDataId'] = sino_id
+ cfg['VolumeDataId'] = volume_id
+ alg_id = algorithm.create(cfg)
+ algorithm.run(alg_id)
+ algorithm.delete(alg_id)
+
+ if isinstance(data, np.ndarray):
+ data2d.delete(volume_id)
+ if returnData:
+ return sino_id, data2d.get(sino_id)
+ else:
+ return sino_id
+
+
+
+def create_sino3d_gpu(data, proj_geom, vol_geom, returnData=True, gpuIndex=None):
+ """Create a forward projection of an image (3D).
+
+:param data: Image data or ID.
+:type data: :class:`numpy.ndarray` or :class:`int`
+:param proj_geom: Projection geometry.
+:type proj_geom: :class:`dict`
+:param vol_geom: Volume geometry.
+:type vol_geom: :class:`dict`
+:param returnData: If False, only return the ID of the forward projection.
+:type returnData: :class:`bool`
+:param gpuIndex: Optional GPU index.
+:type gpuIndex: :class:`int`
+:returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`) -- If ``returnData=False``, returns the ID of the forward projection. Otherwise, returns a tuple containing the ID of the forward projection and the forward projection itself, in that order.
+
+"""
+
+ if isinstance(data, np.ndarray):
+ volume_id = data3d.create('-vol', vol_geom, data)
+ else:
+ volume_id = data
+ sino_id = data3d.create('-sino', proj_geom, 0)
+ algString = 'FP3D_CUDA'
+ cfg = astra_dict(algString)
+ if not gpuIndex==None:
+ cfg['option']={'GPUindex':gpuIndex}
+ cfg['ProjectionDataId'] = sino_id
+ cfg['VolumeDataId'] = volume_id
+ alg_id = algorithm.create(cfg)
+ algorithm.run(alg_id)
+ algorithm.delete(alg_id)
+
+ if isinstance(data, np.ndarray):
+ data3d.delete(volume_id)
+ if returnData:
+ return sino_id, data3d.get(sino_id)
+ else:
+ return sino_id
+
+
+def create_reconstruction(rec_type, proj_id, sinogram, iterations=1, use_mask='no', mask=np.array([]), use_minc='no', minc=0, use_maxc='no', maxc=255, returnData=True, filterType=None, filterData=None):
+ """Create a reconstruction of a sinogram (2D).
+
+:param rec_type: Name of the reconstruction algorithm.
+:type rec_type: :class:`string`
+:param proj_id: ID of the projector to use.
+:type proj_id: :class:`int`
+:param sinogram: Sinogram data or ID.
+:type sinogram: :class:`numpy.ndarray` or :class:`int`
+:param iterations: Number of iterations to run.
+:type iterations: :class:`int`
+:param use_mask: Whether to use a mask.
+:type use_mask: ``'yes'`` or ``'no'``
+:param mask: Mask data or ID
+:type mask: :class:`numpy.ndarray` or :class:`int`
+:param use_minc: Whether to force a minimum value on the reconstruction pixels.
+:type use_minc: ``'yes'`` or ``'no'``
+:param minc: Minimum value to use.
+:type minc: :class:`float`
+:param use_maxc: Whether to force a maximum value on the reconstruction pixels.
+:type use_maxc: ``'yes'`` or ``'no'``
+:param maxc: Maximum value to use.
+:type maxc: :class:`float`
+:param returnData: If False, only return the ID of the reconstruction.
+:type returnData: :class:`bool`
+:param filterType: Which type of filter to use for filter-based methods.
+:type filterType: :class:`string`
+:param filterData: Optional filter data for filter-based methods.
+:type filterData: :class:`numpy.ndarray`
+:returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`) -- If ``returnData=False``, returns the ID of the reconstruction. Otherwise, returns a tuple containing the ID of the reconstruction and reconstruction itself, in that order.
+
+"""
+ proj_geom = projector.projection_geometry(proj_id)
+ if isinstance(sinogram, np.ndarray):
+ sino_id = data2d.create('-sino', proj_geom, sinogram)
+ else:
+ sino_id = sinogram
+ vol_geom = projector.volume_geometry(proj_id)
+ recon_id = data2d.create('-vol', vol_geom, 0)
+ cfg = astra_dict(rec_type)
+ if not 'CUDA' in rec_type:
+ cfg['ProjectorId'] = proj_id
+ cfg['ProjectionDataId'] = sino_id
+ cfg['ReconstructionDataId'] = recon_id
+ cfg['options'] = {}
+ if use_mask == 'yes':
+ if isinstance(mask, np.ndarray):
+ mask_id = data2d.create('-vol', vol_geom, mask)
+ else:
+ mask_id = mask
+ cfg['options']['ReconstructionMaskId'] = mask_id
+ if not filterType == None:
+ cfg['FilterType'] = filterType
+ if not filterData == None:
+ if isinstance(filterData, np.ndarray):
+ nexpow = int(
+ pow(2, math.ceil(math.log(2 * proj_geom['DetectorCount'], 2))))
+ filtSize = nexpow / 2 + 1
+ filt_proj_geom = create_proj_geom(
+ 'parallel', 1.0, filtSize, proj_geom['ProjectionAngles'])
+ filt_id = data2d.create('-sino', filt_proj_geom, filterData)
+ else:
+ filt_id = filterData
+ cfg['FilterSinogramId'] = filt_id
+ cfg['options']['UseMinConstraint'] = use_minc
+ cfg['options']['MinConstraintValue'] = minc
+ cfg['options']['UseMaxConstraint'] = use_maxc
+ cfg['options']['MaxConstraintValue'] = maxc
+ cfg['options']['ProjectionOrder'] = 'random'
+ alg_id = algorithm.create(cfg)
+ algorithm.run(alg_id, iterations)
+
+ algorithm.delete(alg_id)
+
+ if isinstance(sinogram, np.ndarray):
+ data2d.delete(sino_id)
+ if use_mask == 'yes' and isinstance(mask, np.ndarray):
+ data2d.delete(mask_id)
+ if not filterData == None:
+ if isinstance(filterData, np.ndarray):
+ data2d.delete(filt_id)
+ if returnData:
+ return recon_id, data2d.get(recon_id)
+ else:
+ return recon_id
+
+
+def create_projector(proj_type, proj_geom, vol_geom):
+ """Create a 2D projector.
+
+:param proj_type: Projector type, such as ``'line'``, ``'linear'``, ...
+:type proj_type: :class:`string`
+:param proj_geom: Projection geometry.
+:type proj_geom: :class:`dict`
+:param vol_geom: Volume geometry.
+:type vol_geom: :class:`dict`
+:returns: :class:`int` -- The ID of the projector.
+
+"""
+ if proj_type == 'blob':
+ raise Exception('Blob type not yet implemented')
+ cfg = astra_dict(proj_type)
+ cfg['ProjectionGeometry'] = proj_geom
+ cfg['VolumeGeometry'] = vol_geom
+ return projector.create(cfg)
diff --git a/python/astra/data2d.py b/python/astra/data2d.py
new file mode 100644
index 0000000..8c4be03
--- /dev/null
+++ b/python/astra/data2d.py
@@ -0,0 +1,120 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from . import data2d_c as d
+
+def clear():
+ """Clear all 2D data objects."""
+ return d.clear()
+
+def delete(ids):
+ """Delete a 2D object.
+
+ :param ids: ID or list of ID's to delete.
+ :type ids: :class:`int` or :class:`list`
+
+ """
+ return d.delete(ids)
+
+def create(datatype, geometry, data=None):
+ """Create a 2D object.
+
+ :param datatype: Data object type, '-vol' or '-sino'.
+ :type datatype: :class:`string`
+ :param geometry: Volume or projection geometry.
+ :type geometry: :class:`dict`
+ :param data: Data to fill the constructed object with, either a scalar or array.
+ :type data: :class:`float` or :class:`numpy.ndarray`
+ :returns: :class:`int` -- the ID of the constructed object.
+
+ """
+ return d.create(datatype,geometry,data)
+
+def store(i, data):
+ """Fill existing 2D object with data.
+
+ :param i: ID of object to fill.
+ :type i: :class:`int`
+ :param data: Data to fill the object with, either a scalar or array.
+ :type data: :class:`float` or :class:`numpy.ndarray`
+
+ """
+ return d.store(i, data)
+
+def get_geometry(i):
+ """Get the geometry of a 2D object.
+
+ :param i: ID of object.
+ :type i: :class:`int`
+ :returns: :class:`dict` -- The geometry of object with ID ``i``.
+
+ """
+ return d.get_geometry(i)
+
+def change_geometry(i, geom):
+ """Change the geometry of a 2D object.
+
+ :param i: ID of object.
+ :type i: :class:`int`
+ :param geom: new geometry.
+ :type geom: :class:`dict`
+
+ """
+ return d.change_geometry(i, geom)
+
+def get(i):
+ """Get a 2D object.
+
+ :param i: ID of object to get.
+ :type i: :class:`int`
+ :returns: :class:`numpy.ndarray` -- The object data.
+
+ """
+ return d.get(i)
+
+def get_shared(i):
+ """Get a 2D object with memory shared between the ASTRA toolbox and numpy array.
+
+ :param i: ID of object to get.
+ :type i: :class:`int`
+ :returns: :class:`numpy.ndarray` -- The object data.
+
+ """
+ return d.get_shared(i)
+
+
+def get_single(i):
+ """Get a 2D object in single precision.
+
+ :param i: ID of object to get.
+ :type i: :class:`int`
+ :returns: :class:`numpy.ndarray` -- The object data.
+
+ """
+ return d.get_single(i)
+
+def info():
+ """Print info on 2D objects in memory."""
+ return d.info()
diff --git a/python/astra/data2d_c.pyx b/python/astra/data2d_c.pyx
new file mode 100644
index 0000000..ec1b478
--- /dev/null
+++ b/python/astra/data2d_c.pyx
@@ -0,0 +1,241 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+# distutils: language = c++
+# distutils: libraries = astra
+
+import six
+
+cimport cython
+from cython cimport view
+
+cimport PyData2DManager
+from .PyData2DManager cimport CData2DManager
+
+cimport PyXMLDocument
+from .PyXMLDocument cimport XMLDocument
+
+import numpy as np
+
+cimport numpy as np
+np.import_array()
+
+
+from .PyIncludes cimport *
+cimport utils
+from .utils import wrap_from_bytes
+
+
+cdef CData2DManager * man2d = <CData2DManager * >PyData2DManager.getSingletonPtr()
+
+
+def clear():
+ man2d.clear()
+
+
+def delete(ids):
+ try:
+ for i in ids:
+ man2d.remove(i)
+ except TypeError:
+ man2d.remove(ids)
+
+
+def create(datatype, geometry, data=None):
+ cdef XMLDocument * xml
+ cdef Config cfg
+ cdef CVolumeGeometry2D * pGeometry
+ cdef CProjectionGeometry2D * ppGeometry
+ cdef CFloat32Data2D * pDataObject2D
+ if datatype == '-vol':
+ xml = utils.dict2XML(six.b('VolumeGeometry'), geometry)
+ cfg.self = xml.getRootNode()
+ pGeometry = new CVolumeGeometry2D()
+ if not pGeometry.initialize(cfg):
+ del xml
+ del pGeometry
+ raise Exception('Geometry class not initialized.')
+ pDataObject2D = <CFloat32Data2D * > new CFloat32VolumeData2D(pGeometry)
+ del xml
+ del pGeometry
+ elif datatype == '-sino':
+ xml = utils.dict2XML(six.b('ProjectionGeometry'), geometry)
+ cfg.self = xml.getRootNode()
+ tpe = wrap_from_bytes(cfg.self.getAttribute(six.b('type')))
+ if (tpe == 'sparse_matrix'):
+ ppGeometry = <CProjectionGeometry2D * >new CSparseMatrixProjectionGeometry2D()
+ elif (tpe == 'fanflat'):
+ ppGeometry = <CProjectionGeometry2D * >new CFanFlatProjectionGeometry2D()
+ elif (tpe == 'fanflat_vec'):
+ ppGeometry = <CProjectionGeometry2D * >new CFanFlatVecProjectionGeometry2D()
+ else:
+ ppGeometry = <CProjectionGeometry2D * >new CParallelProjectionGeometry2D()
+ if not ppGeometry.initialize(cfg):
+ del xml
+ del ppGeometry
+ raise Exception('Geometry class not initialized.')
+ pDataObject2D = <CFloat32Data2D * > new CFloat32ProjectionData2D(ppGeometry)
+ del ppGeometry
+ del xml
+ else:
+ raise Exception("Invalid datatype. Please specify '-vol' or '-sino'.")
+
+ if not pDataObject2D.isInitialized():
+ del pDataObject2D
+ raise Exception("Couldn't initialize data object.")
+
+ fillDataObject(pDataObject2D, data)
+
+ return man2d.store(pDataObject2D)
+
+cdef fillDataObject(CFloat32Data2D * obj, data):
+ if data is None:
+ fillDataObjectScalar(obj, 0)
+ else:
+ if isinstance(data, np.ndarray):
+ fillDataObjectArray(obj, np.ascontiguousarray(data,dtype=np.float32))
+ else:
+ fillDataObjectScalar(obj, np.float32(data))
+
+cdef fillDataObjectScalar(CFloat32Data2D * obj, float s):
+ cdef int i
+ for i in range(obj.getSize()):
+ obj.getData()[i] = s
+
+@cython.boundscheck(False)
+@cython.wraparound(False)
+cdef fillDataObjectArray(CFloat32Data2D * obj, float [:,::1] data):
+ if (not data.shape[0] == obj.getHeight()) or (not data.shape[1] == obj.getWidth()):
+ raise Exception(
+ "The dimensions of the data do not match those specified in the geometry.")
+ cdef float [:,::1] cView = <float[:data.shape[0],:data.shape[1]]> obj.getData2D()[0]
+ cView[:] = data
+
+cdef CFloat32Data2D * getObject(i) except NULL:
+ cdef CFloat32Data2D * pDataObject = man2d.get(i)
+ if pDataObject == NULL:
+ raise Exception("Data object not found")
+ if not pDataObject.isInitialized():
+ raise Exception("Data object not initialized properly.")
+ return pDataObject
+
+
+def store(i, data):
+ cdef CFloat32Data2D * pDataObject = getObject(i)
+ fillDataObject(pDataObject, data)
+
+
+def get_geometry(i):
+ cdef CFloat32Data2D * pDataObject = getObject(i)
+ cdef CFloat32ProjectionData2D * pDataObject2
+ cdef CFloat32VolumeData2D * pDataObject3
+ if pDataObject.getType() == PROJECTION:
+ pDataObject2 = <CFloat32ProjectionData2D * >pDataObject
+ geom = utils.createProjectionGeometryStruct(pDataObject2.getGeometry())
+ elif pDataObject.getType() == VOLUME:
+ pDataObject3 = <CFloat32VolumeData2D * >pDataObject
+ geom = utils.createVolumeGeometryStruct(pDataObject3.getGeometry())
+ else:
+ raise Exception("Not a known data object")
+ return geom
+
+
+def change_geometry(i, geom):
+ cdef XMLDocument * xml
+ cdef Config cfg
+ cdef CVolumeGeometry2D * pGeometry
+ cdef CProjectionGeometry2D * ppGeometry
+ cdef CFloat32Data2D * pDataObject = getObject(i)
+ cdef CFloat32ProjectionData2D * pDataObject2
+ cdef CFloat32VolumeData2D * pDataObject3
+ if pDataObject.getType() == PROJECTION:
+ pDataObject2 = <CFloat32ProjectionData2D * >pDataObject
+ xml = utils.dict2XML(six.b('ProjectionGeometry'), geom)
+ cfg.self = xml.getRootNode()
+ tpe = wrap_from_bytes(cfg.self.getAttribute(six.b('type')))
+ if (tpe == 'sparse_matrix'):
+ ppGeometry = <CProjectionGeometry2D * >new CSparseMatrixProjectionGeometry2D()
+ elif (tpe == 'fanflat'):
+ ppGeometry = <CProjectionGeometry2D * >new CFanFlatProjectionGeometry2D()
+ elif (tpe == 'fanflat_vec'):
+ ppGeometry = <CProjectionGeometry2D * >new CFanFlatVecProjectionGeometry2D()
+ else:
+ ppGeometry = <CProjectionGeometry2D * >new CParallelProjectionGeometry2D()
+ if not ppGeometry.initialize(cfg):
+ del xml
+ del ppGeometry
+ raise Exception('Geometry class not initialized.')
+ if (ppGeometry.getDetectorCount() != pDataObject2.getDetectorCount() or ppGeometry.getProjectionAngleCount() != pDataObject2.getAngleCount()):
+ del ppGeometry
+ del xml
+ raise Exception(
+ "The dimensions of the data do not match those specified in the geometry.")
+ pDataObject2.changeGeometry(ppGeometry)
+ del ppGeometry
+ del xml
+ elif pDataObject.getType() == VOLUME:
+ pDataObject3 = <CFloat32VolumeData2D * >pDataObject
+ xml = utils.dict2XML(six.b('VolumeGeometry'), geom)
+ cfg.self = xml.getRootNode()
+ pGeometry = new CVolumeGeometry2D()
+ if not pGeometry.initialize(cfg):
+ del xml
+ del pGeometry
+ raise Exception('Geometry class not initialized.')
+ if (pGeometry.getGridColCount() != pDataObject3.getWidth() or pGeometry.getGridRowCount() != pDataObject3.getHeight()):
+ del xml
+ del pGeometry
+ raise Exception(
+ 'The dimensions of the data do not match those specified in the geometry.')
+ pDataObject3.changeGeometry(pGeometry)
+ del xml
+ del pGeometry
+ else:
+ raise Exception("Not a known data object")
+
+@cython.boundscheck(False)
+@cython.wraparound(False)
+def get(i):
+ cdef CFloat32Data2D * pDataObject = getObject(i)
+ outArr = np.empty((pDataObject.getHeight(), pDataObject.getWidth()),dtype=np.float32,order='C')
+ cdef float [:,::1] mView = outArr
+ cdef float [:,::1] cView = <float[:outArr.shape[0],:outArr.shape[1]]> pDataObject.getData2D()[0]
+ mView[:] = cView
+ return outArr
+
+def get_shared(i):
+ cdef CFloat32Data2D * pDataObject = getObject(i)
+ cdef np.npy_intp shape[2]
+ shape[0] = <np.npy_intp> pDataObject.getHeight()
+ shape[1] = <np.npy_intp> pDataObject.getWidth()
+ return np.PyArray_SimpleNewFromData(2,shape,np.NPY_FLOAT32,<void *>pDataObject.getData2D()[0])
+
+
+def get_single(i):
+ raise Exception("Not yet implemented")
+
+
+def info():
+ six.print_(wrap_from_bytes(man2d.info()))
diff --git a/python/astra/data3d.py b/python/astra/data3d.py
new file mode 100644
index 0000000..33bde51
--- /dev/null
+++ b/python/astra/data3d.py
@@ -0,0 +1,108 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from . import data3d_c as d
+
+def create(datatype,geometry,data=None):
+ """Create a 3D object.
+
+ :param datatype: Data object type, '-vol' or '-sino'.
+ :type datatype: :class:`string`
+ :param geometry: Volume or projection geometry.
+ :type geometry: :class:`dict`
+ :param data: Data to fill the constructed object with, either a scalar or array.
+ :type data: :class:`float` or :class:`numpy.ndarray`
+ :returns: :class:`int` -- the ID of the constructed object.
+
+ """
+ return d.create(datatype,geometry,data)
+
+def get(i):
+ """Get a 3D object.
+
+ :param i: ID of object to get.
+ :type i: :class:`int`
+ :returns: :class:`numpy.ndarray` -- The object data.
+
+ """
+ return d.get(i)
+
+def get_shared(i):
+ """Get a 3D object with memory shared between the ASTRA toolbox and numpy array.
+
+ :param i: ID of object to get.
+ :type i: :class:`int`
+ :returns: :class:`numpy.ndarray` -- The object data.
+
+ """
+ return d.get_shared(i)
+
+def get_single(i):
+ """Get a 3D object in single precision.
+
+ :param i: ID of object to get.
+ :type i: :class:`int`
+ :returns: :class:`numpy.ndarray` -- The object data.
+
+ """
+ return g.get_single(i)
+
+def store(i,data):
+ """Fill existing 3D object with data.
+
+ :param i: ID of object to fill.
+ :type i: :class:`int`
+ :param data: Data to fill the object with, either a scalar or array.
+ :type data: :class:`float` or :class:`numpy.ndarray`
+
+ """
+ return d.store(i,data)
+
+def dimensions(i):
+ """Get dimensions of a 3D object.
+
+ :param i: ID of object.
+ :type i: :class:`int`
+ :returns: :class:`tuple` -- dimensions of object with ID ``i``.
+
+ """
+ return d.dimensions(i)
+
+def delete(ids):
+ """Delete a 2D object.
+
+ :param ids: ID or list of ID's to delete.
+ :type ids: :class:`int` or :class:`list`
+
+ """
+ return d.delete(ids)
+
+def clear():
+ """Clear all 3D data objects."""
+ return d.clear()
+
+def info():
+ """Print info on 3D objects in memory."""
+ return d.info()
diff --git a/python/astra/data3d_c.pyx b/python/astra/data3d_c.pyx
new file mode 100644
index 0000000..f821aaf
--- /dev/null
+++ b/python/astra/data3d_c.pyx
@@ -0,0 +1,188 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+# distutils: language = c++
+# distutils: libraries = astra
+
+import six
+
+cimport cython
+
+cimport PyData3DManager
+from .PyData3DManager cimport CData3DManager
+
+from .PyIncludes cimport *
+import numpy as np
+
+cimport numpy as np
+np.import_array()
+
+cimport PyXMLDocument
+from .PyXMLDocument cimport XMLDocument
+
+cimport utils
+from .utils import wrap_from_bytes
+
+cdef CData3DManager * man3d = <CData3DManager * >PyData3DManager.getSingletonPtr()
+
+cdef extern from *:
+ CFloat32Data3DMemory * dynamic_cast_mem "dynamic_cast<astra::CFloat32Data3DMemory*>" (CFloat32Data3D * ) except NULL
+
+def create(datatype,geometry,data=None):
+ cdef XMLDocument * xml
+ cdef Config cfg
+ cdef CVolumeGeometry3D * pGeometry
+ cdef CProjectionGeometry3D * ppGeometry
+ cdef CFloat32Data3DMemory * pDataObject3D
+ cdef CConeProjectionGeometry3D* pppGeometry
+ if datatype == '-vol':
+ xml = utils.dict2XML(six.b('VolumeGeometry'), geometry)
+ cfg.self = xml.getRootNode()
+ pGeometry = new CVolumeGeometry3D()
+ if not pGeometry.initialize(cfg):
+ del xml
+ del pGeometry
+ raise Exception('Geometry class not initialized.')
+ pDataObject3D = <CFloat32Data3DMemory * > new CFloat32VolumeData3DMemory(pGeometry)
+ del xml
+ del pGeometry
+ elif datatype == '-sino' or datatype == '-proj3d':
+ xml = utils.dict2XML(six.b('ProjectionGeometry'), geometry)
+ cfg.self = xml.getRootNode()
+ 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):
+ del xml
+ del ppGeometry
+ raise Exception('Geometry class not initialized.')
+ pDataObject3D = <CFloat32Data3DMemory * > new CFloat32ProjectionData3DMemory(ppGeometry)
+ del ppGeometry
+ del xml
+ elif datatype == "-sinocone":
+ xml = utils.dict2XML(six.b('ProjectionGeometry'), geometry)
+ cfg.self = xml.getRootNode()
+ pppGeometry = new CConeProjectionGeometry3D()
+ if not pppGeometry.initialize(cfg):
+ del xml
+ del pppGeometry
+ raise Exception('Geometry class not initialized.')
+ pDataObject3D = <CFloat32Data3DMemory * > new CFloat32ProjectionData3DMemory(pppGeometry)
+ else:
+ raise Exception("Invalid datatype. Please specify '-vol' or '-proj3d'.")
+
+ if not pDataObject3D.isInitialized():
+ del pDataObject3D
+ raise Exception("Couldn't initialize data object.")
+
+ fillDataObject(pDataObject3D, data)
+
+ pDataObject3D.updateStatistics()
+
+ return man3d.store(<CFloat32Data3D*>pDataObject3D)
+
+
+cdef fillDataObject(CFloat32Data3DMemory * obj, data):
+ if data is None:
+ fillDataObjectScalar(obj, 0)
+ else:
+ if isinstance(data, np.ndarray):
+ fillDataObjectArray(obj, np.ascontiguousarray(data,dtype=np.float32))
+ else:
+ fillDataObjectScalar(obj, np.float32(data))
+
+cdef fillDataObjectScalar(CFloat32Data3DMemory * obj, float s):
+ cdef int i
+ for i in range(obj.getSize()):
+ obj.getData()[i] = s
+
+@cython.boundscheck(False)
+@cython.wraparound(False)
+cdef fillDataObjectArray(CFloat32Data3DMemory * obj, float [:,:,::1] data):
+ if (not data.shape[0] == obj.getDepth()) or (not data.shape[1] == obj.getHeight()) or (not data.shape[2] == obj.getWidth()):
+ raise Exception(
+ "The dimensions of the data do not match those specified in the geometry.")
+ cdef float [:,:,::1] cView = <float[:data.shape[0],:data.shape[1],:data.shape[2]]> obj.getData3D()[0][0]
+ cView[:] = data
+
+cdef CFloat32Data3D * getObject(i) except NULL:
+ cdef CFloat32Data3D * pDataObject = man3d.get(i)
+ if pDataObject == NULL:
+ raise Exception("Data object not found")
+ if not pDataObject.isInitialized():
+ raise Exception("Data object not initialized properly.")
+ return pDataObject
+
+@cython.boundscheck(False)
+@cython.wraparound(False)
+def get(i):
+ cdef CFloat32Data3DMemory * pDataObject = dynamic_cast_mem(getObject(i))
+ outArr = np.empty((pDataObject.getDepth(),pDataObject.getHeight(), pDataObject.getWidth()),dtype=np.float32,order='C')
+ cdef float [:,:,::1] mView = outArr
+ cdef float [:,:,::1] cView = <float[:outArr.shape[0],:outArr.shape[1],:outArr.shape[2]]> pDataObject.getData3D()[0][0]
+ mView[:] = cView
+ return outArr
+
+def get_shared(i):
+ cdef CFloat32Data3DMemory * pDataObject = dynamic_cast_mem(getObject(i))
+ outArr = np.empty((pDataObject.getDepth(),pDataObject.getHeight(), pDataObject.getWidth()),dtype=np.float32,order='C')
+ cdef np.npy_intp shape[3]
+ shape[0] = <np.npy_intp> pDataObject.getDepth()
+ shape[1] = <np.npy_intp> pDataObject.getHeight()
+ shape[2] = <np.npy_intp> pDataObject.getWidth()
+ return np.PyArray_SimpleNewFromData(3,shape,np.NPY_FLOAT32,<void *>pDataObject.getData3D()[0][0])
+
+def get_single(i):
+ raise Exception("Not yet implemented")
+
+def store(i,data):
+ cdef CFloat32Data3D * pDataObject = getObject(i)
+ fillDataObject(dynamic_cast_mem(pDataObject), data)
+
+def dimensions(i):
+ cdef CFloat32Data3D * pDataObject = getObject(i)
+ return (pDataObject.getWidth(),pDataObject.getHeight(),pDataObject.getDepth())
+
+def delete(ids):
+ try:
+ for i in ids:
+ man3d.remove(i)
+ except TypeError:
+ man3d.remove(ids)
+
+def clear():
+ man3d.clear()
+
+def info():
+ six.print_(wrap_from_bytes(man3d.info()))
diff --git a/python/astra/extrautils.pyx b/python/astra/extrautils.pyx
new file mode 100644
index 0000000..998f5cb
--- /dev/null
+++ b/python/astra/extrautils.pyx
@@ -0,0 +1,43 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+
+def clipCircle(img):
+ cdef int i,j
+ cdef double x2,y2,mid,bnd
+ cdef long sz,sz2
+ sz = img.shape[0]
+ sz2 = sz*sz
+ bnd = sz2/4.
+ mid = (sz-1.)/2.
+ nDel=0
+ for i in range(sz):
+ for j in range(sz):
+ x2 = (i-mid)*(i-mid)
+ y2 = (j-mid)*(j-mid)
+ if x2+y2>bnd:
+ img[i,j]=0
+ nDel=nDel+1
+ return nDel
diff --git a/python/astra/functions.py b/python/astra/functions.py
new file mode 100644
index 0000000..4025468
--- /dev/null
+++ b/python/astra/functions.py
@@ -0,0 +1,270 @@
+#-----------------------------------------------------------------------
+# Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+# Author: Daniel M. Pelt
+# Contact: D.M.Pelt@cwi.nl
+# Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+# This file is part of the Python interface to the
+# All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+# The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+# The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+"""Additional functions for PyAstraToolbox.
+
+.. moduleauthor:: Daniel M. Pelt <D.M.Pelt@cwi.nl>
+
+
+"""
+
+from . import creators as ac
+import numpy as np
+from six.moves import range
+
+from . import data2d
+from . import data3d
+from . import projector
+from . import algorithm
+
+
+
+def clear():
+ """Clears all used memory of the ASTRA Toolbox.
+
+ .. note::
+ This is irreversible.
+
+ """
+ data2d.clear()
+ data3d.clear()
+ projector.clear()
+ algorithm.clear()
+
+
+def data_op(op, data, scalar, gpu_core, mask=None):
+ """Perform data operation on data.
+
+ :param op: Operation to perform.
+ :param data: Data to perform operation on.
+ :param scalar: Scalar argument to data operation.
+ :param gpu_core: GPU core to perform operation on.
+ :param mask: Optional mask.
+
+ """
+
+ cfg = ac.astra_dict('DataOperation_CUDA')
+ cfg['Operation'] = op
+ cfg['Scalar'] = scalar
+ cfg['DataId'] = data
+ if not mask == None:
+ cfg['MaskId'] = mask
+ cfg['option']['GPUindex'] = gpu_core
+ alg_id = algorithm.create(cfg)
+ algorithm.run(alg_id)
+ algorithm.delete(alg_id)
+
+
+def add_noise_to_sino(sinogram_in, I0, seed=None):
+ """Adds Poisson noise to a sinogram.
+
+ :param sinogram_in: Sinogram to add noise to.
+ :type sinogram_in: :class:`numpy.ndarray`
+ :param I0: Background intensity. Lower values lead to higher noise.
+ :type I0: :class:`float`
+ :returns: :class:`numpy.ndarray` -- the sinogram with added noise.
+
+ """
+
+ if not seed==None:
+ curstate = np.random.get_state()
+ np.random.seed(seed)
+
+ if isinstance(sinogram_in, np.ndarray):
+ sinogramRaw = sinogram_in
+ else:
+ sinogramRaw = data2d.get(sinogram_in)
+ max_sinogramRaw = sinogramRaw.max()
+ sinogramRawScaled = sinogramRaw / max_sinogramRaw
+ # to detector count
+ sinogramCT = I0 * np.exp(-sinogramRawScaled)
+ # add poison noise
+ sinogramCT_C = np.zeros_like(sinogramCT)
+ for i in range(sinogramCT_C.shape[0]):
+ for j in range(sinogramCT_C.shape[1]):
+ sinogramCT_C[i, j] = np.random.poisson(sinogramCT[i, j])
+ # to density
+ sinogramCT_D = sinogramCT_C / I0
+ sinogram_out = -max_sinogramRaw * np.log(sinogramCT_D)
+
+ if not isinstance(sinogram_in, np.ndarray):
+ at.data2d.store(sinogram_in, sinogram_out)
+
+ if not seed==None:
+ np.random.set_state(curstate)
+
+ return sinogram_out
+
+def move_vol_geom(geom, pos, is_relative=False):
+ """Moves center of volume geometry to new position.
+
+ :param geom: Input volume geometry
+ :type geom: :class:`dict`
+ :param pos: Tuple (x,y[,z]) for new position, with the center of the image at (0,0[,0])
+ :type pos: :class:`tuple`
+ :param is_relative: Whether new position is relative to the old position
+ :type is_relative: :class:`bool`
+ :returns: :class:`dict` -- Volume geometry with the new center
+ """
+
+ ret_geom = geom.copy()
+ ret_geom['option'] = geom['option'].copy()
+
+ if not is_relative:
+ ret_geom['option']['WindowMinX'] = -geom['GridColCount']/2.
+ ret_geom['option']['WindowMaxX'] = geom['GridColCount']/2.
+ ret_geom['option']['WindowMinY'] = -geom['GridRowCount']/2.
+ ret_geom['option']['WindowMaxY'] = geom['GridRowCount']/2.
+ if len(pos)>2:
+ ret_geom['option']['WindowMinZ'] = -geom['GridSliceCount']/2.
+ ret_geom['option']['WindowMaxZ'] = geom['GridSliceCount']/2.
+ ret_geom['option']['WindowMinX'] += pos[0]
+ ret_geom['option']['WindowMaxX'] += pos[0]
+ ret_geom['option']['WindowMinY'] += pos[1]
+ ret_geom['option']['WindowMaxY'] += pos[1]
+ if len(pos)>2:
+ ret_geom['option']['WindowMinZ'] += pos[2]
+ ret_geom['option']['WindowMaxZ'] += pos[2]
+ return ret_geom
+
+
+def geom_size(geom, dim=None):
+ """Returns the size of a volume or sinogram, based on the projection or volume geometry.
+
+ :param geom: Geometry to calculate size from
+ :type geometry: :class:`dict`
+ :param dim: Optional axis index to return
+ :type dim: :class:`int`
+ """
+
+ if 'GridSliceCount' in geom:
+ # 3D Volume geometry?
+ s = (geom['GridSliceCount'], geom[
+ 'GridRowCount'], geom['GridColCount'])
+ elif 'GridColCount' in geom:
+ # 2D Volume geometry?
+ s = (geom['GridRowCount'], geom['GridColCount'])
+ elif geom['type'] == 'parallel' or geom['type'] == 'fanflat':
+ s = (len(geom['ProjectionAngles']), geom['DetectorCount'])
+ elif geom['type'] == 'parallel3d' or geom['type'] == 'cone':
+ s = (geom['DetectorRowCount'], len(
+ geom['ProjectionAngles']), geom['DetectorColCount'])
+ elif geom['type'] == 'fanflat_vec':
+ s = (geom['Vectors'].shape[0], geom['DetectorCount'])
+ elif geom['type'] == 'parallel3d_vec' or geom['type'] == 'cone_vec':
+ s = (geom['DetectorRowCount'], geom[
+ 'Vectors'].shape[0], geom['DetectorColCount'])
+
+ if dim != None:
+ s = s[dim]
+
+ return s
+
+
+def geom_2vec(proj_geom):
+ """Returns a vector-based projection geometry from a basic projection geometry.
+
+ :param proj_geom: Projection geometry to convert
+ :type proj_geom: :class:`dict`
+ """
+ if proj_geom['type'] == 'fanflat':
+ angles = proj_geom['ProjectionAngles']
+ vectors = np.zeros((len(angles), 6))
+ for i in range(len(angles)):
+
+ # source
+ vectors[i, 0] = np.sin(angles[i]) * proj_geom['DistanceOriginSource']
+ vectors[i, 1] = -np.cos(angles[i]) * proj_geom['DistanceOriginSource']
+
+ # center of detector
+ vectors[i, 2] = -np.sin(angles[i]) * proj_geom['DistanceOriginDetector']
+ vectors[i, 3] = np.cos(angles[i]) * proj_geom['DistanceOriginDetector']
+
+ # vector from detector pixel 0 to 1
+ vectors[i, 4] = np.cos(angles[i]) * proj_geom['DetectorWidth']
+ vectors[i, 5] = np.sin(angles[i]) * proj_geom['DetectorWidth']
+ proj_geom_out = ac.create_proj_geom(
+ 'fanflat_vec', proj_geom['DetectorCount'], vectors)
+
+ elif proj_geom['type'] == 'cone':
+ angles = proj_geom['ProjectionAngles']
+ vectors = np.zeros((len(angles), 12))
+ for i in range(len(angles)):
+ # source
+ vectors[i, 0] = np.sin(angles[i]) * proj_geom['DistanceOriginSource']
+ vectors[i, 1] = -np.cos(angles[i]) * proj_geom['DistanceOriginSource']
+ vectors[i, 2] = 0
+
+ # center of detector
+ vectors[i, 3] = -np.sin(angles[i]) * proj_geom['DistanceOriginDetector']
+ vectors[i, 4] = np.cos(angles[i]) * proj_geom['DistanceOriginDetector']
+ vectors[i, 5] = 0
+
+ # vector from detector pixel (0,0) to (0,1)
+ vectors[i, 6] = np.cos(angles[i]) * proj_geom['DetectorSpacingX']
+ vectors[i, 7] = np.sin(angles[i]) * proj_geom['DetectorSpacingX']
+ vectors[i, 8] = 0
+
+ # vector from detector pixel (0,0) to (1,0)
+ vectors[i, 9] = 0
+ vectors[i, 10] = 0
+ vectors[i, 11] = proj_geom['DetectorSpacingY']
+
+ proj_geom_out = ac.create_proj_geom(
+ 'cone_vec', proj_geom['DetectorRowCount'], proj_geom['DetectorColCount'], vectors)
+
+ # PARALLEL
+ elif proj_geom['type'] == 'parallel3d':
+ angles = proj_geom['ProjectionAngles']
+ vectors = np.zeros((len(angles), 12))
+ for i in range(len(angles)):
+
+ # ray direction
+ vectors[i, 0] = np.sin(angles[i])
+ vectors[i, 1] = -np.cos(angles[i])
+ vectors[i, 2] = 0
+
+ # center of detector
+ vectors[i, 3] = 0
+ vectors[i, 4] = 0
+ vectors[i, 5] = 0
+
+ # vector from detector pixel (0,0) to (0,1)
+ vectors[i, 6] = np.cos(angles[i]) * proj_geom['DetectorSpacingX']
+ vectors[i, 7] = np.sin(angles[i]) * proj_geom['DetectorSpacingX']
+ vectors[i, 8] = 0
+
+ # vector from detector pixel (0,0) to (1,0)
+ vectors[i, 9] = 0
+ vectors[i, 10] = 0
+ vectors[i, 11] = proj_geom['DetectorSpacingY']
+
+ proj_geom_out = ac.create_proj_geom(
+ 'parallel3d_vec', proj_geom['DetectorRowCount'], proj_geom['DetectorColCount'], vectors)
+
+ else:
+ raise ValueError(
+ 'No suitable vector geometry found for type: ' + proj_geom['type'])
+ return proj_geom_out
diff --git a/python/astra/matlab.py b/python/astra/matlab.py
new file mode 100644
index 0000000..83b345d
--- /dev/null
+++ b/python/astra/matlab.py
@@ -0,0 +1,112 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+"""This module implements a MATLAB-like interface to the ASTRA Toolbox.
+
+Note that all functions are called with a :class:`string` as the first
+argument, specifying the operation to perform. This un-pythonic way
+is used to make transitioning from MATLAB code to Python code easier, as
+the MATLAB interface uses the same type of method calling.
+
+After an initial ``import astra``, these functions can be accessed in the
+``astra.m`` module.
+
+"""
+
+from . import astra_c
+from . import data2d_c
+from . import data3d_c
+from . import projector_c
+from . import algorithm_c
+from . import matrix_c
+import numpy as np
+
+
+def astra(command, *args):
+ """MATLAB-like interface to the :mod:`astra.astra` module
+
+ For example:
+
+ ``astra.m.astra('use_cuda')`` -- Check if CUDA is enabled.
+
+ """
+ return getattr(astra_c, command)(*args)
+
+
+def data2d(command, *args):
+ """MATLAB-like interface to the :mod:`astra.data2d` module
+
+ For example:
+
+ ``astra.m.data2d('create',type,geometry,data)`` -- Create a 2D object.
+
+ """
+ return getattr(data2d_c, command)(*args)
+
+
+def data3d(command, *args):
+ """MATLAB-like interface to the :mod:`astra.data3d` module
+
+ For example:
+
+ ``astra.m.data3d('get',i)`` -- Get 3D object data.
+
+ """
+ return getattr(data3d_c, command)(*args)
+
+
+def projector(command, *args):
+ """MATLAB-like interface to the :mod:`astra.projector` module
+
+ For example:
+
+ ``astra.m.projector('volume_geometry',i)`` -- Get volume geometry.
+
+ """
+ return getattr(projector_c, command)(*args)
+
+
+def matrix(command, *args):
+ """MATLAB-like interface to the :mod:`astra.matrix` module
+
+ For example:
+
+ ``astra.m.matrix('delete',i)`` -- Delete a matrix.
+
+ """
+ return getattr(matrix_c, command)(*args)
+
+
+def algorithm(command, *args):
+ """MATLAB-like interface to the :mod:`astra.algorithm` module
+
+ For example:
+
+ ``astra.m.algorithm('run',i,1000)`` -- Run an algorithm with 1000 iterations.
+
+ """
+ if command == 'iterate':
+ command = 'run'
+ return getattr(algorithm_c, command)(*args)
diff --git a/python/astra/matrix.py b/python/astra/matrix.py
new file mode 100644
index 0000000..27e4823
--- /dev/null
+++ b/python/astra/matrix.py
@@ -0,0 +1,86 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from . import matrix_c as m
+
+def delete(ids):
+ """Delete a matrix object.
+
+ :param ids: ID or list of ID's to delete.
+ :type ids: :class:`int` or :class:`list`
+
+ """
+ return m.delete(ids)
+
+def clear():
+ """Clear all matrix objects."""
+ return m.clear()
+
+def create(data):
+ """Create matrix object with data.
+
+ :param data: Data to fill the created object with.
+ :type data: :class:`scipy.sparse.csr_matrix`
+ :returns: :class:`int` -- the ID of the constructed object.
+
+ """
+ return m.create(data)
+
+
+def store(i,data):
+ """Fill existing matrix object with data.
+
+ :param i: ID of object to fill.
+ :type i: :class:`int`
+ :param data: Data to fill the object with.
+ :type data: :class:`scipy.sparse.csr_matrix`
+
+ """
+ return m.store(i,data)
+
+def get_size(i):
+ """Get matrix dimensions.
+
+ :param i: ID of object.
+ :type i: :class:`int`
+ :returns: :class:`tuple` -- matrix dimensions.
+ """
+ return m.get_size(i)
+
+def get(i):
+ """Get a matrix object.
+
+ :param i: ID of object to get.
+ :type i: :class:`int`
+ :returns: :class:`scipy.sparse.csr_matrix` -- The object data.
+
+ """
+ return m.get(i)
+
+def info():
+ """Print info on matrix objects in memory."""
+ return m.info()
+
+
diff --git a/python/astra/matrix_c.pyx b/python/astra/matrix_c.pyx
new file mode 100644
index 0000000..b0d8bc4
--- /dev/null
+++ b/python/astra/matrix_c.pyx
@@ -0,0 +1,116 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+# distutils: language = c++
+# distutils: libraries = astra
+
+import six
+from six.moves import range
+import numpy as np
+import scipy.sparse as ss
+
+from libcpp cimport bool
+
+cimport PyMatrixManager
+from .PyMatrixManager cimport CMatrixManager
+from .PyIncludes cimport *
+from .utils import wrap_from_bytes
+
+cdef CMatrixManager * manM = <CMatrixManager * >PyMatrixManager.getSingletonPtr()
+
+
+def delete(ids):
+ try:
+ for i in ids:
+ manM.remove(i)
+ except TypeError:
+ manM.remove(ids)
+
+def clear():
+ manM.clear()
+
+cdef int csr_matrix_to_astra(data,CSparseMatrix *mat) except -1:
+ if isinstance(data,ss.csr_matrix):
+ csrD = data
+ else:
+ csrD = data.tocsr()
+ if not mat.isInitialized():
+ raise Exception("Couldn't initialize data object.")
+ if csrD.nnz > mat.m_lSize or csrD.shape[0] > mat.m_iHeight:
+ raise Exception("Matrix too large to store in this object.")
+ for i in range(len(csrD.indptr)):
+ mat.m_plRowStarts[i] = csrD.indptr[i]
+ for i in range(csrD.nnz):
+ mat.m_piColIndices[i] = csrD.indices[i]
+ mat.m_pfValues[i] = csrD.data[i]
+
+cdef astra_to_csr_matrix(CSparseMatrix *mat):
+ indptr = np.zeros(mat.m_iHeight+1,dtype=np.int)
+ indices = np.zeros(mat.m_plRowStarts[mat.m_iHeight],dtype=np.int)
+ data = np.zeros(mat.m_plRowStarts[mat.m_iHeight])
+ for i in range(mat.m_iHeight+1):
+ indptr[i] = mat.m_plRowStarts[i]
+ for i in range(mat.m_plRowStarts[mat.m_iHeight]):
+ indices[i] = mat.m_piColIndices[i]
+ data[i] = mat.m_pfValues[i]
+ return ss.csr_matrix((data,indices,indptr),shape=(mat.m_iHeight,mat.m_iWidth))
+
+def create(data):
+ cdef CSparseMatrix* pMatrix
+ pMatrix = new CSparseMatrix(data.shape[0], data.shape[1], data.nnz)
+ if not pMatrix.isInitialized():
+ del pMatrix
+ raise Exception("Couldn't initialize data object.")
+ try:
+ csr_matrix_to_astra(data,pMatrix)
+ except:
+ del pMatrix
+ raise Exception("Failed to create data object.")
+
+ return manM.store(pMatrix)
+
+cdef CSparseMatrix * getObject(i) except NULL:
+ cdef CSparseMatrix * pDataObject = manM.get(i)
+ if pDataObject == NULL:
+ raise Exception("Data object not found")
+ if not pDataObject.isInitialized():
+ raise Exception("Data object not initialized properly.")
+ return pDataObject
+
+
+def store(i,data):
+ cdef CSparseMatrix * pDataObject = getObject(i)
+ csr_matrix_to_astra(data,pDataObject)
+
+def get_size(i):
+ cdef CSparseMatrix * pDataObject = getObject(i)
+ return (pDataObject.m_iHeight,pDataObject.m_iWidth)
+
+def get(i):
+ cdef CSparseMatrix * pDataObject = getObject(i)
+ return astra_to_csr_matrix(pDataObject)
+
+def info():
+ six.print_(wrap_from_bytes(manM.info()))
diff --git a/python/astra/projector.py b/python/astra/projector.py
new file mode 100644
index 0000000..c916c52
--- /dev/null
+++ b/python/astra/projector.py
@@ -0,0 +1,100 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from . import projector_c as p
+
+def create(config):
+ """Create projector object.
+
+ :param config: Projector options.
+ :type config: :class:`dict`
+ :returns: :class:`int` -- the ID of the constructed object.
+
+ """
+ return p.create(config)
+
+
+def delete(ids):
+ """Delete a projector object.
+
+ :param ids: ID or list of ID's to delete.
+ :type ids: :class:`int` or :class:`list`
+
+ """
+ return p.delete(ids)
+
+
+def clear():
+ """Clear all projector objects."""
+ return p.clear()
+
+
+def info():
+ """Print info on projector objects in memory."""
+ return p.info()
+
+def projection_geometry(i):
+ """Get projection geometry of a projector.
+
+ :param i: ID of projector.
+ :type i: :class:`int`
+ :returns: :class:`dict` -- projection geometry
+
+ """
+ return p.projection_geometry(i)
+
+
+def volume_geometry(i):
+ """Get volume geometry of a projector.
+
+ :param i: ID of projector.
+ :type i: :class:`int`
+ :returns: :class:`dict` -- volume geometry
+
+ """
+ return p.volume_geometry(i)
+
+
+def weights_single_ray(i, projection_index, detector_index):
+ return p.weights_single_ray(i, projection_index, detector_index)
+
+
+def weights_projection(i, projection_index):
+ return p.weights_projection(i, projection_index)
+
+
+def splat(i, row, col):
+ return p.splat(i, row, col)
+
+
+def matrix(i):
+ """Get sparse matrix of a projector.
+
+ :param i: ID of projector.
+ :type i: :class:`int`
+ :returns: :class:`int` -- ID of sparse matrix.
+
+ """
+ return p.matrix(i)
diff --git a/python/astra/projector_c.pyx b/python/astra/projector_c.pyx
new file mode 100644
index 0000000..978ca09
--- /dev/null
+++ b/python/astra/projector_c.pyx
@@ -0,0 +1,119 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+# distutils: language = c++
+# distutils: libraries = astra
+
+import six
+from .PyIncludes cimport *
+
+cimport utils
+from .utils import wrap_from_bytes
+
+cimport PyProjector2DFactory
+from .PyProjector2DFactory cimport CProjector2DFactory
+
+cimport PyProjector2DManager
+from .PyProjector2DManager cimport CProjector2DManager
+
+cimport PyXMLDocument
+from .PyXMLDocument cimport XMLDocument
+
+cimport PyMatrixManager
+from .PyMatrixManager cimport CMatrixManager
+
+cdef CProjector2DManager * manProj = <CProjector2DManager * >PyProjector2DManager.getSingletonPtr()
+cdef CMatrixManager * manM = <CMatrixManager * >PyMatrixManager.getSingletonPtr()
+
+
+def create(config):
+ cdef XMLDocument * xml = utils.dict2XML(six.b('Projector2D'), config)
+ cdef Config cfg
+ cdef CProjector2D * proj
+ cfg.self = xml.getRootNode()
+ proj = PyProjector2DFactory.getSingletonPtr().create(cfg)
+ if proj == NULL:
+ del xml
+ raise Exception("Error creating projector.")
+ del xml
+ return manProj.store(proj)
+
+
+def delete(ids):
+ try:
+ for i in ids:
+ manProj.remove(i)
+ except TypeError:
+ manProj.remove(ids)
+
+
+def clear():
+ manProj.clear()
+
+
+def info():
+ six.print_(wrap_from_bytes(manProj.info()))
+
+cdef CProjector2D * getObject(i) except NULL:
+ cdef CProjector2D * proj = manProj.get(i)
+ if proj == NULL:
+ raise Exception("Projector not initialized.")
+ if not proj.isInitialized():
+ raise Exception("Projector not initialized.")
+ return proj
+
+
+def projection_geometry(i):
+ cdef CProjector2D * proj = getObject(i)
+ return utils.createProjectionGeometryStruct(proj.getProjectionGeometry())
+
+
+def volume_geometry(i):
+ cdef CProjector2D * proj = getObject(i)
+ return utils.createVolumeGeometryStruct(proj.getVolumeGeometry())
+
+
+def weights_single_ray(i, projection_index, detector_index):
+ raise Exception("Not yet implemented")
+
+
+def weights_projection(i, projection_index):
+ raise Exception("Not yet implemented")
+
+
+def splat(i, row, col):
+ raise Exception("Not yet implemented")
+
+
+def matrix(i):
+ cdef CProjector2D * proj = getObject(i)
+ cdef CSparseMatrix * mat = proj.getMatrix()
+ if mat == NULL:
+ del mat
+ raise Exception("Data object not found")
+ if not mat.isInitialized():
+ del mat
+ raise Exception("Data object not initialized properly.")
+ return manM.store(mat)
diff --git a/python/astra/utils.pxd b/python/astra/utils.pxd
new file mode 100644
index 0000000..55db9d3
--- /dev/null
+++ b/python/astra/utils.pxd
@@ -0,0 +1,37 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+from libcpp.string cimport string
+
+cimport PyXMLDocument
+from .PyXMLDocument cimport XMLDocument
+from .PyXMLDocument cimport XMLNode
+
+from .PyIncludes cimport *
+
+cdef XMLDocument *dict2XML(string rootname, dc)
+cdef XML2dict(XMLDocument *)
+cdef createVolumeGeometryStruct(CVolumeGeometry2D* geom)
+cdef createProjectionGeometryStruct(CProjectionGeometry2D* geom)
diff --git a/python/astra/utils.pyx b/python/astra/utils.pyx
new file mode 100644
index 0000000..53e84a9
--- /dev/null
+++ b/python/astra/utils.pyx
@@ -0,0 +1,260 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+# distutils: language = c++
+# distutils: libraries = astra
+
+import numpy as np
+import six
+from libcpp.string cimport string
+from libcpp.list cimport list
+from libcpp.vector cimport vector
+from cython.operator cimport dereference as deref
+from cpython.version cimport PY_MAJOR_VERSION
+
+cimport PyXMLDocument
+from .PyXMLDocument cimport XMLDocument
+from .PyXMLDocument cimport XMLNode
+from .PyIncludes cimport *
+
+
+cdef XMLDocument * dict2XML(string rootname, dc):
+ cdef XMLDocument * doc = PyXMLDocument.createDocument(rootname)
+ cdef XMLNode * node = doc.getRootNode()
+ try:
+ readDict(node, dc)
+ except:
+ six.print_('Error reading XML')
+ del doc
+ doc = NULL
+ finally:
+ del node
+ return doc
+
+def convert_item(item):
+ if isinstance(item, six.string_types):
+ return item.encode('ascii')
+
+ if type(item) is not dict:
+ return item
+
+ out_dict = {}
+ for k in item:
+ out_dict[convert_item(k)] = convert_item(item[k])
+ return out_dict
+
+
+def wrap_to_bytes(value):
+ if isinstance(value, six.binary_type):
+ return value
+ s = str(value)
+ if PY_MAJOR_VERSION == 3:
+ s = s.encode('ascii')
+ return s
+
+
+def wrap_from_bytes(value):
+ s = value
+ if PY_MAJOR_VERSION == 3:
+ s = s.decode('ascii')
+ return s
+
+
+cdef void readDict(XMLNode * root, _dc):
+ cdef XMLNode * listbase
+ cdef XMLNode * itm
+ cdef int i
+ cdef int j
+
+ dc = convert_item(_dc)
+ for item in dc:
+ val = dc[item]
+ if isinstance(val, np.ndarray):
+ if val.size == 0:
+ break
+ listbase = root.addChildNode(item)
+ listbase.addAttribute(< string > six.b('listsize'), < float32 > val.size)
+ index = 0
+ if val.ndim == 2:
+ for i in range(val.shape[0]):
+ for j in range(val.shape[1]):
+ itm = listbase.addChildNode(six.b('ListItem'))
+ itm.addAttribute(< string > six.b('index'), < float32 > index)
+ itm.addAttribute( < string > six.b('value'), < float32 > val[i, j])
+ index += 1
+ del itm
+ elif val.ndim == 1:
+ for i in range(val.shape[0]):
+ itm = listbase.addChildNode(six.b('ListItem'))
+ itm.addAttribute(< string > six.b('index'), < float32 > index)
+ itm.addAttribute(< string > six.b('value'), < float32 > val[i])
+ index += 1
+ del itm
+ else:
+ raise Exception("Only 1 or 2 dimensions are allowed")
+ del listbase
+ elif isinstance(val, dict):
+ if item == six.b('option') or item == six.b('options') or item == six.b('Option') or item == six.b('Options'):
+ readOptions(root, val)
+ else:
+ itm = root.addChildNode(item)
+ readDict(itm, val)
+ del itm
+ else:
+ if item == six.b('type'):
+ root.addAttribute(< string > six.b('type'), <string> wrap_to_bytes(val))
+ else:
+ itm = root.addChildNode(item, wrap_to_bytes(val))
+ del itm
+
+cdef void readOptions(XMLNode * node, dc):
+ cdef XMLNode * listbase
+ cdef XMLNode * itm
+ cdef int i
+ cdef int j
+ for item in dc:
+ val = dc[item]
+ if node.hasOption(item):
+ raise Exception('Duplicate Option: %s' % item)
+ if isinstance(val, np.ndarray):
+ if val.size == 0:
+ break
+ listbase = node.addChildNode(six.b('Option'))
+ listbase.addAttribute(< string > six.b('key'), < string > item)
+ listbase.addAttribute(< string > six.b('listsize'), < float32 > val.size)
+ index = 0
+ if val.ndim == 2:
+ for i in range(val.shape[0]):
+ for j in range(val.shape[1]):
+ itm = listbase.addChildNode(six.b('ListItem'))
+ itm.addAttribute(< string > six.b('index'), < float32 > index)
+ itm.addAttribute( < string > six.b('value'), < float32 > val[i, j])
+ index += 1
+ del itm
+ elif val.ndim == 1:
+ for i in range(val.shape[0]):
+ itm = listbase.addChildNode(six.b('ListItem'))
+ itm.addAttribute(< string > six.b('index'), < float32 > index)
+ itm.addAttribute(< string > six.b('value'), < float32 > val[i])
+ index += 1
+ del itm
+ else:
+ raise Exception("Only 1 or 2 dimensions are allowed")
+ del listbase
+ else:
+ node.addOption(item, wrap_to_bytes(val))
+
+cdef vectorToNumpy(vector[float32] inp):
+ cdef int i
+ cdef int sz = inp.size()
+ ret = np.empty(sz)
+ for i in range(sz):
+ ret[i] = inp[i]
+ return ret
+
+cdef XMLNode2dict(XMLNode * node):
+ cdef XMLNode * subnode
+ cdef list[XMLNode * ] nodes
+ cdef list[XMLNode * ].iterator it
+ dct = {}
+ if node.hasAttribute(six.b('type')):
+ dct['type'] = node.getAttribute(six.b('type'))
+ nodes = node.getNodes()
+ it = nodes.begin()
+ while it != nodes.end():
+ subnode = deref(it)
+ if subnode.hasAttribute(six.b('listsize')):
+ dct[subnode.getName(
+ )] = vectorToNumpy(subnode.getContentNumericalArray())
+ else:
+ dct[subnode.getName()] = subnode.getContent()
+ del subnode
+ return dct
+
+cdef XML2dict(XMLDocument * xml):
+ cdef XMLNode * node = xml.getRootNode()
+ dct = XMLNode2dict(node)
+ del node;
+ return dct;
+
+cdef createProjectionGeometryStruct(CProjectionGeometry2D * geom):
+ cdef int i
+ cdef CFanFlatVecProjectionGeometry2D * fanvecGeom
+ # cdef SFanProjection* p
+ dct = {}
+ dct['DetectorCount'] = geom.getDetectorCount()
+ if not geom.isOfType(< string > six.b('fanflat_vec')):
+ dct['DetectorWidth'] = geom.getDetectorWidth()
+ angles = np.empty(geom.getProjectionAngleCount())
+ for i in range(geom.getProjectionAngleCount()):
+ angles[i] = geom.getProjectionAngle(i)
+ dct['ProjectionAngles'] = angles
+ else:
+ raise Exception("Not yet implemented")
+ # fanvecGeom = <CFanFlatVecProjectionGeometry2D*> geom
+ # vecs = np.empty(fanvecGeom.getProjectionAngleCount()*6)
+ # iDetCount = pVecGeom.getDetectorCount()
+ # for i in range(fanvecGeom.getProjectionAngleCount()):
+ # p = &fanvecGeom.getProjectionVectors()[i];
+ # out[6*i + 0] = p.fSrcX
+ # out[6*i + 1] = p.fSrcY
+ # out[6*i + 2] = p.fDetSX + 0.5f*iDetCount*p.fDetUX
+ # out[6*i + 3] = p.fDetSY + 0.5f*iDetCount*p.fDetUY
+ # out[6*i + 4] = p.fDetUX
+ # out[6*i + 5] = p.fDetUY
+ # dct['Vectors'] = vecs
+ if (geom.isOfType(< string > six.b('parallel'))):
+ dct["type"] = "parallel"
+ elif (geom.isOfType(< string > six.b('fanflat'))):
+ raise Exception("Not yet implemented")
+ # astra::CFanFlatProjectionGeometry2D* pFanFlatGeom = dynamic_cast<astra::CFanFlatProjectionGeometry2D*>(_pProjGeom)
+ # mGeometryInfo["DistanceOriginSource"] = mxCreateDoubleScalar(pFanFlatGeom->getOriginSourceDistance())
+ # mGeometryInfo["DistanceOriginDetector"] =
+ # mxCreateDoubleScalar(pFanFlatGeom->getOriginDetectorDistance())
+ dct["type"] = "fanflat"
+ elif (geom.isOfType(< string > six.b('sparse_matrix'))):
+ raise Exception("Not yet implemented")
+ # astra::CSparseMatrixProjectionGeometry2D* pSparseMatrixGeom =
+ # dynamic_cast<astra::CSparseMatrixProjectionGeometry2D*>(_pProjGeom);
+ dct["type"] = "sparse_matrix"
+ # dct["MatrixID"] =
+ # mxCreateDoubleScalar(CMatrixManager::getSingleton().getIndex(pSparseMatrixGeom->getMatrix()))
+ elif(geom.isOfType(< string > six.b('fanflat_vec'))):
+ dct["type"] = "fanflat_vec"
+ return dct
+
+cdef createVolumeGeometryStruct(CVolumeGeometry2D * geom):
+ mGeometryInfo = {}
+ mGeometryInfo["GridColCount"] = geom.getGridColCount()
+ mGeometryInfo["GridRowCount"] = geom.getGridRowCount()
+
+ mGeometryOptions = {}
+ mGeometryOptions["WindowMinX"] = geom.getWindowMinX()
+ mGeometryOptions["WindowMaxX"] = geom.getWindowMaxX()
+ mGeometryOptions["WindowMinY"] = geom.getWindowMinY()
+ mGeometryOptions["WindowMaxY"] = geom.getWindowMaxY()
+
+ mGeometryInfo["option"] = mGeometryOptions
+ return mGeometryInfo
diff --git a/python/builder.py b/python/builder.py
new file mode 100644
index 0000000..bdfd092
--- /dev/null
+++ b/python/builder.py
@@ -0,0 +1,70 @@
+#-----------------------------------------------------------------------
+#Copyright 2013 Centrum Wiskunde & Informatica, Amsterdam
+#
+#Author: Daniel M. Pelt
+#Contact: D.M.Pelt@cwi.nl
+#Website: http://dmpelt.github.io/pyastratoolbox/
+#
+#
+#This file is part of the Python interface to the
+#All Scale Tomographic Reconstruction Antwerp Toolbox ("ASTRA Toolbox").
+#
+#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify
+#it under the terms of the GNU General Public License as published by
+#the Free Software Foundation, either version 3 of the License, or
+#(at your option) any later version.
+#
+#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,
+#but WITHOUT ANY WARRANTY; without even the implied warranty of
+#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+#GNU General Public License for more details.
+#
+#You should have received a copy of the GNU General Public License
+#along with the Python interface to the ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.
+#
+#-----------------------------------------------------------------------
+import sys
+import os
+import numpy as np
+
+from distutils.version import LooseVersion
+from distutils.core import setup
+from distutils.extension import Extension
+
+from Cython.Distutils import build_ext
+from Cython.Build import cythonize
+import Cython
+if LooseVersion(Cython.__version__)<LooseVersion('0.13'): raise ImportError("Cython version should be at least 0.13")
+usecuda=False
+try:
+ if os.environ['CPPFLAGS'].find('-DASTRA_CUDA')!=-1:
+ usecuda=True
+except KeyError:
+ pass
+cfg = open('astra/config.pxi','w')
+cfg.write('DEF HAVE_CUDA=' + str(usecuda) + "\n")
+cfg.close()
+
+cmdclass = { }
+ext_modules = [ ]
+
+language_level = 3 if int(sys.version[0]) > 2 else 2
+ext_modules = cythonize("astra/*.pyx", language_level=language_level)
+cmdclass = { 'build_ext': build_ext }
+
+setup (name = 'PyASTRAToolbox',
+ version = '1.6',
+ description = 'Python interface to the ASTRA-Toolbox',
+ author='D.M. Pelt',
+ author_email='D.M.Pelt@cwi.nl',
+ url='http://dmpelt.github.io/pyastratoolbox/',
+ #ext_package='astra',
+ #ext_modules = cythonize(Extension("astra/*.pyx",extra_compile_args=extra_compile_args,extra_linker_args=extra_compile_args)),
+ license='GPLv3',
+ ext_modules = ext_modules,
+ include_dirs=[np.get_include()],
+ cmdclass = cmdclass,
+ #ext_modules = [Extension("astra","astra/astra.pyx")],
+ packages=['astra'],
+ requires=["numpy"],
+ )
diff --git a/python/doc b/python/doc
new file mode 120000
index 0000000..3705b55
--- /dev/null
+++ b/python/doc
@@ -0,0 +1 @@
+docSRC/_build/html \ No newline at end of file
diff --git a/python/docSRC/ASTRAProjector.rst b/python/docSRC/ASTRAProjector.rst
new file mode 100644
index 0000000..1c267e3
--- /dev/null
+++ b/python/docSRC/ASTRAProjector.rst
@@ -0,0 +1,8 @@
+Helper class: the :mod:`ASTRAProjector` module
+==============================================
+
+.. automodule:: astra.ASTRAProjector
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/Makefile b/python/docSRC/Makefile
new file mode 100644
index 0000000..a005bab
--- /dev/null
+++ b/python/docSRC/Makefile
@@ -0,0 +1,153 @@
+# Makefile for Sphinx documentation
+#
+
+# You can set these variables from the command line.
+SPHINXOPTS =
+SPHINXBUILD = sphinx-build
+PAPER =
+BUILDDIR = _build
+
+# Internal variables.
+PAPEROPT_a4 = -D latex_paper_size=a4
+PAPEROPT_letter = -D latex_paper_size=letter
+ALLSPHINXOPTS = -d $(BUILDDIR)/doctrees $(PAPEROPT_$(PAPER)) $(SPHINXOPTS) .
+# the i18n builder cannot share the environment and doctrees with the others
+I18NSPHINXOPTS = $(PAPEROPT_$(PAPER)) $(SPHINXOPTS) .
+
+.PHONY: help clean html dirhtml singlehtml pickle json htmlhelp qthelp devhelp epub latex latexpdf text man changes linkcheck doctest gettext
+
+help:
+ @echo "Please use \`make <target>' where <target> is one of"
+ @echo " html to make standalone HTML files"
+ @echo " dirhtml to make HTML files named index.html in directories"
+ @echo " singlehtml to make a single large HTML file"
+ @echo " pickle to make pickle files"
+ @echo " json to make JSON files"
+ @echo " htmlhelp to make HTML files and a HTML help project"
+ @echo " qthelp to make HTML files and a qthelp project"
+ @echo " devhelp to make HTML files and a Devhelp project"
+ @echo " epub to make an epub"
+ @echo " latex to make LaTeX files, you can set PAPER=a4 or PAPER=letter"
+ @echo " latexpdf to make LaTeX files and run them through pdflatex"
+ @echo " text to make text files"
+ @echo " man to make manual pages"
+ @echo " texinfo to make Texinfo files"
+ @echo " info to make Texinfo files and run them through makeinfo"
+ @echo " gettext to make PO message catalogs"
+ @echo " changes to make an overview of all changed/added/deprecated items"
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+
+clean:
+ -rm -rf $(BUILDDIR)/*
+
+html:
+ $(SPHINXBUILD) -b html $(ALLSPHINXOPTS) $(BUILDDIR)/html
+ @echo
+ @echo "Build finished. The HTML pages are in $(BUILDDIR)/html."
+
+dirhtml:
+ $(SPHINXBUILD) -b dirhtml $(ALLSPHINXOPTS) $(BUILDDIR)/dirhtml
+ @echo
+ @echo "Build finished. The HTML pages are in $(BUILDDIR)/dirhtml."
+
+singlehtml:
+ $(SPHINXBUILD) -b singlehtml $(ALLSPHINXOPTS) $(BUILDDIR)/singlehtml
+ @echo
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+
+pickle:
+ $(SPHINXBUILD) -b pickle $(ALLSPHINXOPTS) $(BUILDDIR)/pickle
+ @echo
+ @echo "Build finished; now you can process the pickle files."
+
+json:
+ $(SPHINXBUILD) -b json $(ALLSPHINXOPTS) $(BUILDDIR)/json
+ @echo
+ @echo "Build finished; now you can process the JSON files."
+
+htmlhelp:
+ $(SPHINXBUILD) -b htmlhelp $(ALLSPHINXOPTS) $(BUILDDIR)/htmlhelp
+ @echo
+ @echo "Build finished; now you can run HTML Help Workshop with the" \
+ ".hhp project file in $(BUILDDIR)/htmlhelp."
+
+qthelp:
+ $(SPHINXBUILD) -b qthelp $(ALLSPHINXOPTS) $(BUILDDIR)/qthelp
+ @echo
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+ ".qhcp project file in $(BUILDDIR)/qthelp, like this:"
+ @echo "# qcollectiongenerator $(BUILDDIR)/qthelp/.qhcp"
+ @echo "To view the help file:"
+ @echo "# assistant -collectionFile $(BUILDDIR)/qthelp/.qhc"
+
+devhelp:
+ $(SPHINXBUILD) -b devhelp $(ALLSPHINXOPTS) $(BUILDDIR)/devhelp
+ @echo
+ @echo "Build finished."
+ @echo "To view the help file:"
+ @echo "# mkdir -p $$HOME/.local/share/devhelp/"
+ @echo "# ln -s $(BUILDDIR)/devhelp $$HOME/.local/share/devhelp/"
+ @echo "# devhelp"
+
+epub:
+ $(SPHINXBUILD) -b epub $(ALLSPHINXOPTS) $(BUILDDIR)/epub
+ @echo
+ @echo "Build finished. The epub file is in $(BUILDDIR)/epub."
+
+latex:
+ $(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) $(BUILDDIR)/latex
+ @echo
+ @echo "Build finished; the LaTeX files are in $(BUILDDIR)/latex."
+ @echo "Run \`make' in that directory to run these through (pdf)latex" \
+ "(use \`make latexpdf' here to do that automatically)."
+
+latexpdf:
+ $(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) $(BUILDDIR)/latex
+ @echo "Running LaTeX files through pdflatex..."
+ $(MAKE) -C $(BUILDDIR)/latex all-pdf
+ @echo "pdflatex finished; the PDF files are in $(BUILDDIR)/latex."
+
+text:
+ $(SPHINXBUILD) -b text $(ALLSPHINXOPTS) $(BUILDDIR)/text
+ @echo
+ @echo "Build finished. The text files are in $(BUILDDIR)/text."
+
+man:
+ $(SPHINXBUILD) -b man $(ALLSPHINXOPTS) $(BUILDDIR)/man
+ @echo
+ @echo "Build finished. The manual pages are in $(BUILDDIR)/man."
+
+texinfo:
+ $(SPHINXBUILD) -b texinfo $(ALLSPHINXOPTS) $(BUILDDIR)/texinfo
+ @echo
+ @echo "Build finished. The Texinfo files are in $(BUILDDIR)/texinfo."
+ @echo "Run \`make' in that directory to run these through makeinfo" \
+ "(use \`make info' here to do that automatically)."
+
+info:
+ $(SPHINXBUILD) -b texinfo $(ALLSPHINXOPTS) $(BUILDDIR)/texinfo
+ @echo "Running Texinfo files through makeinfo..."
+ make -C $(BUILDDIR)/texinfo info
+ @echo "makeinfo finished; the Info files are in $(BUILDDIR)/texinfo."
+
+gettext:
+ $(SPHINXBUILD) -b gettext $(I18NSPHINXOPTS) $(BUILDDIR)/locale
+ @echo
+ @echo "Build finished. The message catalogs are in $(BUILDDIR)/locale."
+
+changes:
+ $(SPHINXBUILD) -b changes $(ALLSPHINXOPTS) $(BUILDDIR)/changes
+ @echo
+ @echo "The overview file is in $(BUILDDIR)/changes."
+
+linkcheck:
+ $(SPHINXBUILD) -b linkcheck $(ALLSPHINXOPTS) $(BUILDDIR)/linkcheck
+ @echo
+ @echo "Link check complete; look for any errors in the above output " \
+ "or in $(BUILDDIR)/linkcheck/output.txt."
+
+doctest:
+ $(SPHINXBUILD) -b doctest $(ALLSPHINXOPTS) $(BUILDDIR)/doctest
+ @echo "Testing of doctests in the sources finished, look at the " \
+ "results in $(BUILDDIR)/doctest/output.txt."
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+# Sphinx build info version 1
+# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
+config: 613726d7ead289eb5bc59a5d50e806e0
+tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/python/docSRC/_build/html/ASTRAProjector.html b/python/docSRC/_build/html/ASTRAProjector.html
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+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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+<html xmlns="http://www.w3.org/1999/xhtml">
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+ <title>Helper class: the ASTRAProjector module &mdash; PyASTRAToolbox 1.6 documentation</title>
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+ <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
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+
+ <div class="section" id="module-astra.ASTRAProjector">
+<span id="helper-class-the-astraprojector-module"></span><h1>Helper class: the <tt class="xref py py-mod docutils literal"><span class="pre">ASTRAProjector</span></tt> module<a class="headerlink" href="#module-astra.ASTRAProjector" title="Permalink to this headline">¶</a></h1>
+<dl class="class">
+<dt id="astra.ASTRAProjector.ASTRAProjector2D">
+<em class="property">class </em><tt class="descclassname">astra.ASTRAProjector.</tt><tt class="descname">ASTRAProjector2D</tt><big>(</big><em>proj_geom</em>, <em>vol_geom</em>, <em>proj_type</em>, <em>useCUDA=False</em><big>)</big><a class="reference internal" href="_modules/astra/ASTRAProjector.html#ASTRAProjector2D"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.ASTRAProjector.ASTRAProjector2D" title="Permalink to this definition">¶</a></dt>
+<dd><p>Bases: <tt class="xref py py-class docutils literal"><span class="pre">builtins.object</span></tt></p>
+<p>Helps with various common ASTRA Toolbox 2D operations.</p>
+<p>This class can perform several often used toolbox operations, such as:</p>
+<ul class="simple">
+<li>Forward projecting</li>
+<li>Back projecting</li>
+<li>Reconstructing</li>
+</ul>
+<p>Note that this class has a some computational overhead, because it
+copies a lot of data. If you use many repeated operations, directly
+using the PyAstraToolbox methods directly is faster.</p>
+<p>You can use this class as an abstracted weight matrix <span class="math">\(W\)</span>: multiplying an instance
+<tt class="docutils literal"><span class="pre">proj</span></tt> of this class by an image results in a forward projection of the image, and multiplying
+<tt class="docutils literal"><span class="pre">proj.T</span></tt> by a sinogram results in a backprojection of the sinogram:</p>
+<div class="highlight-python"><div class="highlight"><pre><span class="n">proj</span> <span class="o">=</span> <span class="n">ASTRAProjector2D</span><span class="p">(</span><span class="o">...</span><span class="p">)</span>
+<span class="n">fp</span> <span class="o">=</span> <span class="n">proj</span><span class="o">*</span><span class="n">image</span>
+<span class="n">bp</span> <span class="o">=</span> <span class="n">proj</span><span class="o">.</span><span class="n">T</span><span class="o">*</span><span class="n">sinogram</span>
+</pre></div>
+</div>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
+<li><strong>proj_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; The projection geometry.</li>
+<li><strong>vol_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; The volume geometry.</li>
+<li><strong>proj_type</strong> (<tt class="xref py py-class docutils literal"><span class="pre">string</span></tt>) &#8211; Projector type, such as <tt class="docutils literal"><span class="pre">'line'</span></tt>, <tt class="docutils literal"><span class="pre">'linear'</span></tt>, ...</li>
+<li><strong>useCUDA</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If <tt class="docutils literal"><span class="pre">True</span></tt>, use CUDA for calculations, when possible.</li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+<dl class="method">
+<dt id="astra.ASTRAProjector.ASTRAProjector2D.backProject">
+<tt class="descname">backProject</tt><big>(</big><em>data</em><big>)</big><a class="reference internal" href="_modules/astra/ASTRAProjector.html#ASTRAProjector2D.backProject"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.ASTRAProjector.ASTRAProjector2D.backProject" title="Permalink to this definition">¶</a></dt>
+<dd><p>Backproject a sinogram.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>data</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; The sinogram data or ID.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The backprojection.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="method">
+<dt id="astra.ASTRAProjector.ASTRAProjector2D.forwardProject">
+<tt class="descname">forwardProject</tt><big>(</big><em>data</em><big>)</big><a class="reference internal" href="_modules/astra/ASTRAProjector.html#ASTRAProjector2D.forwardProject"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.ASTRAProjector.ASTRAProjector2D.forwardProject" title="Permalink to this definition">¶</a></dt>
+<dd><p>Forward project an image.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>data</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; The image data or ID.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The forward projection.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="method">
+<dt id="astra.ASTRAProjector.ASTRAProjector2D.reconstruct">
+<tt class="descname">reconstruct</tt><big>(</big><em>data</em>, <em>method</em>, <em>**kwargs</em><big>)</big><a class="reference internal" href="_modules/astra/ASTRAProjector.html#ASTRAProjector2D.reconstruct"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.ASTRAProjector.ASTRAProjector2D.reconstruct" title="Permalink to this definition">¶</a></dt>
+<dd><p>Reconstruct an image from a sinogram.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>data</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; The sinogram data or ID.</li>
+<li><strong>method</strong> (<tt class="xref py py-class docutils literal"><span class="pre">string</span></tt>) &#8211; Name of the reconstruction algorithm.</li>
+<li><strong>kwargs</strong> &#8211; Additional named parameters to pass to <a class="reference internal" href="creators.html#astra.creators.create_reconstruction" title="astra.creators.create_reconstruction"><tt class="xref py py-func docutils literal"><span class="pre">astra.creators.create_reconstruction()</span></tt></a>.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The reconstruction.</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p>Example of a SIRT reconstruction using CUDA:</p>
+<div class="highlight-python"><div class="highlight"><pre><span class="n">proj</span> <span class="o">=</span> <span class="n">ASTRAProjector2D</span><span class="p">(</span><span class="o">...</span><span class="p">)</span>
+<span class="n">rec</span> <span class="o">=</span> <span class="n">proj</span><span class="o">.</span><span class="n">reconstruct</span><span class="p">(</span><span class="n">sinogram</span><span class="p">,</span><span class="s">&#39;SIRT_CUDA&#39;</span><span class="p">,</span><span class="n">iterations</span><span class="o">=</span><span class="mi">1000</span><span class="p">)</span>
+</pre></div>
+</div>
+</dd></dl>
+
+</dd></dl>
+
+<dl class="class">
+<dt id="astra.ASTRAProjector.ASTRAProjector2DTranspose">
+<em class="property">class </em><tt class="descclassname">astra.ASTRAProjector.</tt><tt class="descname">ASTRAProjector2DTranspose</tt><big>(</big><em>parentProj</em><big>)</big><a class="reference internal" href="_modules/astra/ASTRAProjector.html#ASTRAProjector2DTranspose"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.ASTRAProjector.ASTRAProjector2DTranspose" title="Permalink to this definition">¶</a></dt>
+<dd><p>Bases: <tt class="xref py py-class docutils literal"><span class="pre">builtins.object</span></tt></p>
+<p>Implements the <tt class="docutils literal"><span class="pre">proj.T</span></tt> functionality.</p>
+<p>Do not use directly, since it can be accessed as member <tt class="docutils literal"><span class="pre">.T</span></tt> of
+an <a class="reference internal" href="#astra.ASTRAProjector.ASTRAProjector2D" title="astra.ASTRAProjector.ASTRAProjector2D"><tt class="xref py py-class docutils literal"><span class="pre">ASTRAProjector2D</span></tt></a> object.</p>
+</dd></dl>
+
+</div>
+
+
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+ </div>
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+ <h1>Source code for astra.ASTRAProjector</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+
+<span class="kn">import</span> <span class="nn">math</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">creators</span> <span class="k">as</span> <span class="n">ac</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data2d</span>
+
+
+<div class="viewcode-block" id="ASTRAProjector2DTranspose"><a class="viewcode-back" href="../../ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2DTranspose">[docs]</a><span class="k">class</span> <span class="nc">ASTRAProjector2DTranspose</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Implements the ``proj.T`` functionality.</span>
+
+<span class="sd"> Do not use directly, since it can be accessed as member ``.T`` of</span>
+<span class="sd"> an :class:`ASTRAProjector2D` object.</span>
+
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">def</span> <span class="nf">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">parentProj</span><span class="p">):</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">parentProj</span> <span class="o">=</span> <span class="n">parentProj</span>
+
+ <span class="k">def</span> <span class="nf">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data</span><span class="p">):</span>
+ <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">parentProj</span><span class="o">.</span><span class="n">backProject</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="ASTRAProjector2D"><a class="viewcode-back" href="../../ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2D">[docs]</a><span class="k">class</span> <span class="nc">ASTRAProjector2D</span><span class="p">(</span><span class="nb">object</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Helps with various common ASTRA Toolbox 2D operations.</span>
+
+<span class="sd"> This class can perform several often used toolbox operations, such as:</span>
+
+<span class="sd"> * Forward projecting</span>
+<span class="sd"> * Back projecting</span>
+<span class="sd"> * Reconstructing</span>
+
+<span class="sd"> Note that this class has a some computational overhead, because it</span>
+<span class="sd"> copies a lot of data. If you use many repeated operations, directly</span>
+<span class="sd"> using the PyAstraToolbox methods directly is faster.</span>
+
+<span class="sd"> You can use this class as an abstracted weight matrix :math:`W`: multiplying an instance</span>
+<span class="sd"> ``proj`` of this class by an image results in a forward projection of the image, and multiplying</span>
+<span class="sd"> ``proj.T`` by a sinogram results in a backprojection of the sinogram::</span>
+
+<span class="sd"> proj = ASTRAProjector2D(...)</span>
+<span class="sd"> fp = proj*image</span>
+<span class="sd"> bp = proj.T*sinogram</span>
+
+<span class="sd"> :param proj_geom: The projection geometry.</span>
+<span class="sd"> :type proj_geom: :class:`dict`</span>
+<span class="sd"> :param vol_geom: The volume geometry.</span>
+<span class="sd"> :type vol_geom: :class:`dict`</span>
+<span class="sd"> :param proj_type: Projector type, such as ``&#39;line&#39;``, ``&#39;linear&#39;``, ...</span>
+<span class="sd"> :type proj_type: :class:`string`</span>
+<span class="sd"> :param useCUDA: If ``True``, use CUDA for calculations, when possible.</span>
+<span class="sd"> :type useCUDA: :class:`bool`</span>
+<span class="sd"> &quot;&quot;&quot;</span>
+
+ <span class="k">def</span> <span class="nf">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="n">proj_type</span><span class="p">,</span> <span class="n">useCUDA</span><span class="o">=</span><span class="bp">False</span><span class="p">):</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">vol_geom</span> <span class="o">=</span> <span class="n">vol_geom</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">recSize</span> <span class="o">=</span> <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">angles</span> <span class="o">=</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">]</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">nDet</span> <span class="o">=</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorCount&#39;</span><span class="p">]</span>
+ <span class="n">nexpow</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">pow</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="n">math</span><span class="o">.</span><span class="n">ceil</span><span class="p">(</span><span class="n">math</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">nDet</span><span class="p">,</span> <span class="mi">2</span><span class="p">))))</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">filterSize</span> <span class="o">=</span> <span class="n">nexpow</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">+</span> <span class="mi">1</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">nProj</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">angles</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">proj_geom</span> <span class="o">=</span> <span class="n">proj_geom</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">proj_id</span> <span class="o">=</span> <span class="n">ac</span><span class="o">.</span><span class="n">create_projector</span><span class="p">(</span><span class="n">proj_type</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">)</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">useCUDA</span> <span class="o">=</span> <span class="n">useCUDA</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">=</span> <span class="n">ASTRAProjector2DTranspose</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span>
+
+<div class="viewcode-block" id="ASTRAProjector2D.backProject"><a class="viewcode-back" href="../../ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2D.backProject">[docs]</a> <span class="k">def</span> <span class="nf">backProject</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Backproject a sinogram.</span>
+
+<span class="sd"> :param data: The sinogram data or ID.</span>
+<span class="sd"> :type data: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The backprojection.</span>
+
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="n">vol_id</span><span class="p">,</span> <span class="n">vol</span> <span class="o">=</span> <span class="n">ac</span><span class="o">.</span><span class="n">create_backprojection</span><span class="p">(</span>
+ <span class="n">data</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">proj_id</span><span class="p">,</span> <span class="n">useCUDA</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">useCUDA</span><span class="p">,</span> <span class="n">returnData</span><span class="o">=</span><span class="bp">True</span><span class="p">)</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">vol_id</span><span class="p">)</span>
+ <span class="k">return</span> <span class="n">vol</span>
+</div>
+<div class="viewcode-block" id="ASTRAProjector2D.forwardProject"><a class="viewcode-back" href="../../ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2D.forwardProject">[docs]</a> <span class="k">def</span> <span class="nf">forwardProject</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Forward project an image.</span>
+
+<span class="sd"> :param data: The image data or ID.</span>
+<span class="sd"> :type data: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The forward projection.</span>
+
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="n">sin_id</span><span class="p">,</span> <span class="n">sino</span> <span class="o">=</span> <span class="n">ac</span><span class="o">.</span><span class="n">create_sino</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">proj_id</span><span class="p">,</span> <span class="n">useCUDA</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">useCUDA</span><span class="p">,</span> <span class="n">returnData</span><span class="o">=</span><span class="bp">True</span><span class="p">)</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">sin_id</span><span class="p">)</span>
+ <span class="k">return</span> <span class="n">sino</span>
+</div>
+<div class="viewcode-block" id="ASTRAProjector2D.reconstruct"><a class="viewcode-back" href="../../ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2D.reconstruct">[docs]</a> <span class="k">def</span> <span class="nf">reconstruct</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> <span class="n">method</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Reconstruct an image from a sinogram.</span>
+
+<span class="sd"> :param data: The sinogram data or ID.</span>
+<span class="sd"> :type data: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd"> :param method: Name of the reconstruction algorithm.</span>
+<span class="sd"> :type method: :class:`string`</span>
+<span class="sd"> :param kwargs: Additional named parameters to pass to :func:`astra.creators.create_reconstruction`.</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The reconstruction.</span>
+
+<span class="sd"> Example of a SIRT reconstruction using CUDA::</span>
+
+<span class="sd"> proj = ASTRAProjector2D(...)</span>
+<span class="sd"> rec = proj.reconstruct(sinogram,&#39;SIRT_CUDA&#39;,iterations=1000)</span>
+
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="n">kwargs</span><span class="p">[</span><span class="s">&#39;returnData&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="bp">True</span>
+ <span class="n">rec_id</span><span class="p">,</span> <span class="n">rec</span> <span class="o">=</span> <span class="n">ac</span><span class="o">.</span><span class="n">create_reconstruction</span><span class="p">(</span>
+ <span class="n">method</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">proj_id</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">rec_id</span><span class="p">)</span>
+ <span class="k">return</span> <span class="n">rec</span>
+</div>
+ <span class="k">def</span> <span class="nf">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data</span><span class="p">):</span>
+ <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">forwardProject</span><span class="p">(</span><span class="n">data</span><span class="p">)</span></div>
+</pre></div>
+
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+
+ <h1>Source code for astra.algorithm</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">algorithm_c</span> <span class="k">as</span> <span class="n">a</span>
+
+<div class="viewcode-block" id="create"><a class="viewcode-back" href="../../algorithm.html#astra.algorithm.create">[docs]</a><span class="k">def</span> <span class="nf">create</span><span class="p">(</span><span class="n">config</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create algorithm object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param config: Algorithm options.</span>
+<span class="sd"> :type config: :class:`dict`</span>
+<span class="sd"> :returns: :class:`int` -- the ID of the constructed object.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">config</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="run"><a class="viewcode-back" href="../../algorithm.html#astra.algorithm.run">[docs]</a><span class="k">def</span> <span class="nf">run</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">iterations</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Run an algorithm.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :param iterations: Number of iterations to run.</span>
+<span class="sd"> :type iterations: :class:`int`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="n">i</span><span class="p">,</span><span class="n">iterations</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="get_res_norm"><a class="viewcode-back" href="../../algorithm.html#astra.algorithm.get_res_norm">[docs]</a><span class="k">def</span> <span class="nf">get_res_norm</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get residual norm of algorithm.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`float` -- The residual norm.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">get_res_norm</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+ </div>
+<div class="viewcode-block" id="delete"><a class="viewcode-back" href="../../algorithm.html#astra.algorithm.delete">[docs]</a><span class="k">def</span> <span class="nf">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Delete a matrix object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param ids: ID or list of ID&#39;s to delete.</span>
+<span class="sd"> :type ids: :class:`int` or :class:`list`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="clear"><a class="viewcode-back" href="../../algorithm.html#astra.algorithm.clear">[docs]</a><span class="k">def</span> <span class="nf">clear</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Clear all matrix objects.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+</div>
+<div class="viewcode-block" id="info"><a class="viewcode-back" href="../../algorithm.html#astra.algorithm.info">[docs]</a><span class="k">def</span> <span class="nf">info</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Print info on matrix objects in memory.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">info</span><span class="p">()</span></div>
+</pre></div>
+
+ </div>
+ </div>
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+ Enter search terms or a module, class or function name.
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+ (function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
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diff --git a/python/docSRC/_build/html/_modules/astra/astra.html b/python/docSRC/_build/html/_modules/astra/astra.html
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+
+ <h1>Source code for astra.astra</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">astra_c</span> <span class="k">as</span> <span class="n">a</span>
+
+<div class="viewcode-block" id="credits"><a class="viewcode-back" href="../../astra.html#astra.astra.credits">[docs]</a><span class="k">def</span> <span class="nf">credits</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Print credits of the ASTRA Toolbox.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">credits</span><span class="p">()</span>
+
+</div>
+<div class="viewcode-block" id="use_cuda"><a class="viewcode-back" href="../../astra.html#astra.astra.use_cuda">[docs]</a><span class="k">def</span> <span class="nf">use_cuda</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Test if CUDA is enabled.</span>
+<span class="sd"> </span>
+<span class="sd"> :returns: :class:`bool` -- ``True`` if CUDA is enabled.</span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">use_cuda</span><span class="p">()</span>
+
+</div>
+<div class="viewcode-block" id="version"><a class="viewcode-back" href="../../astra.html#astra.astra.version">[docs]</a><span class="k">def</span> <span class="nf">version</span><span class="p">(</span><span class="n">printToScreen</span><span class="o">=</span><span class="bp">False</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Check version of the ASTRA Toolbox.</span>
+<span class="sd"> </span>
+<span class="sd"> :param printToScreen: If ``True``, print version string. If ``False``, return version integer.</span>
+<span class="sd"> :type printToScreen: :class:`bool`</span>
+<span class="sd"> :returns: :class:`string` or :class:`int` -- The version string or integer.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">a</span><span class="o">.</span><span class="n">version</span><span class="p">(</span><span class="n">printToScreen</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="set_gpu_index"><a class="viewcode-back" href="../../astra.html#astra.astra.set_gpu_index">[docs]</a><span class="k">def</span> <span class="nf">set_gpu_index</span><span class="p">(</span><span class="n">idx</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Set default GPU index to use.</span>
+<span class="sd"> </span>
+<span class="sd"> :param idx: GPU index</span>
+<span class="sd"> :type idx: :class:`int`</span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="n">a</span><span class="o">.</span><span class="n">set_gpu_index</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span></div>
+</pre></div>
+
+ </div>
+ </div>
+ </div>
+ <div class="sphinxsidebar">
+ <div class="sphinxsidebarwrapper">
+<div id="searchbox" style="display: none">
+ <h3>Quick search</h3>
+ <form class="search" action="../../search.html" method="get">
+ <input type="text" name="q" />
+ <input type="submit" value="Go" />
+ <input type="hidden" name="check_keywords" value="yes" />
+ <input type="hidden" name="area" value="default" />
+ </form>
+ <p class="searchtip" style="font-size: 90%">
+ Enter search terms or a module, class or function name.
+ </p>
+</div>
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+ Created using <a href="http://sphinx-doc.org/">Sphinx</a> 1.2.3.
+ </div>
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+ (function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
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+ m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m)
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+ ga('send', 'pageview');
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+</script>
+
+ </body>
+</html> \ No newline at end of file
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+ <div class="bodywrapper">
+ <div class="body">
+
+ <h1>Source code for astra.creators</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+
+<span class="kn">import</span> <span class="nn">six</span>
+<span class="kn">import</span> <span class="nn">numpy</span> <span class="kn">as</span> <span class="nn">np</span>
+<span class="kn">import</span> <span class="nn">math</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data2d</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data3d</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">projector</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">algorithm</span>
+
+<div class="viewcode-block" id="astra_dict"><a class="viewcode-back" href="../../creators.html#astra.creators.astra_dict">[docs]</a><span class="k">def</span> <span class="nf">astra_dict</span><span class="p">(</span><span class="n">intype</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Creates a dict to use with the ASTRA Toolbox.</span>
+<span class="sd"> </span>
+<span class="sd"> :param intype: Type of the ASTRA object.</span>
+<span class="sd"> :type intype: :class:`string`</span>
+<span class="sd"> :returns: :class:`dict` -- An ASTRA dict of type ``intype``.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">if</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;SIRT_CUDA2&#39;</span><span class="p">:</span>
+ <span class="n">intype</span> <span class="o">=</span> <span class="s">&#39;SIRT_CUDA&#39;</span>
+ <span class="n">six</span><span class="o">.</span><span class="n">print_</span><span class="p">(</span><span class="s">&#39;SIRT_CUDA2 has been deprecated. Use SIRT_CUDA instead.&#39;</span><span class="p">)</span>
+ <span class="k">elif</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;FP_CUDA2&#39;</span><span class="p">:</span>
+ <span class="n">intype</span> <span class="o">=</span> <span class="s">&#39;FP_CUDA&#39;</span>
+ <span class="n">six</span><span class="o">.</span><span class="n">print_</span><span class="p">(</span><span class="s">&#39;FP_CUDA2 has been deprecated. Use FP_CUDA instead.&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span> <span class="n">intype</span><span class="p">}</span>
+</div>
+<div class="viewcode-block" id="create_vol_geom"><a class="viewcode-back" href="../../creators.html#astra.creators.create_vol_geom">[docs]</a><span class="k">def</span> <span class="nf">create_vol_geom</span><span class="p">(</span><span class="o">*</span><span class="n">varargin</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a volume geometry structure.</span>
+
+<span class="sd">This method can be called in a number of ways:</span>
+
+<span class="sd">``create_vol_geom(N)``:</span>
+<span class="sd"> :returns: A 2D volume geometry of size :math:`N \\times N`.</span>
+
+<span class="sd">``create_vol_geom((M, N))``:</span>
+<span class="sd"> :returns: A 2D volume geometry of size :math:`M \\times N`.</span>
+
+<span class="sd">``create_vol_geom(M, N)``:</span>
+<span class="sd"> :returns: A 2D volume geometry of size :math:`M \\times N`.</span>
+
+<span class="sd">``create_vol_geom(M, N, minx, maxx, miny, maxy)``:</span>
+<span class="sd"> :returns: A 2D volume geometry of size :math:`M \\times N`, windowed as :math:`minx \\leq x \\leq maxx` and :math:`miny \\leq y \\leq maxy`.</span>
+
+<span class="sd">``create_vol_geom((M, N, Z))``:</span>
+<span class="sd"> :returns: A 3D volume geometry of size :math:`M \\times N \\times Z`.</span>
+
+<span class="sd">``create_vol_geom(M, N, Z)``:</span>
+<span class="sd"> :returns: A 3D volume geometry of size :math:`M \\times N \\times Z`.</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+ <span class="n">vol_geom</span> <span class="o">=</span> <span class="p">{</span><span class="s">&#39;option&#39;</span><span class="p">:</span> <span class="p">{}}</span>
+ <span class="c"># astra_create_vol_geom(row_count)</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">varargin</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">int</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="c"># astra_create_vol_geom([row_count col_count])</span>
+ <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="n">varargin</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="c"># astra_create_vol_geom([row_count col_count slice_count])</span>
+ <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="n">varargin</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">==</span> <span class="mi">3</span><span class="p">:</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridSliceCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">2</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinZ&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">2</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxZ&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">2</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="c"># astra_create_vol_geom(row_count, col_count)</span>
+ <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="n">varargin</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mf">2.</span>
+ <span class="c"># astra_create_vol_geom(row_count, col_count, min_x, max_x, min_y, max_y)</span>
+ <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="n">varargin</span><span class="p">)</span> <span class="o">==</span> <span class="mi">6</span><span class="p">:</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span>
+ <span class="c"># astra_create_vol_geom(row_count, col_count, slice_count)</span>
+ <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="n">varargin</span><span class="p">)</span> <span class="o">==</span> <span class="mi">3</span><span class="p">:</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+ <span class="n">vol_geom</span><span class="p">[</span><span class="s">&#39;GridSliceCount&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">varargin</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+ <span class="k">return</span> <span class="n">vol_geom</span>
+
+</div>
+<div class="viewcode-block" id="create_proj_geom"><a class="viewcode-back" href="../../creators.html#astra.creators.create_proj_geom">[docs]</a><span class="k">def</span> <span class="nf">create_proj_geom</span><span class="p">(</span><span class="n">intype</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a projection geometry.</span>
+
+<span class="sd">This method can be called in a number of ways:</span>
+
+<span class="sd">``create_proj_geom(&#39;parallel&#39;, detector_spacing, det_count, angles)``:</span>
+
+<span class="sd">:param detector_spacing: Distance between two adjacent detector pixels.</span>
+<span class="sd">:type detector_spacing: :class:`float`</span>
+<span class="sd">:param det_count: Number of detector pixels.</span>
+<span class="sd">:type det_count: :class:`int`</span>
+<span class="sd">:param angles: Array of angles in radians.</span>
+<span class="sd">:type angles: :class:`numpy.ndarray`</span>
+<span class="sd">:returns: A parallel projection geometry.</span>
+
+
+<span class="sd">``create_proj_geom(&#39;fanflat&#39;, det_width, det_count, angles, source_origin, source_det)``:</span>
+
+<span class="sd">:param det_width: Size of a detector pixel.</span>
+<span class="sd">:type det_width: :class:`float`</span>
+<span class="sd">:param det_count: Number of detector pixels.</span>
+<span class="sd">:type det_count: :class:`int`</span>
+<span class="sd">:param angles: Array of angles in radians.</span>
+<span class="sd">:type angles: :class:`numpy.ndarray`</span>
+<span class="sd">:param source_origin: Position of the source.</span>
+<span class="sd">:param source_det: Position of the detector</span>
+<span class="sd">:returns: A fan-beam projection geometry.</span>
+
+<span class="sd">``create_proj_geom(&#39;fanflat_vec&#39;, det_count, V)``:</span>
+
+<span class="sd">:param det_count: Number of detector pixels.</span>
+<span class="sd">:type det_count: :class:`int`</span>
+<span class="sd">:param V: Vector array.</span>
+<span class="sd">:type V: :class:`numpy.ndarray`</span>
+<span class="sd">:returns: A fan-beam projection geometry.</span>
+
+<span class="sd">``create_proj_geom(&#39;parallel3d&#39;, detector_spacing_x, detector_spacing_y, det_row_count, det_col_count, angles)``:</span>
+
+<span class="sd">:param detector_spacing_*: Distance between two adjacent detector pixels.</span>
+<span class="sd">:type detector_spacing_*: :class:`float`</span>
+<span class="sd">:param det_row_count: Number of detector pixel rows.</span>
+<span class="sd">:type det_row_count: :class:`int`</span>
+<span class="sd">:param det_col_count: Number of detector pixel columns.</span>
+<span class="sd">:type det_col_count: :class:`int`</span>
+<span class="sd">:param angles: Array of angles in radians.</span>
+<span class="sd">:type angles: :class:`numpy.ndarray`</span>
+<span class="sd">:returns: A parallel projection geometry.</span>
+
+<span class="sd">``create_proj_geom(&#39;cone&#39;, detector_spacing_x, detector_spacing_y, det_row_count, det_col_count, angles, source_origin, source_det)``:</span>
+
+<span class="sd">:param detector_spacing_*: Distance between two adjacent detector pixels.</span>
+<span class="sd">:type detector_spacing_*: :class:`float`</span>
+<span class="sd">:param det_row_count: Number of detector pixel rows.</span>
+<span class="sd">:type det_row_count: :class:`int`</span>
+<span class="sd">:param det_col_count: Number of detector pixel columns.</span>
+<span class="sd">:type det_col_count: :class:`int`</span>
+<span class="sd">:param angles: Array of angles in radians.</span>
+<span class="sd">:type angles: :class:`numpy.ndarray`</span>
+<span class="sd">:param source_origin: Distance between point source and origin.</span>
+<span class="sd">:type source_origin: :class:`float`</span>
+<span class="sd">:param source_det: Distance between the detector and origin.</span>
+<span class="sd">:type source_det: :class:`float`</span>
+<span class="sd">:returns: A cone-beam projection geometry.</span>
+
+<span class="sd">``create_proj_geom(&#39;cone_vec&#39;, det_row_count, det_col_count, V)``:</span>
+
+<span class="sd">:param det_row_count: Number of detector pixel rows.</span>
+<span class="sd">:type det_row_count: :class:`int`</span>
+<span class="sd">:param det_col_count: Number of detector pixel columns.</span>
+<span class="sd">:type det_col_count: :class:`int`</span>
+<span class="sd">:param V: Vector array.</span>
+<span class="sd">:type V: :class:`numpy.ndarray`</span>
+<span class="sd">:returns: A cone-beam projection geometry.</span>
+
+<span class="sd">``create_proj_geom(&#39;parallel3d_vec&#39;, det_row_count, det_col_count, V)``:</span>
+
+<span class="sd">:param det_row_count: Number of detector pixel rows.</span>
+<span class="sd">:type det_row_count: :class:`int`</span>
+<span class="sd">:param det_col_count: Number of detector pixel columns.</span>
+<span class="sd">:type det_col_count: :class:`int`</span>
+<span class="sd">:param V: Vector array.</span>
+<span class="sd">:type V: :class:`numpy.ndarray`</span>
+<span class="sd">:returns: A parallel projection geometry.</span>
+
+<span class="sd">``create_proj_geom(&#39;sparse_matrix&#39;, det_width, det_count, angles, matrix_id)``:</span>
+
+<span class="sd">:param det_width: Size of a detector pixel.</span>
+<span class="sd">:type det_width: :class:`float`</span>
+<span class="sd">:param det_count: Number of detector pixels.</span>
+<span class="sd">:type det_count: :class:`int`</span>
+<span class="sd">:param angles: Array of angles in radians.</span>
+<span class="sd">:type angles: :class:`numpy.ndarray`</span>
+<span class="sd">:param matrix_id: ID of the sparse matrix.</span>
+<span class="sd">:type matrix_id: :class:`int`</span>
+<span class="sd">:returns: A projection geometry based on a sparse matrix.</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+ <span class="k">if</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;parallel&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">3</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span>
+ <span class="s">&#39;not enough variables: astra_create_proj_geom(parallel, detector_spacing, det_count, angles)&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span> <span class="s">&#39;parallel&#39;</span><span class="p">,</span> <span class="s">&#39;DetectorWidth&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s">&#39;DetectorCount&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="s">&#39;ProjectionAngles&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">]}</span>
+ <span class="k">elif</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;fanflat&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">5</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;not enough variables: astra_create_proj_geom(fanflat, det_width, det_count, angles, source_origin, source_det)&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span> <span class="s">&#39;fanflat&#39;</span><span class="p">,</span> <span class="s">&#39;DetectorWidth&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s">&#39;DetectorCount&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="s">&#39;ProjectionAngles&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">],</span> <span class="s">&#39;DistanceOriginSource&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span> <span class="s">&#39;DistanceOriginDetector&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">4</span><span class="p">]}</span>
+ <span class="k">elif</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;fanflat_vec&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">2</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;not enough variables: astra_create_proj_geom(fanflat_vec, det_count, V)&#39;</span><span class="p">)</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="mi">6</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;V should be a Nx6 matrix, with N the number of projections&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span><span class="s">&#39;fanflat_vec&#39;</span><span class="p">,</span> <span class="s">&#39;DetectorCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s">&#39;Vectors&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">]}</span>
+ <span class="k">elif</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;parallel3d&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">5</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;not enough variables: astra_create_proj_geom(parallel3d, detector_spacing_x, detector_spacing_y, det_row_count, det_col_count, angles)&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span><span class="s">&#39;parallel3d&#39;</span><span class="p">,</span> <span class="s">&#39;DetectorSpacingX&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s">&#39;DetectorSpacingY&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="s">&#39;DetectorRowCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">],</span> <span class="s">&#39;DetectorColCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">4</span><span class="p">]}</span>
+ <span class="k">elif</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;cone&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">7</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;not enough variables: astra_create_proj_geom(cone, detector_spacing_x, detector_spacing_y, det_row_count, det_col_count, angles, source_origin, source_det)&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span> <span class="s">&#39;cone&#39;</span><span class="p">,</span><span class="s">&#39;DetectorSpacingX&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s">&#39;DetectorSpacingY&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="s">&#39;DetectorRowCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">],</span><span class="s">&#39;DetectorColCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">4</span><span class="p">],</span><span class="s">&#39;DistanceOriginSource&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">5</span><span class="p">],</span><span class="s">&#39;DistanceOriginDetector&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">6</span><span class="p">]}</span>
+ <span class="k">elif</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;cone_vec&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">3</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;not enough variables: astra_create_proj_geom(cone_vec, det_row_count, det_col_count, V)&#39;</span><span class="p">)</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="mi">12</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;V should be a Nx12 matrix, with N the number of projections&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span> <span class="s">&#39;cone_vec&#39;</span><span class="p">,</span><span class="s">&#39;DetectorRowCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span><span class="s">&#39;DetectorColCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span><span class="s">&#39;Vectors&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">]}</span>
+ <span class="k">elif</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;parallel3d_vec&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">3</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;not enough variables: astra_create_proj_geom(parallel3d_vec, det_row_count, det_col_count, V)&#39;</span><span class="p">)</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="mi">12</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;V should be a Nx12 matrix, with N the number of projections&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span> <span class="s">&#39;parallel3d_vec&#39;</span><span class="p">,</span><span class="s">&#39;DetectorRowCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span><span class="s">&#39;DetectorColCount&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span><span class="s">&#39;Vectors&#39;</span><span class="p">:</span><span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">]}</span>
+ <span class="k">elif</span> <span class="n">intype</span> <span class="o">==</span> <span class="s">&#39;sparse_matrix&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span>
+ <span class="s">&#39;not enough variables: astra_create_proj_geom(sparse_matrix, det_width, det_count, angles, matrix_id)&#39;</span><span class="p">)</span>
+ <span class="k">return</span> <span class="p">{</span><span class="s">&#39;type&#39;</span><span class="p">:</span> <span class="s">&#39;sparse_matrix&#39;</span><span class="p">,</span> <span class="s">&#39;DetectorWidth&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s">&#39;DetectorCount&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="s">&#39;ProjectionAngles&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">2</span><span class="p">],</span> <span class="s">&#39;MatrixID&#39;</span><span class="p">:</span> <span class="n">args</span><span class="p">[</span><span class="mi">3</span><span class="p">]}</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;Error: unknown type &#39;</span> <span class="o">+</span> <span class="n">intype</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="create_backprojection"><a class="viewcode-back" href="../../creators.html#astra.creators.create_backprojection">[docs]</a><span class="k">def</span> <span class="nf">create_backprojection</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">proj_id</span><span class="p">,</span> <span class="n">useCUDA</span><span class="o">=</span><span class="bp">False</span><span class="p">,</span> <span class="n">returnData</span><span class="o">=</span><span class="bp">True</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a backprojection of a sinogram (2D).</span>
+
+<span class="sd">:param data: Sinogram data or ID.</span>
+<span class="sd">:type data: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd">:param proj_id: ID of the projector to use.</span>
+<span class="sd">:type proj_id: :class:`int`</span>
+<span class="sd">:param useCUDA: If ``True``, use CUDA for the calculation.</span>
+<span class="sd">:type useCUDA: :class:`bool`</span>
+<span class="sd">:param returnData: If False, only return the ID of the backprojection.</span>
+<span class="sd">:type returnData: :class:`bool`</span>
+<span class="sd">:returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`) -- If ``returnData=False``, returns the ID of the backprojection. Otherwise, returns a tuple containing the ID of the backprojection and the backprojection itself, in that order.</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+ <span class="n">proj_geom</span> <span class="o">=</span> <span class="n">projector</span><span class="o">.</span><span class="n">projection_geometry</span><span class="p">(</span><span class="n">proj_id</span><span class="p">)</span>
+ <span class="n">vol_geom</span> <span class="o">=</span> <span class="n">projector</span><span class="o">.</span><span class="n">volume_geometry</span><span class="p">(</span><span class="n">proj_id</span><span class="p">)</span>
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">sino_id</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-sino&#39;</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="n">data</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="n">sino_id</span> <span class="o">=</span> <span class="n">data</span>
+ <span class="n">vol_id</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-vol&#39;</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
+
+ <span class="n">algString</span> <span class="o">=</span> <span class="s">&#39;BP&#39;</span>
+ <span class="k">if</span> <span class="n">useCUDA</span><span class="p">:</span>
+ <span class="n">algString</span> <span class="o">=</span> <span class="n">algString</span> <span class="o">+</span> <span class="s">&#39;_CUDA&#39;</span>
+
+ <span class="n">cfg</span> <span class="o">=</span> <span class="n">astra_dict</span><span class="p">(</span><span class="n">algString</span><span class="p">)</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">useCUDA</span><span class="p">:</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectorId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">proj_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectionDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">sino_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ReconstructionDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">vol_id</span>
+ <span class="n">alg_id</span> <span class="o">=</span> <span class="n">algorithm</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">cfg</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">sino_id</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="n">returnData</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">vol_id</span><span class="p">,</span> <span class="n">data2d</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">vol_id</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">vol_id</span>
+</div>
+<div class="viewcode-block" id="create_backprojection3d_gpu"><a class="viewcode-back" href="../../creators.html#astra.creators.create_backprojection3d_gpu">[docs]</a><span class="k">def</span> <span class="nf">create_backprojection3d_gpu</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="n">returnData</span><span class="o">=</span><span class="bp">True</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a backprojection of a sinogram (3D) using CUDA.</span>
+
+<span class="sd">:param data: Sinogram data or ID.</span>
+<span class="sd">:type data: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd">:param proj_geom: Projection geometry.</span>
+<span class="sd">:type proj_geom: :class:`dict`</span>
+<span class="sd">:param vol_geom: Volume geometry.</span>
+<span class="sd">:type vol_geom: :class:`dict`</span>
+<span class="sd">:param returnData: If False, only return the ID of the backprojection.</span>
+<span class="sd">:type returnData: :class:`bool`</span>
+<span class="sd">:returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`) -- If ``returnData=False``, returns the ID of the backprojection. Otherwise, returns a tuple containing the ID of the backprojection and the backprojection itself, in that order.</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">sino_id</span> <span class="o">=</span> <span class="n">data3d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-sino&#39;</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="n">data</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="n">sino_id</span> <span class="o">=</span> <span class="n">data</span>
+
+ <span class="n">vol_id</span> <span class="o">=</span> <span class="n">data3d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-vol&#39;</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
+
+ <span class="n">cfg</span> <span class="o">=</span> <span class="n">astra_dict</span><span class="p">(</span><span class="s">&#39;BP3D_CUDA&#39;</span><span class="p">)</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectionDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">sino_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ReconstructionDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">vol_id</span>
+ <span class="n">alg_id</span> <span class="o">=</span> <span class="n">algorithm</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">cfg</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">data3d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">sino_id</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="n">returnData</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">vol_id</span><span class="p">,</span> <span class="n">data3d</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">vol_id</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">vol_id</span>
+
+</div>
+<div class="viewcode-block" id="create_sino"><a class="viewcode-back" href="../../creators.html#astra.creators.create_sino">[docs]</a><span class="k">def</span> <span class="nf">create_sino</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">proj_id</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">proj_geom</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">vol_geom</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span>
+ <span class="n">useCUDA</span><span class="o">=</span><span class="bp">False</span><span class="p">,</span> <span class="n">returnData</span><span class="o">=</span><span class="bp">True</span><span class="p">,</span> <span class="n">gpuIndex</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a forward projection of an image (2D).</span>
+
+<span class="sd"> :param data: Image data or ID.</span>
+<span class="sd"> :type data: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd"> :param proj_id: ID of the projector to use.</span>
+<span class="sd"> :type proj_id: :class:`int`</span>
+<span class="sd"> :param proj_geom: Projection geometry.</span>
+<span class="sd"> :type proj_geom: :class:`dict`</span>
+<span class="sd"> :param vol_geom: Volume geometry.</span>
+<span class="sd"> :type vol_geom: :class:`dict`</span>
+<span class="sd"> :param useCUDA: If ``True``, use CUDA for the calculation.</span>
+<span class="sd"> :type useCUDA: :class:`bool`</span>
+<span class="sd"> :param returnData: If False, only return the ID of the forward projection.</span>
+<span class="sd"> :type returnData: :class:`bool`</span>
+<span class="sd"> :param gpuIndex: Optional GPU index.</span>
+<span class="sd"> :type gpuIndex: :class:`int`</span>
+<span class="sd"> :returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`)</span>
+
+<span class="sd"> If ``returnData=False``, returns the ID of the forward</span>
+<span class="sd"> projection. Otherwise, returns a tuple containing the ID of the</span>
+<span class="sd"> forward projection and the forward projection itself, in that</span>
+<span class="sd"> order.</span>
+
+<span class="sd"> The geometry of setup is defined by ``proj_id`` or with</span>
+<span class="sd"> ``proj_geom`` and ``vol_geom``. If ``proj_id`` is given, then</span>
+<span class="sd"> ``proj_geom`` and ``vol_geom`` must be None and vice versa.</span>
+<span class="sd">&quot;&quot;&quot;</span>
+ <span class="k">if</span> <span class="n">proj_id</span> <span class="ow">is</span> <span class="ow">not</span> <span class="bp">None</span><span class="p">:</span>
+ <span class="n">proj_geom</span> <span class="o">=</span> <span class="n">projector</span><span class="o">.</span><span class="n">projection_geometry</span><span class="p">(</span><span class="n">proj_id</span><span class="p">)</span>
+ <span class="n">vol_geom</span> <span class="o">=</span> <span class="n">projector</span><span class="o">.</span><span class="n">volume_geometry</span><span class="p">(</span><span class="n">proj_id</span><span class="p">)</span>
+ <span class="k">elif</span> <span class="n">proj_geom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="bp">None</span> <span class="ow">and</span> <span class="n">vol_geom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="bp">None</span><span class="p">:</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">useCUDA</span><span class="p">:</span>
+ <span class="c"># We need more parameters to create projector.</span>
+ <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span>
+ <span class="sd">&quot;&quot;&quot;A ``proj_id`` is needed when CUDA is not used.&quot;&quot;&quot;</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&quot;&quot;&quot;The geometry setup is not defined.</span>
+<span class="s"> The geometry of setup is defined by ``proj_id`` or with</span>
+<span class="s"> ``proj_geom`` and ``vol_geom``. If ``proj_id`` is given, then</span>
+<span class="s"> ``proj_geom`` and ``vol_geom`` must be None and vice versa.&quot;&quot;&quot;</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">volume_id</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-vol&#39;</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="n">data</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="n">volume_id</span> <span class="o">=</span> <span class="n">data</span>
+ <span class="n">sino_id</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-sino&#39;</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
+ <span class="n">algString</span> <span class="o">=</span> <span class="s">&#39;FP&#39;</span>
+ <span class="k">if</span> <span class="n">useCUDA</span><span class="p">:</span>
+ <span class="n">algString</span> <span class="o">=</span> <span class="n">algString</span> <span class="o">+</span> <span class="s">&#39;_CUDA&#39;</span>
+ <span class="n">cfg</span> <span class="o">=</span> <span class="n">astra_dict</span><span class="p">(</span><span class="n">algString</span><span class="p">)</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">useCUDA</span><span class="p">:</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectorId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">proj_id</span>
+ <span class="k">if</span> <span class="n">gpuIndex</span> <span class="ow">is</span> <span class="ow">not</span> <span class="bp">None</span><span class="p">:</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s">&#39;GPUindex&#39;</span><span class="p">:</span> <span class="n">gpuIndex</span><span class="p">}</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectionDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">sino_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;VolumeDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">volume_id</span>
+ <span class="n">alg_id</span> <span class="o">=</span> <span class="n">algorithm</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">cfg</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">volume_id</span><span class="p">)</span>
+ <span class="k">if</span> <span class="n">returnData</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">sino_id</span><span class="p">,</span> <span class="n">data2d</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">sino_id</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">sino_id</span>
+
+
+</div>
+<div class="viewcode-block" id="create_sino3d_gpu"><a class="viewcode-back" href="../../creators.html#astra.creators.create_sino3d_gpu">[docs]</a><span class="k">def</span> <span class="nf">create_sino3d_gpu</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="n">returnData</span><span class="o">=</span><span class="bp">True</span><span class="p">,</span> <span class="n">gpuIndex</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a forward projection of an image (3D).</span>
+
+<span class="sd">:param data: Image data or ID.</span>
+<span class="sd">:type data: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd">:param proj_geom: Projection geometry.</span>
+<span class="sd">:type proj_geom: :class:`dict`</span>
+<span class="sd">:param vol_geom: Volume geometry.</span>
+<span class="sd">:type vol_geom: :class:`dict`</span>
+<span class="sd">:param returnData: If False, only return the ID of the forward projection.</span>
+<span class="sd">:type returnData: :class:`bool`</span>
+<span class="sd">:param gpuIndex: Optional GPU index.</span>
+<span class="sd">:type gpuIndex: :class:`int`</span>
+<span class="sd">:returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`) -- If ``returnData=False``, returns the ID of the forward projection. Otherwise, returns a tuple containing the ID of the forward projection and the forward projection itself, in that order.</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">volume_id</span> <span class="o">=</span> <span class="n">data3d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-vol&#39;</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="n">data</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="n">volume_id</span> <span class="o">=</span> <span class="n">data</span>
+ <span class="n">sino_id</span> <span class="o">=</span> <span class="n">data3d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-sino&#39;</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
+ <span class="n">algString</span> <span class="o">=</span> <span class="s">&#39;FP3D_CUDA&#39;</span>
+ <span class="n">cfg</span> <span class="o">=</span> <span class="n">astra_dict</span><span class="p">(</span><span class="n">algString</span><span class="p">)</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">gpuIndex</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">]</span><span class="o">=</span><span class="p">{</span><span class="s">&#39;GPUindex&#39;</span><span class="p">:</span><span class="n">gpuIndex</span><span class="p">}</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectionDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">sino_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;VolumeDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">volume_id</span>
+ <span class="n">alg_id</span> <span class="o">=</span> <span class="n">algorithm</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">cfg</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">data3d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">volume_id</span><span class="p">)</span>
+ <span class="k">if</span> <span class="n">returnData</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">sino_id</span><span class="p">,</span> <span class="n">data3d</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">sino_id</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">sino_id</span>
+
+</div>
+<div class="viewcode-block" id="create_reconstruction"><a class="viewcode-back" href="../../creators.html#astra.creators.create_reconstruction">[docs]</a><span class="k">def</span> <span class="nf">create_reconstruction</span><span class="p">(</span><span class="n">rec_type</span><span class="p">,</span> <span class="n">proj_id</span><span class="p">,</span> <span class="n">sinogram</span><span class="p">,</span> <span class="n">iterations</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">use_mask</span><span class="o">=</span><span class="s">&#39;no&#39;</span><span class="p">,</span> <span class="n">mask</span><span class="o">=</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([]),</span> <span class="n">use_minc</span><span class="o">=</span><span class="s">&#39;no&#39;</span><span class="p">,</span> <span class="n">minc</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">use_maxc</span><span class="o">=</span><span class="s">&#39;no&#39;</span><span class="p">,</span> <span class="n">maxc</span><span class="o">=</span><span class="mi">255</span><span class="p">,</span> <span class="n">returnData</span><span class="o">=</span><span class="bp">True</span><span class="p">,</span> <span class="n">filterType</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">filterData</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a reconstruction of a sinogram (2D).</span>
+
+<span class="sd">:param rec_type: Name of the reconstruction algorithm.</span>
+<span class="sd">:type rec_type: :class:`string`</span>
+<span class="sd">:param proj_id: ID of the projector to use.</span>
+<span class="sd">:type proj_id: :class:`int`</span>
+<span class="sd">:param sinogram: Sinogram data or ID.</span>
+<span class="sd">:type sinogram: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd">:param iterations: Number of iterations to run.</span>
+<span class="sd">:type iterations: :class:`int`</span>
+<span class="sd">:param use_mask: Whether to use a mask.</span>
+<span class="sd">:type use_mask: ``&#39;yes&#39;`` or ``&#39;no&#39;``</span>
+<span class="sd">:param mask: Mask data or ID</span>
+<span class="sd">:type mask: :class:`numpy.ndarray` or :class:`int`</span>
+<span class="sd">:param use_minc: Whether to force a minimum value on the reconstruction pixels.</span>
+<span class="sd">:type use_minc: ``&#39;yes&#39;`` or ``&#39;no&#39;``</span>
+<span class="sd">:param minc: Minimum value to use.</span>
+<span class="sd">:type minc: :class:`float`</span>
+<span class="sd">:param use_maxc: Whether to force a maximum value on the reconstruction pixels.</span>
+<span class="sd">:type use_maxc: ``&#39;yes&#39;`` or ``&#39;no&#39;``</span>
+<span class="sd">:param maxc: Maximum value to use.</span>
+<span class="sd">:type maxc: :class:`float`</span>
+<span class="sd">:param returnData: If False, only return the ID of the reconstruction.</span>
+<span class="sd">:type returnData: :class:`bool`</span>
+<span class="sd">:param filterType: Which type of filter to use for filter-based methods.</span>
+<span class="sd">:type filterType: :class:`string`</span>
+<span class="sd">:param filterData: Optional filter data for filter-based methods.</span>
+<span class="sd">:type filterData: :class:`numpy.ndarray`</span>
+<span class="sd">:returns: :class:`int` or (:class:`int`, :class:`numpy.ndarray`) -- If ``returnData=False``, returns the ID of the reconstruction. Otherwise, returns a tuple containing the ID of the reconstruction and reconstruction itself, in that order.</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+ <span class="n">proj_geom</span> <span class="o">=</span> <span class="n">projector</span><span class="o">.</span><span class="n">projection_geometry</span><span class="p">(</span><span class="n">proj_id</span><span class="p">)</span>
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">sinogram</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">sino_id</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-sino&#39;</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="n">sinogram</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="n">sino_id</span> <span class="o">=</span> <span class="n">sinogram</span>
+ <span class="n">vol_geom</span> <span class="o">=</span> <span class="n">projector</span><span class="o">.</span><span class="n">volume_geometry</span><span class="p">(</span><span class="n">proj_id</span><span class="p">)</span>
+ <span class="n">recon_id</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-vol&#39;</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
+ <span class="n">cfg</span> <span class="o">=</span> <span class="n">astra_dict</span><span class="p">(</span><span class="n">rec_type</span><span class="p">)</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="s">&#39;CUDA&#39;</span> <span class="ow">in</span> <span class="n">rec_type</span><span class="p">:</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectorId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">proj_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectionDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">sino_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ReconstructionDataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">recon_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;options&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+ <span class="k">if</span> <span class="n">use_mask</span> <span class="o">==</span> <span class="s">&#39;yes&#39;</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">mask</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">mask_id</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-vol&#39;</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">,</span> <span class="n">mask</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="n">mask_id</span> <span class="o">=</span> <span class="n">mask</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;options&#39;</span><span class="p">][</span><span class="s">&#39;ReconstructionMaskId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">mask_id</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">filterType</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;FilterType&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">filterType</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">filterData</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">filterData</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">nexpow</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span>
+ <span class="nb">pow</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="n">math</span><span class="o">.</span><span class="n">ceil</span><span class="p">(</span><span class="n">math</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorCount&#39;</span><span class="p">],</span> <span class="mi">2</span><span class="p">))))</span>
+ <span class="n">filtSize</span> <span class="o">=</span> <span class="n">nexpow</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">+</span> <span class="mi">1</span>
+ <span class="n">filt_proj_geom</span> <span class="o">=</span> <span class="n">create_proj_geom</span><span class="p">(</span>
+ <span class="s">&#39;parallel&#39;</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">filtSize</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">])</span>
+ <span class="n">filt_id</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="s">&#39;-sino&#39;</span><span class="p">,</span> <span class="n">filt_proj_geom</span><span class="p">,</span> <span class="n">filterData</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="n">filt_id</span> <span class="o">=</span> <span class="n">filterData</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;FilterSinogramId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">filt_id</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;options&#39;</span><span class="p">][</span><span class="s">&#39;UseMinConstraint&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">use_minc</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;options&#39;</span><span class="p">][</span><span class="s">&#39;MinConstraintValue&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">minc</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;options&#39;</span><span class="p">][</span><span class="s">&#39;UseMaxConstraint&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">use_maxc</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;options&#39;</span><span class="p">][</span><span class="s">&#39;MaxConstraintValue&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">maxc</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;options&#39;</span><span class="p">][</span><span class="s">&#39;ProjectionOrder&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s">&#39;random&#39;</span>
+ <span class="n">alg_id</span> <span class="o">=</span> <span class="n">algorithm</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">cfg</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="n">alg_id</span><span class="p">,</span> <span class="n">iterations</span><span class="p">)</span>
+
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">sinogram</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">sino_id</span><span class="p">)</span>
+ <span class="k">if</span> <span class="n">use_mask</span> <span class="o">==</span> <span class="s">&#39;yes&#39;</span> <span class="ow">and</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">mask</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">mask_id</span><span class="p">)</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">filterData</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span>
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">filterData</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">filt_id</span><span class="p">)</span>
+ <span class="k">if</span> <span class="n">returnData</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">recon_id</span><span class="p">,</span> <span class="n">data2d</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">recon_id</span><span class="p">)</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="k">return</span> <span class="n">recon_id</span>
+
+</div>
+<div class="viewcode-block" id="create_projector"><a class="viewcode-back" href="../../creators.html#astra.creators.create_projector">[docs]</a><span class="k">def</span> <span class="nf">create_projector</span><span class="p">(</span><span class="n">proj_type</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">,</span> <span class="n">vol_geom</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a 2D projector.</span>
+
+<span class="sd">:param proj_type: Projector type, such as ``&#39;line&#39;``, ``&#39;linear&#39;``, ...</span>
+<span class="sd">:type proj_type: :class:`string`</span>
+<span class="sd">:param proj_geom: Projection geometry.</span>
+<span class="sd">:type proj_geom: :class:`dict`</span>
+<span class="sd">:param vol_geom: Volume geometry.</span>
+<span class="sd">:type vol_geom: :class:`dict`</span>
+<span class="sd">:returns: :class:`int` -- The ID of the projector.</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+ <span class="k">if</span> <span class="n">proj_type</span> <span class="o">==</span> <span class="s">&#39;blob&#39;</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s">&#39;Blob type not yet implemented&#39;</span><span class="p">)</span>
+ <span class="n">cfg</span> <span class="o">=</span> <span class="n">astra_dict</span><span class="p">(</span><span class="n">proj_type</span><span class="p">)</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;ProjectionGeometry&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">proj_geom</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;VolumeGeometry&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">vol_geom</span>
+ <span class="k">return</span> <span class="n">projector</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">cfg</span><span class="p">)</span></div>
+</pre></div>
+
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+ <h1>Source code for astra.data2d</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data2d_c</span> <span class="k">as</span> <span class="n">d</span>
+
+<div class="viewcode-block" id="clear"><a class="viewcode-back" href="../../data2d.html#astra.data2d.clear">[docs]</a><span class="k">def</span> <span class="nf">clear</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Clear all 2D data objects.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+</div>
+<div class="viewcode-block" id="delete"><a class="viewcode-back" href="../../data2d.html#astra.data2d.delete">[docs]</a><span class="k">def</span> <span class="nf">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Delete a 2D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param ids: ID or list of ID&#39;s to delete.</span>
+<span class="sd"> :type ids: :class:`int` or :class:`list`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="create"><a class="viewcode-back" href="../../data2d.html#astra.data2d.create">[docs]</a><span class="k">def</span> <span class="nf">create</span><span class="p">(</span><span class="n">datatype</span><span class="p">,</span> <span class="n">geometry</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a 2D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param datatype: Data object type, &#39;-vol&#39; or &#39;-sino&#39;.</span>
+<span class="sd"> :type datatype: :class:`string`</span>
+<span class="sd"> :param geometry: Volume or projection geometry.</span>
+<span class="sd"> :type geometry: :class:`dict`</span>
+<span class="sd"> :param data: Data to fill the constructed object with, either a scalar or array.</span>
+<span class="sd"> :type data: :class:`float` or :class:`numpy.ndarray`</span>
+<span class="sd"> :returns: :class:`int` -- the ID of the constructed object.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">datatype</span><span class="p">,</span><span class="n">geometry</span><span class="p">,</span><span class="n">data</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="store"><a class="viewcode-back" href="../../data2d.html#astra.data2d.store">[docs]</a><span class="k">def</span> <span class="nf">store</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">data</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Fill existing 2D object with data.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to fill.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :param data: Data to fill the object with, either a scalar or array.</span>
+<span class="sd"> :type data: :class:`float` or :class:`numpy.ndarray`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">store</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">data</span><span class="p">)</span>
+ </div>
+<div class="viewcode-block" id="get_geometry"><a class="viewcode-back" href="../../data2d.html#astra.data2d.get_geometry">[docs]</a><span class="k">def</span> <span class="nf">get_geometry</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get the geometry of a 2D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`dict` -- The geometry of object with ID ``i``.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">get_geometry</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="change_geometry"><a class="viewcode-back" href="../../data2d.html#astra.data2d.change_geometry">[docs]</a><span class="k">def</span> <span class="nf">change_geometry</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">geom</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Change the geometry of a 2D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :param geom: new geometry.</span>
+<span class="sd"> :type geom: :class:`dict`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">change_geometry</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">geom</span><span class="p">)</span>
+ </div>
+<div class="viewcode-block" id="get"><a class="viewcode-back" href="../../data2d.html#astra.data2d.get">[docs]</a><span class="k">def</span> <span class="nf">get</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get a 2D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to get.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The object data.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="get_shared"><a class="viewcode-back" href="../../data2d.html#astra.data2d.get_shared">[docs]</a><span class="k">def</span> <span class="nf">get_shared</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get a 2D object with memory shared between the ASTRA toolbox and numpy array.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to get.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The object data.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">get_shared</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="get_single"><a class="viewcode-back" href="../../data2d.html#astra.data2d.get_single">[docs]</a><span class="k">def</span> <span class="nf">get_single</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get a 2D object in single precision.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to get.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The object data.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">get_single</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="info"><a class="viewcode-back" href="../../data2d.html#astra.data2d.info">[docs]</a><span class="k">def</span> <span class="nf">info</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Print info on 2D objects in memory.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">info</span><span class="p">()</span></div>
+</pre></div>
+
+ </div>
+ </div>
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+ <div class="body">
+
+ <h1>Source code for astra.data3d</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data3d_c</span> <span class="k">as</span> <span class="n">d</span>
+
+<div class="viewcode-block" id="create"><a class="viewcode-back" href="../../data3d.html#astra.data3d.create">[docs]</a><span class="k">def</span> <span class="nf">create</span><span class="p">(</span><span class="n">datatype</span><span class="p">,</span><span class="n">geometry</span><span class="p">,</span><span class="n">data</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create a 3D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param datatype: Data object type, &#39;-vol&#39; or &#39;-sino&#39;.</span>
+<span class="sd"> :type datatype: :class:`string`</span>
+<span class="sd"> :param geometry: Volume or projection geometry.</span>
+<span class="sd"> :type geometry: :class:`dict`</span>
+<span class="sd"> :param data: Data to fill the constructed object with, either a scalar or array.</span>
+<span class="sd"> :type data: :class:`float` or :class:`numpy.ndarray`</span>
+<span class="sd"> :returns: :class:`int` -- the ID of the constructed object.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">datatype</span><span class="p">,</span><span class="n">geometry</span><span class="p">,</span><span class="n">data</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="get"><a class="viewcode-back" href="../../data3d.html#astra.data3d.get">[docs]</a><span class="k">def</span> <span class="nf">get</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get a 3D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to get.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The object data.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="get_shared"><a class="viewcode-back" href="../../data3d.html#astra.data3d.get_shared">[docs]</a><span class="k">def</span> <span class="nf">get_shared</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get a 3D object with memory shared between the ASTRA toolbox and numpy array.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to get.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The object data.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">get_shared</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="get_single"><a class="viewcode-back" href="../../data3d.html#astra.data3d.get_single">[docs]</a><span class="k">def</span> <span class="nf">get_single</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get a 3D object in single precision.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to get.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- The object data.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">g</span><span class="o">.</span><span class="n">get_single</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="store"><a class="viewcode-back" href="../../data3d.html#astra.data3d.store">[docs]</a><span class="k">def</span> <span class="nf">store</span><span class="p">(</span><span class="n">i</span><span class="p">,</span><span class="n">data</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Fill existing 3D object with data.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to fill.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :param data: Data to fill the object with, either a scalar or array.</span>
+<span class="sd"> :type data: :class:`float` or :class:`numpy.ndarray`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">store</span><span class="p">(</span><span class="n">i</span><span class="p">,</span><span class="n">data</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="dimensions"><a class="viewcode-back" href="../../data3d.html#astra.data3d.dimensions">[docs]</a><span class="k">def</span> <span class="nf">dimensions</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get dimensions of a 3D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`tuple` -- dimensions of object with ID ``i``.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">dimensions</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="delete"><a class="viewcode-back" href="../../data3d.html#astra.data3d.delete">[docs]</a><span class="k">def</span> <span class="nf">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Delete a 2D object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param ids: ID or list of ID&#39;s to delete.</span>
+<span class="sd"> :type ids: :class:`int` or :class:`list`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="clear"><a class="viewcode-back" href="../../data3d.html#astra.data3d.clear">[docs]</a><span class="k">def</span> <span class="nf">clear</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Clear all 3D data objects.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+</div>
+<div class="viewcode-block" id="info"><a class="viewcode-back" href="../../data3d.html#astra.data3d.info">[docs]</a><span class="k">def</span> <span class="nf">info</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Print info on 3D objects in memory.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">d</span><span class="o">.</span><span class="n">info</span><span class="p">()</span></div>
+</pre></div>
+
+ </div>
+ </div>
+ </div>
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+
+ <h1>Source code for astra.functions</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c"># Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c"># Author: Daniel M. Pelt</span>
+<span class="c"># Contact: D.M.Pelt@cwi.nl</span>
+<span class="c"># Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c"># This file is part of the Python interface to the</span>
+<span class="c"># All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c"># The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c"># it under the terms of the GNU General Public License as published by</span>
+<span class="c"># the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c"># The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c"># but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c"># MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c"># GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c"># You should have received a copy of the GNU General Public License</span>
+<span class="c"># along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="sd">&quot;&quot;&quot;Additional functions for PyAstraToolbox.</span>
+
+<span class="sd">.. moduleauthor:: Daniel M. Pelt &lt;D.M.Pelt@cwi.nl&gt;</span>
+
+
+<span class="sd">&quot;&quot;&quot;</span>
+
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">creators</span> <span class="k">as</span> <span class="n">ac</span>
+<span class="kn">import</span> <span class="nn">numpy</span> <span class="kn">as</span> <span class="nn">np</span>
+<span class="kn">from</span> <span class="nn">six.moves</span> <span class="kn">import</span> <span class="nb">range</span>
+
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data2d</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data3d</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">projector</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">algorithm</span>
+
+
+
+<div class="viewcode-block" id="clear"><a class="viewcode-back" href="../../functions.html#astra.functions.clear">[docs]</a><span class="k">def</span> <span class="nf">clear</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Clears all used memory of the ASTRA Toolbox.</span>
+
+<span class="sd"> .. note::</span>
+<span class="sd"> This is irreversible.</span>
+
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="n">data2d</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+ <span class="n">data3d</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+ <span class="n">projector</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+
+</div>
+<div class="viewcode-block" id="data_op"><a class="viewcode-back" href="../../functions.html#astra.functions.data_op">[docs]</a><span class="k">def</span> <span class="nf">data_op</span><span class="p">(</span><span class="n">op</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> <span class="n">scalar</span><span class="p">,</span> <span class="n">gpu_core</span><span class="p">,</span> <span class="n">mask</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Perform data operation on data.</span>
+
+<span class="sd"> :param op: Operation to perform.</span>
+<span class="sd"> :param data: Data to perform operation on.</span>
+<span class="sd"> :param scalar: Scalar argument to data operation.</span>
+<span class="sd"> :param gpu_core: GPU core to perform operation on.</span>
+<span class="sd"> :param mask: Optional mask.</span>
+
+<span class="sd"> &quot;&quot;&quot;</span>
+
+ <span class="n">cfg</span> <span class="o">=</span> <span class="n">ac</span><span class="o">.</span><span class="n">astra_dict</span><span class="p">(</span><span class="s">&#39;DataOperation_CUDA&#39;</span><span class="p">)</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;Operation&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">op</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;Scalar&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">scalar</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;DataId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">mask</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;MaskId&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">mask</span>
+ <span class="n">cfg</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;GPUindex&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">gpu_core</span>
+ <span class="n">alg_id</span> <span class="o">=</span> <span class="n">algorithm</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">cfg</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+ <span class="n">algorithm</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">alg_id</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="add_noise_to_sino"><a class="viewcode-back" href="../../functions.html#astra.functions.add_noise_to_sino">[docs]</a><span class="k">def</span> <span class="nf">add_noise_to_sino</span><span class="p">(</span><span class="n">sinogram_in</span><span class="p">,</span> <span class="n">I0</span><span class="p">,</span> <span class="n">seed</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Adds Poisson noise to a sinogram.</span>
+
+<span class="sd"> :param sinogram_in: Sinogram to add noise to.</span>
+<span class="sd"> :type sinogram_in: :class:`numpy.ndarray`</span>
+<span class="sd"> :param I0: Background intensity. Lower values lead to higher noise.</span>
+<span class="sd"> :type I0: :class:`float`</span>
+<span class="sd"> :returns: :class:`numpy.ndarray` -- the sinogram with added noise.</span>
+
+<span class="sd"> &quot;&quot;&quot;</span>
+
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">seed</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span>
+ <span class="n">curstate</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">get_state</span><span class="p">()</span>
+ <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">seed</span><span class="p">(</span><span class="n">seed</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">sinogram_in</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">sinogramRaw</span> <span class="o">=</span> <span class="n">sinogram_in</span>
+ <span class="k">else</span><span class="p">:</span>
+ <span class="n">sinogramRaw</span> <span class="o">=</span> <span class="n">data2d</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">sinogram_in</span><span class="p">)</span>
+ <span class="n">max_sinogramRaw</span> <span class="o">=</span> <span class="n">sinogramRaw</span><span class="o">.</span><span class="n">max</span><span class="p">()</span>
+ <span class="n">sinogramRawScaled</span> <span class="o">=</span> <span class="n">sinogramRaw</span> <span class="o">/</span> <span class="n">max_sinogramRaw</span>
+ <span class="c"># to detector count</span>
+ <span class="n">sinogramCT</span> <span class="o">=</span> <span class="n">I0</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">sinogramRawScaled</span><span class="p">)</span>
+ <span class="c"># add poison noise</span>
+ <span class="n">sinogramCT_C</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros_like</span><span class="p">(</span><span class="n">sinogramCT</span><span class="p">)</span>
+ <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">sinogramCT_C</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]):</span>
+ <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">sinogramCT_C</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]):</span>
+ <span class="n">sinogramCT_C</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">poisson</span><span class="p">(</span><span class="n">sinogramCT</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">])</span>
+ <span class="c"># to density</span>
+ <span class="n">sinogramCT_D</span> <span class="o">=</span> <span class="n">sinogramCT_C</span> <span class="o">/</span> <span class="n">I0</span>
+ <span class="n">sinogram_out</span> <span class="o">=</span> <span class="o">-</span><span class="n">max_sinogramRaw</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">sinogramCT_D</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">sinogram_in</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+ <span class="n">at</span><span class="o">.</span><span class="n">data2d</span><span class="o">.</span><span class="n">store</span><span class="p">(</span><span class="n">sinogram_in</span><span class="p">,</span> <span class="n">sinogram_out</span><span class="p">)</span>
+
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">seed</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span>
+ <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">set_state</span><span class="p">(</span><span class="n">curstate</span><span class="p">)</span>
+
+ <span class="k">return</span> <span class="n">sinogram_out</span>
+</div>
+<div class="viewcode-block" id="move_vol_geom"><a class="viewcode-back" href="../../functions.html#astra.functions.move_vol_geom">[docs]</a><span class="k">def</span> <span class="nf">move_vol_geom</span><span class="p">(</span><span class="n">geom</span><span class="p">,</span> <span class="n">pos</span><span class="p">,</span> <span class="n">is_relative</span><span class="o">=</span><span class="bp">False</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Moves center of volume geometry to new position.</span>
+
+<span class="sd"> :param geom: Input volume geometry</span>
+<span class="sd"> :type geom: :class:`dict`</span>
+<span class="sd"> :param pos: Tuple (x,y[,z]) for new position, with the center of the image at (0,0[,0])</span>
+<span class="sd"> :type pos: :class:`tuple`</span>
+<span class="sd"> :param is_relative: Whether new position is relative to the old position</span>
+<span class="sd"> :type is_relative: :class:`bool`</span>
+<span class="sd"> :returns: :class:`dict` -- Volume geometry with the new center</span>
+<span class="sd"> &quot;&quot;&quot;</span>
+
+ <span class="n">ret_geom</span> <span class="o">=</span> <span class="n">geom</span><span class="o">.</span><span class="n">copy</span><span class="p">()</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">copy</span><span class="p">()</span>
+
+ <span class="k">if</span> <span class="ow">not</span> <span class="n">is_relative</span><span class="p">:</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span><span class="o">/</span><span class="mf">2.</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxX&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">]</span><span class="o">/</span><span class="mf">2.</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">]</span><span class="o">/</span><span class="mf">2.</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxY&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">]</span><span class="o">/</span><span class="mf">2.</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">pos</span><span class="p">)</span><span class="o">&gt;</span><span class="mi">2</span><span class="p">:</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinZ&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridSliceCount&#39;</span><span class="p">]</span><span class="o">/</span><span class="mf">2.</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxZ&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridSliceCount&#39;</span><span class="p">]</span><span class="o">/</span><span class="mf">2.</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinX&#39;</span><span class="p">]</span> <span class="o">+=</span> <span class="n">pos</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxX&#39;</span><span class="p">]</span> <span class="o">+=</span> <span class="n">pos</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinY&#39;</span><span class="p">]</span> <span class="o">+=</span> <span class="n">pos</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxY&#39;</span><span class="p">]</span> <span class="o">+=</span> <span class="n">pos</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+ <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">pos</span><span class="p">)</span><span class="o">&gt;</span><span class="mi">2</span><span class="p">:</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMinZ&#39;</span><span class="p">]</span> <span class="o">+=</span> <span class="n">pos</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+ <span class="n">ret_geom</span><span class="p">[</span><span class="s">&#39;option&#39;</span><span class="p">][</span><span class="s">&#39;WindowMaxZ&#39;</span><span class="p">]</span> <span class="o">+=</span> <span class="n">pos</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+ <span class="k">return</span> <span class="n">ret_geom</span>
+
+</div>
+<div class="viewcode-block" id="geom_size"><a class="viewcode-back" href="../../functions.html#astra.functions.geom_size">[docs]</a><span class="k">def</span> <span class="nf">geom_size</span><span class="p">(</span><span class="n">geom</span><span class="p">,</span> <span class="n">dim</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Returns the size of a volume or sinogram, based on the projection or volume geometry.</span>
+
+<span class="sd"> :param geom: Geometry to calculate size from</span>
+<span class="sd"> :type geometry: :class:`dict`</span>
+<span class="sd"> :param dim: Optional axis index to return</span>
+<span class="sd"> :type dim: :class:`int`</span>
+<span class="sd"> &quot;&quot;&quot;</span>
+
+ <span class="k">if</span> <span class="s">&#39;GridSliceCount&#39;</span> <span class="ow">in</span> <span class="n">geom</span><span class="p">:</span>
+ <span class="c"># 3D Volume geometry?</span>
+ <span class="n">s</span> <span class="o">=</span> <span class="p">(</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridSliceCount&#39;</span><span class="p">],</span> <span class="n">geom</span><span class="p">[</span>
+ <span class="s">&#39;GridRowCount&#39;</span><span class="p">],</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">])</span>
+ <span class="k">elif</span> <span class="s">&#39;GridColCount&#39;</span> <span class="ow">in</span> <span class="n">geom</span><span class="p">:</span>
+ <span class="c"># 2D Volume geometry?</span>
+ <span class="n">s</span> <span class="o">=</span> <span class="p">(</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridRowCount&#39;</span><span class="p">],</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;GridColCount&#39;</span><span class="p">])</span>
+ <span class="k">elif</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;parallel&#39;</span> <span class="ow">or</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;fanflat&#39;</span><span class="p">:</span>
+ <span class="n">s</span> <span class="o">=</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">]),</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;DetectorCount&#39;</span><span class="p">])</span>
+ <span class="k">elif</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;parallel3d&#39;</span> <span class="ow">or</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;cone&#39;</span><span class="p">:</span>
+ <span class="n">s</span> <span class="o">=</span> <span class="p">(</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;DetectorRowCount&#39;</span><span class="p">],</span> <span class="nb">len</span><span class="p">(</span>
+ <span class="n">geom</span><span class="p">[</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">]),</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;DetectorColCount&#39;</span><span class="p">])</span>
+ <span class="k">elif</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;fanflat_vec&#39;</span><span class="p">:</span>
+ <span class="n">s</span> <span class="o">=</span> <span class="p">(</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;Vectors&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;DetectorCount&#39;</span><span class="p">])</span>
+ <span class="k">elif</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;parallel3d_vec&#39;</span> <span class="ow">or</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;cone_vec&#39;</span><span class="p">:</span>
+ <span class="n">s</span> <span class="o">=</span> <span class="p">(</span><span class="n">geom</span><span class="p">[</span><span class="s">&#39;DetectorRowCount&#39;</span><span class="p">],</span> <span class="n">geom</span><span class="p">[</span>
+ <span class="s">&#39;Vectors&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">geom</span><span class="p">[</span><span class="s">&#39;DetectorColCount&#39;</span><span class="p">])</span>
+
+ <span class="k">if</span> <span class="n">dim</span> <span class="o">!=</span> <span class="bp">None</span><span class="p">:</span>
+ <span class="n">s</span> <span class="o">=</span> <span class="n">s</span><span class="p">[</span><span class="n">dim</span><span class="p">]</span>
+
+ <span class="k">return</span> <span class="n">s</span>
+
+</div>
+<div class="viewcode-block" id="geom_2vec"><a class="viewcode-back" href="../../functions.html#astra.functions.geom_2vec">[docs]</a><span class="k">def</span> <span class="nf">geom_2vec</span><span class="p">(</span><span class="n">proj_geom</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Returns a vector-based projection geometry from a basic projection geometry.</span>
+
+<span class="sd"> :param proj_geom: Projection geometry to convert</span>
+<span class="sd"> :type proj_geom: :class:`dict`</span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">if</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;fanflat&#39;</span><span class="p">:</span>
+ <span class="n">angles</span> <span class="o">=</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="nb">len</span><span class="p">(</span><span class="n">angles</span><span class="p">),</span> <span class="mi">6</span><span class="p">))</span>
+ <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">angles</span><span class="p">)):</span>
+
+ <span class="c"># source</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DistanceOriginSource&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DistanceOriginSource&#39;</span><span class="p">]</span>
+
+ <span class="c"># center of detector</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">2</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DistanceOriginDetector&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">3</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DistanceOriginDetector&#39;</span><span class="p">]</span>
+
+ <span class="c"># vector from detector pixel 0 to 1</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">4</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorWidth&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">5</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorWidth&#39;</span><span class="p">]</span>
+ <span class="n">proj_geom_out</span> <span class="o">=</span> <span class="n">ac</span><span class="o">.</span><span class="n">create_proj_geom</span><span class="p">(</span>
+ <span class="s">&#39;fanflat_vec&#39;</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorCount&#39;</span><span class="p">],</span> <span class="n">vectors</span><span class="p">)</span>
+
+ <span class="k">elif</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;cone&#39;</span><span class="p">:</span>
+ <span class="n">angles</span> <span class="o">=</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="nb">len</span><span class="p">(</span><span class="n">angles</span><span class="p">),</span> <span class="mi">12</span><span class="p">))</span>
+ <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">angles</span><span class="p">)):</span>
+ <span class="c"># source</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DistanceOriginSource&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DistanceOriginSource&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">2</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+
+ <span class="c"># center of detector</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">3</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DistanceOriginDetector&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">4</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DistanceOriginDetector&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">5</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+
+ <span class="c"># vector from detector pixel (0,0) to (0,1)</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">6</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorSpacingX&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">7</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorSpacingX&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">8</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+
+ <span class="c"># vector from detector pixel (0,0) to (1,0)</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">9</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">10</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">11</span><span class="p">]</span> <span class="o">=</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorSpacingY&#39;</span><span class="p">]</span>
+
+ <span class="n">proj_geom_out</span> <span class="o">=</span> <span class="n">ac</span><span class="o">.</span><span class="n">create_proj_geom</span><span class="p">(</span>
+ <span class="s">&#39;cone_vec&#39;</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorRowCount&#39;</span><span class="p">],</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorColCount&#39;</span><span class="p">],</span> <span class="n">vectors</span><span class="p">)</span>
+
+ <span class="c"># PARALLEL</span>
+ <span class="k">elif</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s">&#39;parallel3d&#39;</span><span class="p">:</span>
+ <span class="n">angles</span> <span class="o">=</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;ProjectionAngles&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="nb">len</span><span class="p">(</span><span class="n">angles</span><span class="p">),</span> <span class="mi">12</span><span class="p">))</span>
+ <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">angles</span><span class="p">)):</span>
+
+ <span class="c"># ray direction</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">2</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+
+ <span class="c"># center of detector</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">3</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">4</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">5</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+
+ <span class="c"># vector from detector pixel (0,0) to (0,1)</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">6</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorSpacingX&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">7</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">angles</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">*</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorSpacingX&#39;</span><span class="p">]</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">8</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+
+ <span class="c"># vector from detector pixel (0,0) to (1,0)</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">9</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">10</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+ <span class="n">vectors</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="mi">11</span><span class="p">]</span> <span class="o">=</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorSpacingY&#39;</span><span class="p">]</span>
+
+ <span class="n">proj_geom_out</span> <span class="o">=</span> <span class="n">ac</span><span class="o">.</span><span class="n">create_proj_geom</span><span class="p">(</span>
+ <span class="s">&#39;parallel3d_vec&#39;</span><span class="p">,</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorRowCount&#39;</span><span class="p">],</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;DetectorColCount&#39;</span><span class="p">],</span> <span class="n">vectors</span><span class="p">)</span>
+
+ <span class="k">else</span><span class="p">:</span>
+ <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span>
+ <span class="s">&#39;No suitable vector geometry found for type: &#39;</span> <span class="o">+</span> <span class="n">proj_geom</span><span class="p">[</span><span class="s">&#39;type&#39;</span><span class="p">])</span>
+ <span class="k">return</span> <span class="n">proj_geom_out</span></div>
+</pre></div>
+
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+ <h1>Source code for astra.matlab</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="sd">&quot;&quot;&quot;This module implements a MATLAB-like interface to the ASTRA Toolbox.</span>
+
+<span class="sd">Note that all functions are called with a :class:`string` as the first</span>
+<span class="sd">argument, specifying the operation to perform. This un-pythonic way</span>
+<span class="sd">is used to make transitioning from MATLAB code to Python code easier, as</span>
+<span class="sd">the MATLAB interface uses the same type of method calling.</span>
+
+<span class="sd">After an initial ``import astra``, these functions can be accessed in the</span>
+<span class="sd">``astra.m`` module.</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">astra_c</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data2d_c</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">data3d_c</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">projector_c</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">algorithm_c</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">matrix_c</span>
+<span class="kn">import</span> <span class="nn">numpy</span> <span class="kn">as</span> <span class="nn">np</span>
+
+
+<div class="viewcode-block" id="astra"><a class="viewcode-back" href="../../matlab.html#astra.matlab.astra">[docs]</a><span class="k">def</span> <span class="nf">astra</span><span class="p">(</span><span class="n">command</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;MATLAB-like interface to the :mod:`astra.astra` module</span>
+<span class="sd"> </span>
+<span class="sd"> For example:</span>
+<span class="sd"> </span>
+<span class="sd"> ``astra.m.astra(&#39;use_cuda&#39;)`` -- Check if CUDA is enabled.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">astra_c</span><span class="p">,</span> <span class="n">command</span><span class="p">)(</span><span class="o">*</span><span class="n">args</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="data2d"><a class="viewcode-back" href="../../matlab.html#astra.matlab.data2d">[docs]</a><span class="k">def</span> <span class="nf">data2d</span><span class="p">(</span><span class="n">command</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;MATLAB-like interface to the :mod:`astra.data2d` module</span>
+<span class="sd"> </span>
+<span class="sd"> For example:</span>
+<span class="sd"> </span>
+<span class="sd"> ``astra.m.data2d(&#39;create&#39;,type,geometry,data)`` -- Create a 2D object.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">data2d_c</span><span class="p">,</span> <span class="n">command</span><span class="p">)(</span><span class="o">*</span><span class="n">args</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="data3d"><a class="viewcode-back" href="../../matlab.html#astra.matlab.data3d">[docs]</a><span class="k">def</span> <span class="nf">data3d</span><span class="p">(</span><span class="n">command</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;MATLAB-like interface to the :mod:`astra.data3d` module</span>
+<span class="sd"> </span>
+<span class="sd"> For example:</span>
+<span class="sd"> </span>
+<span class="sd"> ``astra.m.data3d(&#39;get&#39;,i)`` -- Get 3D object data.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">data3d_c</span><span class="p">,</span> <span class="n">command</span><span class="p">)(</span><span class="o">*</span><span class="n">args</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="projector"><a class="viewcode-back" href="../../matlab.html#astra.matlab.projector">[docs]</a><span class="k">def</span> <span class="nf">projector</span><span class="p">(</span><span class="n">command</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;MATLAB-like interface to the :mod:`astra.projector` module</span>
+<span class="sd"> </span>
+<span class="sd"> For example:</span>
+<span class="sd"> </span>
+<span class="sd"> ``astra.m.projector(&#39;volume_geometry&#39;,i)`` -- Get volume geometry.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">projector_c</span><span class="p">,</span> <span class="n">command</span><span class="p">)(</span><span class="o">*</span><span class="n">args</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="matrix"><a class="viewcode-back" href="../../matlab.html#astra.matlab.matrix">[docs]</a><span class="k">def</span> <span class="nf">matrix</span><span class="p">(</span><span class="n">command</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;MATLAB-like interface to the :mod:`astra.matrix` module</span>
+<span class="sd"> </span>
+<span class="sd"> For example:</span>
+<span class="sd"> </span>
+<span class="sd"> ``astra.m.matrix(&#39;delete&#39;,i)`` -- Delete a matrix.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">matrix_c</span><span class="p">,</span> <span class="n">command</span><span class="p">)(</span><span class="o">*</span><span class="n">args</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="algorithm"><a class="viewcode-back" href="../../matlab.html#astra.matlab.algorithm">[docs]</a><span class="k">def</span> <span class="nf">algorithm</span><span class="p">(</span><span class="n">command</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;MATLAB-like interface to the :mod:`astra.algorithm` module</span>
+<span class="sd"> </span>
+<span class="sd"> For example:</span>
+<span class="sd"> </span>
+<span class="sd"> ``astra.m.algorithm(&#39;run&#39;,i,1000)`` -- Run an algorithm with 1000 iterations.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">if</span> <span class="n">command</span> <span class="o">==</span> <span class="s">&#39;iterate&#39;</span><span class="p">:</span>
+ <span class="n">command</span> <span class="o">=</span> <span class="s">&#39;run&#39;</span>
+ <span class="k">return</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">algorithm_c</span><span class="p">,</span> <span class="n">command</span><span class="p">)(</span><span class="o">*</span><span class="n">args</span><span class="p">)</span></div>
+</pre></div>
+
+ </div>
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+
+ <h1>Source code for astra.matrix</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">matrix_c</span> <span class="k">as</span> <span class="n">m</span>
+
+<div class="viewcode-block" id="delete"><a class="viewcode-back" href="../../matrix.html#astra.matrix.delete">[docs]</a><span class="k">def</span> <span class="nf">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Delete a matrix object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param ids: ID or list of ID&#39;s to delete.</span>
+<span class="sd"> :type ids: :class:`int` or :class:`list`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">m</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="clear"><a class="viewcode-back" href="../../matrix.html#astra.matrix.clear">[docs]</a><span class="k">def</span> <span class="nf">clear</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Clear all matrix objects.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">m</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+</div>
+<div class="viewcode-block" id="create"><a class="viewcode-back" href="../../matrix.html#astra.matrix.create">[docs]</a><span class="k">def</span> <span class="nf">create</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create matrix object with data.</span>
+<span class="sd"> </span>
+<span class="sd"> :param data: Data to fill the created object with.</span>
+<span class="sd"> :type data: :class:`scipy.sparse.csr_matrix`</span>
+<span class="sd"> :returns: :class:`int` -- the ID of the constructed object.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">m</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
+
+ </div>
+<div class="viewcode-block" id="store"><a class="viewcode-back" href="../../matrix.html#astra.matrix.store">[docs]</a><span class="k">def</span> <span class="nf">store</span><span class="p">(</span><span class="n">i</span><span class="p">,</span><span class="n">data</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Fill existing matrix object with data.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to fill.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :param data: Data to fill the object with.</span>
+<span class="sd"> :type data: :class:`scipy.sparse.csr_matrix`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">m</span><span class="o">.</span><span class="n">store</span><span class="p">(</span><span class="n">i</span><span class="p">,</span><span class="n">data</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="get_size"><a class="viewcode-back" href="../../matrix.html#astra.matrix.get_size">[docs]</a><span class="k">def</span> <span class="nf">get_size</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get matrix dimensions.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`tuple` -- matrix dimensions.</span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">m</span><span class="o">.</span><span class="n">get_size</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+ </div>
+<div class="viewcode-block" id="get"><a class="viewcode-back" href="../../matrix.html#astra.matrix.get">[docs]</a><span class="k">def</span> <span class="nf">get</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get a matrix object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of object to get.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`scipy.sparse.csr_matrix` -- The object data.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">m</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</div>
+<div class="viewcode-block" id="info"><a class="viewcode-back" href="../../matrix.html#astra.matrix.info">[docs]</a><span class="k">def</span> <span class="nf">info</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Print info on matrix objects in memory.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">m</span><span class="o">.</span><span class="n">info</span><span class="p">()</span>
+
+ </div>
+</pre></div>
+
+ </div>
+ </div>
+ </div>
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+ <input type="hidden" name="area" value="default" />
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+ <p class="searchtip" style="font-size: 90%">
+ Enter search terms or a module, class or function name.
+ </p>
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+ <li><a href="../index.html" >Module code</a> &raquo;</li>
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+ ga('send', 'pageview');
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+</html> \ No newline at end of file
diff --git a/python/docSRC/_build/html/_modules/astra/projector.html b/python/docSRC/_build/html/_modules/astra/projector.html
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+ >modules</a> |</li>
+ <li><a href="../../index.html">PyASTRAToolbox 1.6 documentation</a> &raquo;</li>
+ <li><a href="../index.html" accesskey="U">Module code</a> &raquo;</li>
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+ <div class="documentwrapper">
+ <div class="bodywrapper">
+ <div class="body">
+
+ <h1>Source code for astra.projector</h1><div class="highlight"><pre>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="c">#Copyright 2013 Centrum Wiskunde &amp; Informatica, Amsterdam</span>
+<span class="c">#</span>
+<span class="c">#Author: Daniel M. Pelt</span>
+<span class="c">#Contact: D.M.Pelt@cwi.nl</span>
+<span class="c">#Website: http://dmpelt.github.io/pyastratoolbox/</span>
+<span class="c">#</span>
+<span class="c">#</span>
+<span class="c">#This file is part of the Python interface to the</span>
+<span class="c">#All Scale Tomographic Reconstruction Antwerp Toolbox (&quot;ASTRA Toolbox&quot;).</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is free software: you can redistribute it and/or modify</span>
+<span class="c">#it under the terms of the GNU General Public License as published by</span>
+<span class="c">#the Free Software Foundation, either version 3 of the License, or</span>
+<span class="c">#(at your option) any later version.</span>
+<span class="c">#</span>
+<span class="c">#The Python interface to the ASTRA Toolbox is distributed in the hope that it will be useful,</span>
+<span class="c">#but WITHOUT ANY WARRANTY; without even the implied warranty of</span>
+<span class="c">#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the</span>
+<span class="c">#GNU General Public License for more details.</span>
+<span class="c">#</span>
+<span class="c">#You should have received a copy of the GNU General Public License</span>
+<span class="c">#along with the Python interface to the ASTRA Toolbox. If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
+<span class="c">#</span>
+<span class="c">#-----------------------------------------------------------------------</span>
+<span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">projector_c</span> <span class="k">as</span> <span class="n">p</span>
+
+<div class="viewcode-block" id="create"><a class="viewcode-back" href="../../projector.html#astra.projector.create">[docs]</a><span class="k">def</span> <span class="nf">create</span><span class="p">(</span><span class="n">config</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Create projector object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param config: Projector options.</span>
+<span class="sd"> :type config: :class:`dict`</span>
+<span class="sd"> :returns: :class:`int` -- the ID of the constructed object.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">config</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="delete"><a class="viewcode-back" href="../../projector.html#astra.projector.delete">[docs]</a><span class="k">def</span> <span class="nf">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Delete a projector object.</span>
+<span class="sd"> </span>
+<span class="sd"> :param ids: ID or list of ID&#39;s to delete.</span>
+<span class="sd"> :type ids: :class:`int` or :class:`list`</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">delete</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="clear"><a class="viewcode-back" href="../../projector.html#astra.projector.clear">[docs]</a><span class="k">def</span> <span class="nf">clear</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Clear all projector objects.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">clear</span><span class="p">()</span>
+
+</div>
+<div class="viewcode-block" id="info"><a class="viewcode-back" href="../../projector.html#astra.projector.info">[docs]</a><span class="k">def</span> <span class="nf">info</span><span class="p">():</span>
+ <span class="sd">&quot;&quot;&quot;Print info on projector objects in memory.&quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">info</span><span class="p">()</span>
+</div>
+<div class="viewcode-block" id="projection_geometry"><a class="viewcode-back" href="../../projector.html#astra.projector.projection_geometry">[docs]</a><span class="k">def</span> <span class="nf">projection_geometry</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get projection geometry of a projector.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of projector.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`dict` -- projection geometry</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">projection_geometry</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="volume_geometry"><a class="viewcode-back" href="../../projector.html#astra.projector.volume_geometry">[docs]</a><span class="k">def</span> <span class="nf">volume_geometry</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get volume geometry of a projector.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of projector.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`dict` -- volume geometry</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">volume_geometry</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="weights_single_ray"><a class="viewcode-back" href="../../projector.html#astra.projector.weights_single_ray">[docs]</a><span class="k">def</span> <span class="nf">weights_single_ray</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">projection_index</span><span class="p">,</span> <span class="n">detector_index</span><span class="p">):</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">weights_single_ray</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">projection_index</span><span class="p">,</span> <span class="n">detector_index</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="weights_projection"><a class="viewcode-back" href="../../projector.html#astra.projector.weights_projection">[docs]</a><span class="k">def</span> <span class="nf">weights_projection</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">projection_index</span><span class="p">):</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">weights_projection</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">projection_index</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="splat"><a class="viewcode-back" href="../../projector.html#astra.projector.splat">[docs]</a><span class="k">def</span> <span class="nf">splat</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">row</span><span class="p">,</span> <span class="n">col</span><span class="p">):</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">splat</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">row</span><span class="p">,</span> <span class="n">col</span><span class="p">)</span>
+
+</div>
+<div class="viewcode-block" id="matrix"><a class="viewcode-back" href="../../projector.html#astra.projector.matrix">[docs]</a><span class="k">def</span> <span class="nf">matrix</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+ <span class="sd">&quot;&quot;&quot;Get sparse matrix of a projector.</span>
+<span class="sd"> </span>
+<span class="sd"> :param i: ID of projector.</span>
+<span class="sd"> :type i: :class:`int`</span>
+<span class="sd"> :returns: :class:`int` -- ID of sparse matrix.</span>
+<span class="sd"> </span>
+<span class="sd"> &quot;&quot;&quot;</span>
+ <span class="k">return</span> <span class="n">p</span><span class="o">.</span><span class="n">matrix</span><span class="p">(</span><span class="n">i</span><span class="p">)</span></div>
+</pre></div>
+
+ </div>
+ </div>
+ </div>
+ <div class="sphinxsidebar">
+ <div class="sphinxsidebarwrapper">
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+ Enter search terms or a module, class or function name.
+ </p>
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+ URL_ROOT: '../',
+ VERSION: '1.6',
+ COLLAPSE_INDEX: false,
+ FILE_SUFFIX: '.html',
+ HAS_SOURCE: true
+ };
+ </script>
+ <script type="text/javascript" src="../_static/jquery.js"></script>
+ <script type="text/javascript" src="../_static/underscore.js"></script>
+ <script type="text/javascript" src="../_static/doctools.js"></script>
+ <script type="text/javascript" src="http://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script>
+ <link rel="top" title="PyASTRAToolbox 1.6 documentation" href="../index.html" />
+ </head>
+ <body>
+ <div class="related">
+ <h3>Navigation</h3>
+ <ul>
+ <li class="right" style="margin-right: 10px">
+ <a href="../genindex.html" title="General Index"
+ accesskey="I">index</a></li>
+ <li class="right" >
+ <a href="../py-modindex.html" title="Python Module Index"
+ >modules</a> |</li>
+ <li><a href="../index.html">PyASTRAToolbox 1.6 documentation</a> &raquo;</li>
+ </ul>
+ </div>
+
+ <div class="document">
+ <div class="documentwrapper">
+ <div class="bodywrapper">
+ <div class="body">
+
+ <h1>All modules for which code is available</h1>
+<ul><li><a href="astra/ASTRAProjector.html">astra.ASTRAProjector</a></li>
+<li><a href="astra/algorithm.html">astra.algorithm</a></li>
+<li><a href="astra/astra.html">astra.astra</a></li>
+<li><a href="astra/creators.html">astra.creators</a></li>
+<li><a href="astra/data2d.html">astra.data2d</a></li>
+<li><a href="astra/data3d.html">astra.data3d</a></li>
+<li><a href="astra/functions.html">astra.functions</a></li>
+<li><a href="astra/matlab.html">astra.matlab</a></li>
+<li><a href="astra/matrix.html">astra.matrix</a></li>
+<li><a href="astra/projector.html">astra.projector</a></li>
+</ul>
+
+ </div>
+ </div>
+ </div>
+ <div class="sphinxsidebar">
+ <div class="sphinxsidebarwrapper">
+<div id="searchbox" style="display: none">
+ <h3>Quick search</h3>
+ <form class="search" action="../search.html" method="get">
+ <input type="text" name="q" />
+ <input type="submit" value="Go" />
+ <input type="hidden" name="check_keywords" value="yes" />
+ <input type="hidden" name="area" value="default" />
+ </form>
+ <p class="searchtip" style="font-size: 90%">
+ Enter search terms or a module, class or function name.
+ </p>
+</div>
+<script type="text/javascript">$('#searchbox').show(0);</script>
+ </div>
+ </div>
+ <div class="clearer"></div>
+ </div>
+ <div class="related">
+ <h3>Navigation</h3>
+ <ul>
+ <li class="right" style="margin-right: 10px">
+ <a href="../genindex.html" title="General Index"
+ >index</a></li>
+ <li class="right" >
+ <a href="../py-modindex.html" title="Python Module Index"
+ >modules</a> |</li>
+ <li><a href="../index.html">PyASTRAToolbox 1.6 documentation</a> &raquo;</li>
+ </ul>
+ </div>
+
+ <div class="footer">
+ &copy; Copyright 2013, Centrum Wiskunde &amp; Informatica, Amsterdam.
+ Created using <a href="http://sphinx-doc.org/">Sphinx</a> 1.2.3.
+ </div>
+<script>
+ (function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
+ (i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o),
+ m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m)
+ })(window,document,'script','//www.google-analytics.com/analytics.js','ga');
+
+ ga('create', 'UA-40340335-1', 'dmpelt.github.io');
+ ga('send', 'pageview');
+
+</script>
+
+ </body>
+</html> \ No newline at end of file
diff --git a/python/docSRC/_build/html/_sources/ASTRAProjector.txt b/python/docSRC/_build/html/_sources/ASTRAProjector.txt
new file mode 100644
index 0000000..1c267e3
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/ASTRAProjector.txt
@@ -0,0 +1,8 @@
+Helper class: the :mod:`ASTRAProjector` module
+==============================================
+
+.. automodule:: astra.ASTRAProjector
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/algorithm.txt b/python/docSRC/_build/html/_sources/algorithm.txt
new file mode 100644
index 0000000..83752bd
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/algorithm.txt
@@ -0,0 +1,8 @@
+Algorithms: the :mod:`algorithm` module
+=======================================
+
+.. automodule:: astra.algorithm
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/astra.txt b/python/docSRC/_build/html/_sources/astra.txt
new file mode 100644
index 0000000..5d5fdf0
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/astra.txt
@@ -0,0 +1,8 @@
+Additional ASTRA methods: the :mod:`astra` module
+========================================================
+
+.. automodule:: astra.astra
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/creators.txt b/python/docSRC/_build/html/_sources/creators.txt
new file mode 100644
index 0000000..d6249c3
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/creators.txt
@@ -0,0 +1,8 @@
+Creation of objects: the :mod:`creators` module
+===============================================
+
+.. automodule:: astra.creators
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/data2d.txt b/python/docSRC/_build/html/_sources/data2d.txt
new file mode 100644
index 0000000..342cbec
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/data2d.txt
@@ -0,0 +1,8 @@
+2D data objects: the :mod:`data2d` module
+=========================================
+
+.. automodule:: astra.data2d
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/data3d.txt b/python/docSRC/_build/html/_sources/data3d.txt
new file mode 100644
index 0000000..5b7de23
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/data3d.txt
@@ -0,0 +1,8 @@
+3D data objects: the :mod:`data3d` module
+=========================================
+
+.. automodule:: astra.data3d
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/functions.txt b/python/docSRC/_build/html/_sources/functions.txt
new file mode 100644
index 0000000..749eb27
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/functions.txt
@@ -0,0 +1,8 @@
+Additional functions: the :mod:`functions` module
+=================================================
+
+.. automodule:: astra.functions
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/index.txt b/python/docSRC/_build/html/_sources/index.txt
new file mode 100644
index 0000000..8d17a4a
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/index.txt
@@ -0,0 +1,34 @@
+.. .. documentation master file, created by
+ sphinx-quickstart on Wed Mar 13 16:36:32 2013.
+ You can adapt this file completely to your liking, but it should at least
+ contain the root `toctree` directive.
+
+Welcome to PyASTRAToolbox's documentation!
+==========================================
+
+Contents:
+
+.. toctree::
+ :maxdepth: 4
+
+ data2d
+ data3d
+ projector
+ algorithm
+ matrix
+ creators
+ functions
+ ASTRAProjector
+ matlab
+ astra
+.. astra
+.. builder
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
diff --git a/python/docSRC/_build/html/_sources/matlab.txt b/python/docSRC/_build/html/_sources/matlab.txt
new file mode 100644
index 0000000..fb7033e
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/matlab.txt
@@ -0,0 +1,8 @@
+MATLAB compatibility interface: the :mod:`matlab` module
+========================================================
+
+.. automodule:: astra.matlab
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/matrix.txt b/python/docSRC/_build/html/_sources/matrix.txt
new file mode 100644
index 0000000..6f11d8a
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/matrix.txt
@@ -0,0 +1,8 @@
+Sparse matrices: the :mod:`matrix` module
+=========================================
+
+.. automodule:: astra.matrix
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_sources/projector.txt b/python/docSRC/_build/html/_sources/projector.txt
new file mode 100644
index 0000000..b0854e8
--- /dev/null
+++ b/python/docSRC/_build/html/_sources/projector.txt
@@ -0,0 +1,8 @@
+Projector object: the :mod:`projector` module
+=============================================
+
+.. automodule:: astra.projector
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/_build/html/_static/ajax-loader.gif b/python/docSRC/_build/html/_static/ajax-loader.gif
new file mode 100644
index 0000000..61faf8c
--- /dev/null
+++ b/python/docSRC/_build/html/_static/ajax-loader.gif
Binary files differ
diff --git a/python/docSRC/_build/html/_static/basic.css b/python/docSRC/_build/html/_static/basic.css
new file mode 100644
index 0000000..967e36c
--- /dev/null
+++ b/python/docSRC/_build/html/_static/basic.css
@@ -0,0 +1,537 @@
+/*
+ * basic.css
+ * ~~~~~~~~~
+ *
+ * Sphinx stylesheet -- basic theme.
+ *
+ * :copyright: Copyright 2007-2014 by the Sphinx team, see AUTHORS.
+ * :license: BSD, see LICENSE for details.
+ *
+ */
+
+/* -- main layout ----------------------------------------------------------- */
+
+div.clearer {
+ clear: both;
+}
+
+/* -- relbar ---------------------------------------------------------------- */
+
+div.related {
+ width: 100%;
+ font-size: 90%;
+}
+
+div.related h3 {
+ display: none;
+}
+
+div.related ul {
+ margin: 0;
+ padding: 0 0 0 10px;
+ list-style: none;
+}
+
+div.related li {
+ display: inline;
+}
+
+div.related li.right {
+ float: right;
+ margin-right: 5px;
+}
+
+/* -- sidebar --------------------------------------------------------------- */
+
+div.sphinxsidebarwrapper {
+ padding: 10px 5px 0 10px;
+}
+
+div.sphinxsidebar {
+ float: left;
+ width: 230px;
+ margin-left: -100%;
+ font-size: 90%;
+}
+
+div.sphinxsidebar ul {
+ list-style: none;
+}
+
+div.sphinxsidebar ul ul,
+div.sphinxsidebar ul.want-points {
+ margin-left: 20px;
+ list-style: square;
+}
+
+div.sphinxsidebar ul ul {
+ margin-top: 0;
+ margin-bottom: 0;
+}
+
+div.sphinxsidebar form {
+ margin-top: 10px;
+}
+
+div.sphinxsidebar input {
+ border: 1px solid #98dbcc;
+ font-family: sans-serif;
+ font-size: 1em;
+}
+
+div.sphinxsidebar #searchbox input[type="text"] {
+ width: 170px;
+}
+
+div.sphinxsidebar #searchbox input[type="submit"] {
+ width: 30px;
+}
+
+img {
+ border: 0;
+ max-width: 100%;
+}
+
+/* -- search page ----------------------------------------------------------- */
+
+ul.search {
+ margin: 10px 0 0 20px;
+ padding: 0;
+}
+
+ul.search li {
+ padding: 5px 0 5px 20px;
+ background-image: url(file.png);
+ background-repeat: no-repeat;
+ background-position: 0 7px;
+}
+
+ul.search li a {
+ font-weight: bold;
+}
+
+ul.search li div.context {
+ color: #888;
+ margin: 2px 0 0 30px;
+ text-align: left;
+}
+
+ul.keywordmatches li.goodmatch a {
+ font-weight: bold;
+}
+
+/* -- index page ------------------------------------------------------------ */
+
+table.contentstable {
+ width: 90%;
+}
+
+table.contentstable p.biglink {
+ line-height: 150%;
+}
+
+a.biglink {
+ font-size: 1.3em;
+}
+
+span.linkdescr {
+ font-style: italic;
+ padding-top: 5px;
+ font-size: 90%;
+}
+
+/* -- general index --------------------------------------------------------- */
+
+table.indextable {
+ width: 100%;
+}
+
+table.indextable td {
+ text-align: left;
+ vertical-align: top;
+}
+
+table.indextable dl, table.indextable dd {
+ margin-top: 0;
+ margin-bottom: 0;
+}
+
+table.indextable tr.pcap {
+ height: 10px;
+}
+
+table.indextable tr.cap {
+ margin-top: 10px;
+ background-color: #f2f2f2;
+}
+
+img.toggler {
+ margin-right: 3px;
+ margin-top: 3px;
+ cursor: pointer;
+}
+
+div.modindex-jumpbox {
+ border-top: 1px solid #ddd;
+ border-bottom: 1px solid #ddd;
+ margin: 1em 0 1em 0;
+ padding: 0.4em;
+}
+
+div.genindex-jumpbox {
+ border-top: 1px solid #ddd;
+ border-bottom: 1px solid #ddd;
+ margin: 1em 0 1em 0;
+ padding: 0.4em;
+}
+
+/* -- general body styles --------------------------------------------------- */
+
+a.headerlink {
+ visibility: hidden;
+}
+
+h1:hover > a.headerlink,
+h2:hover > a.headerlink,
+h3:hover > a.headerlink,
+h4:hover > a.headerlink,
+h5:hover > a.headerlink,
+h6:hover > a.headerlink,
+dt:hover > a.headerlink {
+ visibility: visible;
+}
+
+div.body p.caption {
+ text-align: inherit;
+}
+
+div.body td {
+ text-align: left;
+}
+
+.field-list ul {
+ padding-left: 1em;
+}
+
+.first {
+ margin-top: 0 !important;
+}
+
+p.rubric {
+ margin-top: 30px;
+ font-weight: bold;
+}
+
+img.align-left, .figure.align-left, object.align-left {
+ clear: left;
+ float: left;
+ margin-right: 1em;
+}
+
+img.align-right, .figure.align-right, object.align-right {
+ clear: right;
+ float: right;
+ margin-left: 1em;
+}
+
+img.align-center, .figure.align-center, object.align-center {
+ display: block;
+ margin-left: auto;
+ margin-right: auto;
+}
+
+.align-left {
+ text-align: left;
+}
+
+.align-center {
+ text-align: center;
+}
+
+.align-right {
+ text-align: right;
+}
+
+/* -- sidebars -------------------------------------------------------------- */
+
+div.sidebar {
+ margin: 0 0 0.5em 1em;
+ border: 1px solid #ddb;
+ padding: 7px 7px 0 7px;
+ background-color: #ffe;
+ width: 40%;
+ float: right;
+}
+
+p.sidebar-title {
+ font-weight: bold;
+}
+
+/* -- topics ---------------------------------------------------------------- */
+
+div.topic {
+ border: 1px solid #ccc;
+ padding: 7px 7px 0 7px;
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+}
+
+p.topic-title {
+ font-size: 1.1em;
+ font-weight: bold;
+ margin-top: 10px;
+}
+
+/* -- admonitions ----------------------------------------------------------- */
+
+div.admonition {
+ margin-top: 10px;
+ margin-bottom: 10px;
+ padding: 7px;
+}
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+div.admonition dt {
+ font-weight: bold;
+}
+
+div.admonition dl {
+ margin-bottom: 0;
+}
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+p.admonition-title {
+ margin: 0px 10px 5px 0px;
+ font-weight: bold;
+}
+
+div.body p.centered {
+ text-align: center;
+ margin-top: 25px;
+}
+
+/* -- tables ---------------------------------------------------------------- */
+
+table.docutils {
+ border: 0;
+ border-collapse: collapse;
+}
+
+table.docutils td, table.docutils th {
+ padding: 1px 8px 1px 5px;
+ border-top: 0;
+ border-left: 0;
+ border-right: 0;
+ border-bottom: 1px solid #aaa;
+}
+
+table.field-list td, table.field-list th {
+ border: 0 !important;
+}
+
+table.footnote td, table.footnote th {
+ border: 0 !important;
+}
+
+th {
+ text-align: left;
+ padding-right: 5px;
+}
+
+table.citation {
+ border-left: solid 1px gray;
+ margin-left: 1px;
+}
+
+table.citation td {
+ border-bottom: none;
+}
+
+/* -- other body styles ----------------------------------------------------- */
+
+ol.arabic {
+ list-style: decimal;
+}
+
+ol.loweralpha {
+ list-style: lower-alpha;
+}
+
+ol.upperalpha {
+ list-style: upper-alpha;
+}
+
+ol.lowerroman {
+ list-style: lower-roman;
+}
+
+ol.upperroman {
+ list-style: upper-roman;
+}
+
+dl {
+ margin-bottom: 15px;
+}
+
+dd p {
+ margin-top: 0px;
+}
+
+dd ul, dd table {
+ margin-bottom: 10px;
+}
+
+dd {
+ margin-top: 3px;
+ margin-bottom: 10px;
+ margin-left: 30px;
+}
+
+dt:target, .highlighted {
+ background-color: #fbe54e;
+}
+
+dl.glossary dt {
+ font-weight: bold;
+ font-size: 1.1em;
+}
+
+.field-list ul {
+ margin: 0;
+ padding-left: 1em;
+}
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+ margin: 0;
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+ font-size: 1.3em;
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+ font-style: italic;
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+ background-color: #fda;
+ padding: 5px;
+ border: 3px solid red;
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+ background-color: #ffa;
+}
+
+.line-block {
+ display: block;
+ margin-top: 1em;
+ margin-bottom: 1em;
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+ margin-top: 0;
+ margin-bottom: 0;
+ margin-left: 1.5em;
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+
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+ font-family: sans-serif;
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+ text-decoration: underline;
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+
+.classifier {
+ font-style: oblique;
+}
+
+abbr, acronym {
+ border-bottom: dotted 1px;
+ cursor: help;
+}
+
+/* -- code displays --------------------------------------------------------- */
+
+pre {
+ overflow: auto;
+ overflow-y: hidden; /* fixes display issues on Chrome browsers */
+}
+
+td.linenos pre {
+ padding: 5px 0px;
+ border: 0;
+ background-color: transparent;
+ color: #aaa;
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+ font-weight: bold;
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+tt.xref, a tt {
+ background-color: transparent;
+ font-weight: bold;
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+
+h1 tt, h2 tt, h3 tt, h4 tt, h5 tt, h6 tt {
+ background-color: transparent;
+}
+
+.viewcode-link {
+ float: right;
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+
+.viewcode-back {
+ float: right;
+ font-family: sans-serif;
+}
+
+div.viewcode-block:target {
+ margin: -1px -10px;
+ padding: 0 10px;
+}
+
+/* -- math display ---------------------------------------------------------- */
+
+img.math {
+ vertical-align: middle;
+}
+
+div.body div.math p {
+ text-align: center;
+}
+
+span.eqno {
+ float: right;
+}
+
+/* -- printout stylesheet --------------------------------------------------- */
+
+@media print {
+ div.document,
+ div.documentwrapper,
+ div.bodywrapper {
+ margin: 0 !important;
+ width: 100%;
+ }
+
+ div.sphinxsidebar,
+ div.related,
+ div.footer,
+ #top-link {
+ display: none;
+ }
+} \ No newline at end of file
diff --git a/python/docSRC/_build/html/_static/comment-bright.png b/python/docSRC/_build/html/_static/comment-bright.png
new file mode 100644
index 0000000..551517b
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Binary files differ
diff --git a/python/docSRC/_build/html/_static/comment-close.png b/python/docSRC/_build/html/_static/comment-close.png
new file mode 100644
index 0000000..09b54be
--- /dev/null
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diff --git a/python/docSRC/_build/html/_static/comment.png b/python/docSRC/_build/html/_static/comment.png
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diff --git a/python/docSRC/_build/html/_static/default.css b/python/docSRC/_build/html/_static/default.css
new file mode 100644
index 0000000..5f1399a
--- /dev/null
+++ b/python/docSRC/_build/html/_static/default.css
@@ -0,0 +1,256 @@
+/*
+ * default.css_t
+ * ~~~~~~~~~~~~~
+ *
+ * Sphinx stylesheet -- default theme.
+ *
+ * :copyright: Copyright 2007-2014 by the Sphinx team, see AUTHORS.
+ * :license: BSD, see LICENSE for details.
+ *
+ */
+
+@import url("basic.css");
+
+/* -- page layout ----------------------------------------------------------- */
+
+body {
+ font-family: sans-serif;
+ font-size: 100%;
+ background-color: #11303d;
+ color: #000;
+ margin: 0;
+ padding: 0;
+}
+
+div.document {
+ background-color: #1c4e63;
+}
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+ width: 100%;
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+ margin: 0 0 0 230px;
+}
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+ color: #000000;
+ padding: 0 20px 30px 20px;
+}
+
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+ color: #ffffff;
+ width: 100%;
+ padding: 9px 0 9px 0;
+ text-align: center;
+ font-size: 75%;
+}
+
+div.footer a {
+ color: #ffffff;
+ text-decoration: underline;
+}
+
+div.related {
+ background-color: #133f52;
+ line-height: 30px;
+ color: #ffffff;
+}
+
+div.related a {
+ color: #ffffff;
+}
+
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+}
+
+div.sphinxsidebar h3 {
+ font-family: 'Trebuchet MS', sans-serif;
+ color: #ffffff;
+ font-size: 1.4em;
+ font-weight: normal;
+ margin: 0;
+ padding: 0;
+}
+
+div.sphinxsidebar h3 a {
+ color: #ffffff;
+}
+
+div.sphinxsidebar h4 {
+ font-family: 'Trebuchet MS', sans-serif;
+ color: #ffffff;
+ font-size: 1.3em;
+ font-weight: normal;
+ margin: 5px 0 0 0;
+ padding: 0;
+}
+
+div.sphinxsidebar p {
+ color: #ffffff;
+}
+
+div.sphinxsidebar p.topless {
+ margin: 5px 10px 10px 10px;
+}
+
+div.sphinxsidebar ul {
+ margin: 10px;
+ padding: 0;
+ color: #ffffff;
+}
+
+div.sphinxsidebar a {
+ color: #98dbcc;
+}
+
+div.sphinxsidebar input {
+ border: 1px solid #98dbcc;
+ font-family: sans-serif;
+ font-size: 1em;
+}
+
+
+
+/* -- hyperlink styles ------------------------------------------------------ */
+
+a {
+ color: #355f7c;
+ text-decoration: none;
+}
+
+a:visited {
+ color: #355f7c;
+ text-decoration: none;
+}
+
+a:hover {
+ text-decoration: underline;
+}
+
+
+
+/* -- body styles ----------------------------------------------------------- */
+
+div.body h1,
+div.body h2,
+div.body h3,
+div.body h4,
+div.body h5,
+div.body h6 {
+ font-family: 'Trebuchet MS', sans-serif;
+ background-color: #f2f2f2;
+ font-weight: normal;
+ color: #20435c;
+ border-bottom: 1px solid #ccc;
+ margin: 20px -20px 10px -20px;
+ padding: 3px 0 3px 10px;
+}
+
+div.body h1 { margin-top: 0; font-size: 200%; }
+div.body h2 { font-size: 160%; }
+div.body h3 { font-size: 140%; }
+div.body h4 { font-size: 120%; }
+div.body h5 { font-size: 110%; }
+div.body h6 { font-size: 100%; }
+
+a.headerlink {
+ color: #c60f0f;
+ font-size: 0.8em;
+ padding: 0 4px 0 4px;
+ text-decoration: none;
+}
+
+a.headerlink:hover {
+ background-color: #c60f0f;
+ color: white;
+}
+
+div.body p, div.body dd, div.body li {
+ text-align: justify;
+ line-height: 130%;
+}
+
+div.admonition p.admonition-title + p {
+ display: inline;
+}
+
+div.admonition p {
+ margin-bottom: 5px;
+}
+
+div.admonition pre {
+ margin-bottom: 5px;
+}
+
+div.admonition ul, div.admonition ol {
+ margin-bottom: 5px;
+}
+
+div.note {
+ background-color: #eee;
+ border: 1px solid #ccc;
+}
+
+div.seealso {
+ background-color: #ffc;
+ border: 1px solid #ff6;
+}
+
+div.topic {
+ background-color: #eee;
+}
+
+div.warning {
+ background-color: #ffe4e4;
+ border: 1px solid #f66;
+}
+
+p.admonition-title {
+ display: inline;
+}
+
+p.admonition-title:after {
+ content: ":";
+}
+
+pre {
+ padding: 5px;
+ background-color: #eeffcc;
+ color: #333333;
+ line-height: 120%;
+ border: 1px solid #ac9;
+ border-left: none;
+ border-right: none;
+}
+
+tt {
+ background-color: #ecf0f3;
+ padding: 0 1px 0 1px;
+ font-size: 0.95em;
+}
+
+th {
+ background-color: #ede;
+}
+
+.warning tt {
+ background: #efc2c2;
+}
+
+.note tt {
+ background: #d6d6d6;
+}
+
+.viewcode-back {
+ font-family: sans-serif;
+}
+
+div.viewcode-block:target {
+ background-color: #f4debf;
+ border-top: 1px solid #ac9;
+ border-bottom: 1px solid #ac9;
+} \ No newline at end of file
diff --git a/python/docSRC/_build/html/_static/doctools.js b/python/docSRC/_build/html/_static/doctools.js
new file mode 100644
index 0000000..c5455c9
--- /dev/null
+++ b/python/docSRC/_build/html/_static/doctools.js
@@ -0,0 +1,238 @@
+/*
+ * doctools.js
+ * ~~~~~~~~~~~
+ *
+ * Sphinx JavaScript utilities for all documentation.
+ *
+ * :copyright: Copyright 2007-2014 by the Sphinx team, see AUTHORS.
+ * :license: BSD, see LICENSE for details.
+ *
+ */
+
+/**
+ * select a different prefix for underscore
+ */
+$u = _.noConflict();
+
+/**
+ * make the code below compatible with browsers without
+ * an installed firebug like debugger
+if (!window.console || !console.firebug) {
+ var names = ["log", "debug", "info", "warn", "error", "assert", "dir",
+ "dirxml", "group", "groupEnd", "time", "timeEnd", "count", "trace",
+ "profile", "profileEnd"];
+ window.console = {};
+ for (var i = 0; i < names.length; ++i)
+ window.console[names[i]] = function() {};
+}
+ */
+
+/**
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+ */
+jQuery.urldecode = function(x) {
+ return decodeURIComponent(x).replace(/\+/g, ' ');
+};
+
+/**
+ * small helper function to urlencode strings
+ */
+jQuery.urlencode = encodeURIComponent;
+
+/**
+ * This function returns the parsed url parameters of the
+ * current request. Multiple values per key are supported,
+ * it will always return arrays of strings for the value parts.
+ */
+jQuery.getQueryParameters = function(s) {
+ if (typeof s == 'undefined')
+ s = document.location.search;
+ var parts = s.substr(s.indexOf('?') + 1).split('&');
+ var result = {};
+ for (var i = 0; i < parts.length; i++) {
+ var tmp = parts[i].split('=', 2);
+ var key = jQuery.urldecode(tmp[0]);
+ var value = jQuery.urldecode(tmp[1]);
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+ result[key].push(value);
+ else
+ result[key] = [value];
+ }
+ return result;
+};
+
+/**
+ * highlight a given string on a jquery object by wrapping it in
+ * span elements with the given class name.
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+ function highlight(node) {
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+ var val = node.nodeValue;
+ var pos = val.toLowerCase().indexOf(text);
+ if (pos >= 0 && !jQuery(node.parentNode).hasClass(className)) {
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+ }
+ }
+ else if (!jQuery(node).is("button, select, textarea")) {
+ jQuery.each(node.childNodes, function() {
+ highlight(this);
+ });
+ }
+ }
+ return this.each(function() {
+ highlight(this);
+ });
+};
+
+/**
+ * Small JavaScript module for the documentation.
+ */
+var Documentation = {
+
+ init : function() {
+ this.fixFirefoxAnchorBug();
+ this.highlightSearchWords();
+ this.initIndexTable();
+ },
+
+ /**
+ * i18n support
+ */
+ TRANSLATIONS : {},
+ PLURAL_EXPR : function(n) { return n == 1 ? 0 : 1; },
+ LOCALE : 'unknown',
+
+ // gettext and ngettext don't access this so that the functions
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+ gettext : function(string) {
+ var translated = Documentation.TRANSLATIONS[string];
+ if (typeof translated == 'undefined')
+ return string;
+ return (typeof translated == 'string') ? translated : translated[0];
+ },
+
+ ngettext : function(singular, plural, n) {
+ var translated = Documentation.TRANSLATIONS[singular];
+ if (typeof translated == 'undefined')
+ return (n == 1) ? singular : plural;
+ return translated[Documentation.PLURALEXPR(n)];
+ },
+
+ addTranslations : function(catalog) {
+ for (var key in catalog.messages)
+ this.TRANSLATIONS[key] = catalog.messages[key];
+ this.PLURAL_EXPR = new Function('n', 'return +(' + catalog.plural_expr + ')');
+ this.LOCALE = catalog.locale;
+ },
+
+ /**
+ * add context elements like header anchor links
+ */
+ addContextElements : function() {
+ $('div[id] > :header:first').each(function() {
+ $('<a class="headerlink">\u00B6</a>').
+ attr('href', '#' + this.id).
+ attr('title', _('Permalink to this headline')).
+ appendTo(this);
+ });
+ $('dt[id]').each(function() {
+ $('<a class="headerlink">\u00B6</a>').
+ attr('href', '#' + this.id).
+ attr('title', _('Permalink to this definition')).
+ appendTo(this);
+ });
+ },
+
+ /**
+ * workaround a firefox stupidity
+ */
+ fixFirefoxAnchorBug : function() {
+ if (document.location.hash && $.browser.mozilla)
+ window.setTimeout(function() {
+ document.location.href += '';
+ }, 10);
+ },
+
+ /**
+ * highlight the search words provided in the url in the text
+ */
+ highlightSearchWords : function() {
+ var params = $.getQueryParameters();
+ var terms = (params.highlight) ? params.highlight[0].split(/\s+/) : [];
+ if (terms.length) {
+ var body = $('div.body');
+ if (!body.length) {
+ body = $('body');
+ }
+ window.setTimeout(function() {
+ $.each(terms, function() {
+ body.highlightText(this.toLowerCase(), 'highlighted');
+ });
+ }, 10);
+ $('<p class="highlight-link"><a href="javascript:Documentation.' +
+ 'hideSearchWords()">' + _('Hide Search Matches') + '</a></p>')
+ .appendTo($('#searchbox'));
+ }
+ },
+
+ /**
+ * init the domain index toggle buttons
+ */
+ initIndexTable : function() {
+ var togglers = $('img.toggler').click(function() {
+ var src = $(this).attr('src');
+ var idnum = $(this).attr('id').substr(7);
+ $('tr.cg-' + idnum).toggle();
+ if (src.substr(-9) == 'minus.png')
+ $(this).attr('src', src.substr(0, src.length-9) + 'plus.png');
+ else
+ $(this).attr('src', src.substr(0, src.length-8) + 'minus.png');
+ }).css('display', '');
+ if (DOCUMENTATION_OPTIONS.COLLAPSE_INDEX) {
+ togglers.click();
+ }
+ },
+
+ /**
+ * helper function to hide the search marks again
+ */
+ hideSearchWords : function() {
+ $('#searchbox .highlight-link').fadeOut(300);
+ $('span.highlighted').removeClass('highlighted');
+ },
+
+ /**
+ * make the url absolute
+ */
+ makeURL : function(relativeURL) {
+ return DOCUMENTATION_OPTIONS.URL_ROOT + '/' + relativeURL;
+ },
+
+ /**
+ * get the current relative url
+ */
+ getCurrentURL : function() {
+ var path = document.location.pathname;
+ var parts = path.split(/\//);
+ $.each(DOCUMENTATION_OPTIONS.URL_ROOT.split(/\//), function() {
+ if (this == '..')
+ parts.pop();
+ });
+ var url = parts.join('/');
+ return path.substring(url.lastIndexOf('/') + 1, path.length - 1);
+ }
+};
+
+// quick alias for translations
+_ = Documentation.gettext;
+
+$(document).ready(function() {
+ Documentation.init();
+});
diff --git a/python/docSRC/_build/html/_static/down-pressed.png b/python/docSRC/_build/html/_static/down-pressed.png
new file mode 100644
index 0000000..6f7ad78
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Binary files differ
diff --git a/python/docSRC/_build/html/_static/down.png b/python/docSRC/_build/html/_static/down.png
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diff --git a/python/docSRC/_build/html/_static/file.png b/python/docSRC/_build/html/_static/file.png
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diff --git a/python/docSRC/_build/html/_static/jquery.js b/python/docSRC/_build/html/_static/jquery.js
new file mode 100644
index 0000000..83589da
--- /dev/null
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+.highlight { background: #eeffcc; }
+.highlight .c { color: #408090; font-style: italic } /* Comment */
+.highlight .err { border: 1px solid #FF0000 } /* Error */
+.highlight .k { color: #007020; font-weight: bold } /* Keyword */
+.highlight .o { color: #666666 } /* Operator */
+.highlight .cm { color: #408090; font-style: italic } /* Comment.Multiline */
+.highlight .cp { color: #007020 } /* Comment.Preproc */
+.highlight .c1 { color: #408090; font-style: italic } /* Comment.Single */
+.highlight .cs { color: #408090; background-color: #fff0f0 } /* Comment.Special */
+.highlight .gd { color: #A00000 } /* Generic.Deleted */
+.highlight .ge { font-style: italic } /* Generic.Emph */
+.highlight .gr { color: #FF0000 } /* Generic.Error */
+.highlight .gh { color: #000080; font-weight: bold } /* Generic.Heading */
+.highlight .gi { color: #00A000 } /* Generic.Inserted */
+.highlight .go { color: #333333 } /* Generic.Output */
+.highlight .gp { color: #c65d09; font-weight: bold } /* Generic.Prompt */
+.highlight .gs { font-weight: bold } /* Generic.Strong */
+.highlight .gu { color: #800080; font-weight: bold } /* Generic.Subheading */
+.highlight .gt { color: #0044DD } /* Generic.Traceback */
+.highlight .kc { color: #007020; font-weight: bold } /* Keyword.Constant */
+.highlight .kd { color: #007020; font-weight: bold } /* Keyword.Declaration */
+.highlight .kn { color: #007020; font-weight: bold } /* Keyword.Namespace */
+.highlight .kp { color: #007020 } /* Keyword.Pseudo */
+.highlight .kr { color: #007020; font-weight: bold } /* Keyword.Reserved */
+.highlight .kt { color: #902000 } /* Keyword.Type */
+.highlight .m { color: #208050 } /* Literal.Number */
+.highlight .s { color: #4070a0 } /* Literal.String */
+.highlight .na { color: #4070a0 } /* Name.Attribute */
+.highlight .nb { color: #007020 } /* Name.Builtin */
+.highlight .nc { color: #0e84b5; font-weight: bold } /* Name.Class */
+.highlight .no { color: #60add5 } /* Name.Constant */
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+.highlight .ni { color: #d55537; font-weight: bold } /* Name.Entity */
+.highlight .ne { color: #007020 } /* Name.Exception */
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+.highlight .nl { color: #002070; font-weight: bold } /* Name.Label */
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+.highlight .nt { color: #062873; font-weight: bold } /* Name.Tag */
+.highlight .nv { color: #bb60d5 } /* Name.Variable */
+.highlight .ow { color: #007020; font-weight: bold } /* Operator.Word */
+.highlight .w { color: #bbbbbb } /* Text.Whitespace */
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+.highlight .mh { color: #208050 } /* Literal.Number.Hex */
+.highlight .mi { color: #208050 } /* Literal.Number.Integer */
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index 0000000..6e1f06b
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+/*
+ * searchtools.js_t
+ * ~~~~~~~~~~~~~~~~
+ *
+ * Sphinx JavaScript utilties for the full-text search.
+ *
+ * :copyright: Copyright 2007-2014 by the Sphinx team, see AUTHORS.
+ * :license: BSD, see LICENSE for details.
+ *
+ */
+
+
+/**
+ * Porter Stemmer
+ */
+var Stemmer = function() {
+
+ var step2list = {
+ ational: 'ate',
+ tional: 'tion',
+ enci: 'ence',
+ anci: 'ance',
+ izer: 'ize',
+ bli: 'ble',
+ alli: 'al',
+ entli: 'ent',
+ eli: 'e',
+ ousli: 'ous',
+ ization: 'ize',
+ ation: 'ate',
+ ator: 'ate',
+ alism: 'al',
+ iveness: 'ive',
+ fulness: 'ful',
+ ousness: 'ous',
+ aliti: 'al',
+ iviti: 'ive',
+ biliti: 'ble',
+ logi: 'log'
+ };
+
+ var step3list = {
+ icate: 'ic',
+ ative: '',
+ alize: 'al',
+ iciti: 'ic',
+ ical: 'ic',
+ ful: '',
+ ness: ''
+ };
+
+ var c = "[^aeiou]"; // consonant
+ var v = "[aeiouy]"; // vowel
+ var C = c + "[^aeiouy]*"; // consonant sequence
+ var V = v + "[aeiou]*"; // vowel sequence
+
+ var mgr0 = "^(" + C + ")?" + V + C; // [C]VC... is m>0
+ var meq1 = "^(" + C + ")?" + V + C + "(" + V + ")?$"; // [C]VC[V] is m=1
+ var mgr1 = "^(" + C + ")?" + V + C + V + C; // [C]VCVC... is m>1
+ var s_v = "^(" + C + ")?" + v; // vowel in stem
+
+ this.stemWord = function (w) {
+ var stem;
+ var suffix;
+ var firstch;
+ var origword = w;
+
+ if (w.length < 3)
+ return w;
+
+ var re;
+ var re2;
+ var re3;
+ var re4;
+
+ firstch = w.substr(0,1);
+ if (firstch == "y")
+ w = firstch.toUpperCase() + w.substr(1);
+
+ // Step 1a
+ re = /^(.+?)(ss|i)es$/;
+ re2 = /^(.+?)([^s])s$/;
+
+ if (re.test(w))
+ w = w.replace(re,"$1$2");
+ else if (re2.test(w))
+ w = w.replace(re2,"$1$2");
+
+ // Step 1b
+ re = /^(.+?)eed$/;
+ re2 = /^(.+?)(ed|ing)$/;
+ if (re.test(w)) {
+ var fp = re.exec(w);
+ re = new RegExp(mgr0);
+ if (re.test(fp[1])) {
+ re = /.$/;
+ w = w.replace(re,"");
+ }
+ }
+ else if (re2.test(w)) {
+ var fp = re2.exec(w);
+ stem = fp[1];
+ re2 = new RegExp(s_v);
+ if (re2.test(stem)) {
+ w = stem;
+ re2 = /(at|bl|iz)$/;
+ re3 = new RegExp("([^aeiouylsz])\\1$");
+ re4 = new RegExp("^" + C + v + "[^aeiouwxy]$");
+ if (re2.test(w))
+ w = w + "e";
+ else if (re3.test(w)) {
+ re = /.$/;
+ w = w.replace(re,"");
+ }
+ else if (re4.test(w))
+ w = w + "e";
+ }
+ }
+
+ // Step 1c
+ re = /^(.+?)y$/;
+ if (re.test(w)) {
+ var fp = re.exec(w);
+ stem = fp[1];
+ re = new RegExp(s_v);
+ if (re.test(stem))
+ w = stem + "i";
+ }
+
+ // Step 2
+ re = /^(.+?)(ational|tional|enci|anci|izer|bli|alli|entli|eli|ousli|ization|ation|ator|alism|iveness|fulness|ousness|aliti|iviti|biliti|logi)$/;
+ if (re.test(w)) {
+ var fp = re.exec(w);
+ stem = fp[1];
+ suffix = fp[2];
+ re = new RegExp(mgr0);
+ if (re.test(stem))
+ w = stem + step2list[suffix];
+ }
+
+ // Step 3
+ re = /^(.+?)(icate|ative|alize|iciti|ical|ful|ness)$/;
+ if (re.test(w)) {
+ var fp = re.exec(w);
+ stem = fp[1];
+ suffix = fp[2];
+ re = new RegExp(mgr0);
+ if (re.test(stem))
+ w = stem + step3list[suffix];
+ }
+
+ // Step 4
+ re = /^(.+?)(al|ance|ence|er|ic|able|ible|ant|ement|ment|ent|ou|ism|ate|iti|ous|ive|ize)$/;
+ re2 = /^(.+?)(s|t)(ion)$/;
+ if (re.test(w)) {
+ var fp = re.exec(w);
+ stem = fp[1];
+ re = new RegExp(mgr1);
+ if (re.test(stem))
+ w = stem;
+ }
+ else if (re2.test(w)) {
+ var fp = re2.exec(w);
+ stem = fp[1] + fp[2];
+ re2 = new RegExp(mgr1);
+ if (re2.test(stem))
+ w = stem;
+ }
+
+ // Step 5
+ re = /^(.+?)e$/;
+ if (re.test(w)) {
+ var fp = re.exec(w);
+ stem = fp[1];
+ re = new RegExp(mgr1);
+ re2 = new RegExp(meq1);
+ re3 = new RegExp("^" + C + v + "[^aeiouwxy]$");
+ if (re.test(stem) || (re2.test(stem) && !(re3.test(stem))))
+ w = stem;
+ }
+ re = /ll$/;
+ re2 = new RegExp(mgr1);
+ if (re.test(w) && re2.test(w)) {
+ re = /.$/;
+ w = w.replace(re,"");
+ }
+
+ // and turn initial Y back to y
+ if (firstch == "y")
+ w = firstch.toLowerCase() + w.substr(1);
+ return w;
+ }
+}
+
+
+
+/**
+ * Simple result scoring code.
+ */
+var Scorer = {
+ // Implement the following function to further tweak the score for each result
+ // The function takes a result array [filename, title, anchor, descr, score]
+ // and returns the new score.
+ /*
+ score: function(result) {
+ return result[4];
+ },
+ */
+
+ // query matches the full name of an object
+ objNameMatch: 11,
+ // or matches in the last dotted part of the object name
+ objPartialMatch: 6,
+ // Additive scores depending on the priority of the object
+ objPrio: {0: 15, // used to be importantResults
+ 1: 5, // used to be objectResults
+ 2: -5}, // used to be unimportantResults
+ // Used when the priority is not in the mapping.
+ objPrioDefault: 0,
+
+ // query found in title
+ title: 15,
+ // query found in terms
+ term: 5
+};
+
+
+/**
+ * Search Module
+ */
+var Search = {
+
+ _index : null,
+ _queued_query : null,
+ _pulse_status : -1,
+
+ init : function() {
+ var params = $.getQueryParameters();
+ if (params.q) {
+ var query = params.q[0];
+ $('input[name="q"]')[0].value = query;
+ this.performSearch(query);
+ }
+ },
+
+ loadIndex : function(url) {
+ $.ajax({type: "GET", url: url, data: null,
+ dataType: "script", cache: true,
+ complete: function(jqxhr, textstatus) {
+ if (textstatus != "success") {
+ document.getElementById("searchindexloader").src = url;
+ }
+ }});
+ },
+
+ setIndex : function(index) {
+ var q;
+ this._index = index;
+ if ((q = this._queued_query) !== null) {
+ this._queued_query = null;
+ Search.query(q);
+ }
+ },
+
+ hasIndex : function() {
+ return this._index !== null;
+ },
+
+ deferQuery : function(query) {
+ this._queued_query = query;
+ },
+
+ stopPulse : function() {
+ this._pulse_status = 0;
+ },
+
+ startPulse : function() {
+ if (this._pulse_status >= 0)
+ return;
+ function pulse() {
+ var i;
+ Search._pulse_status = (Search._pulse_status + 1) % 4;
+ var dotString = '';
+ for (i = 0; i < Search._pulse_status; i++)
+ dotString += '.';
+ Search.dots.text(dotString);
+ if (Search._pulse_status > -1)
+ window.setTimeout(pulse, 500);
+ }
+ pulse();
+ },
+
+ /**
+ * perform a search for something (or wait until index is loaded)
+ */
+ performSearch : function(query) {
+ // create the required interface elements
+ this.out = $('#search-results');
+ this.title = $('<h2>' + _('Searching') + '</h2>').appendTo(this.out);
+ this.dots = $('<span></span>').appendTo(this.title);
+ this.status = $('<p style="display: none"></p>').appendTo(this.out);
+ this.output = $('<ul class="search"/>').appendTo(this.out);
+
+ $('#search-progress').text(_('Preparing search...'));
+ this.startPulse();
+
+ // index already loaded, the browser was quick!
+ if (this.hasIndex())
+ this.query(query);
+ else
+ this.deferQuery(query);
+ },
+
+ /**
+ * execute search (requires search index to be loaded)
+ */
+ query : function(query) {
+ var i;
+ var stopwords = ["a","and","are","as","at","be","but","by","for","if","in","into","is","it","near","no","not","of","on","or","such","that","the","their","then","there","these","they","this","to","was","will","with"];
+
+ // stem the searchterms and add them to the correct list
+ var stemmer = new Stemmer();
+ var searchterms = [];
+ var excluded = [];
+ var hlterms = [];
+ var tmp = query.split(/\s+/);
+ var objectterms = [];
+ for (i = 0; i < tmp.length; i++) {
+ if (tmp[i] !== "") {
+ objectterms.push(tmp[i].toLowerCase());
+ }
+
+ if ($u.indexOf(stopwords, tmp[i].toLowerCase()) != -1 || tmp[i].match(/^\d+$/) ||
+ tmp[i] === "") {
+ // skip this "word"
+ continue;
+ }
+ // stem the word
+ var word = stemmer.stemWord(tmp[i].toLowerCase());
+ var toAppend;
+ // select the correct list
+ if (word[0] == '-') {
+ toAppend = excluded;
+ word = word.substr(1);
+ }
+ else {
+ toAppend = searchterms;
+ hlterms.push(tmp[i].toLowerCase());
+ }
+ // only add if not already in the list
+ if (!$u.contains(toAppend, word))
+ toAppend.push(word);
+ }
+ var highlightstring = '?highlight=' + $.urlencode(hlterms.join(" "));
+
+ // console.debug('SEARCH: searching for:');
+ // console.info('required: ', searchterms);
+ // console.info('excluded: ', excluded);
+
+ // prepare search
+ var terms = this._index.terms;
+ var titleterms = this._index.titleterms;
+
+ // array of [filename, title, anchor, descr, score]
+ var results = [];
+ $('#search-progress').empty();
+
+ // lookup as object
+ for (i = 0; i < objectterms.length; i++) {
+ var others = [].concat(objectterms.slice(0, i),
+ objectterms.slice(i+1, objectterms.length));
+ results = results.concat(this.performObjectSearch(objectterms[i], others));
+ }
+
+ // lookup as search terms in fulltext
+ results = results.concat(this.performTermsSearch(searchterms, excluded, terms, Scorer.term))
+ .concat(this.performTermsSearch(searchterms, excluded, titleterms, Scorer.title));
+
+ // let the scorer override scores with a custom scoring function
+ if (Scorer.score) {
+ for (i = 0; i < results.length; i++)
+ results[i][4] = Scorer.score(results[i]);
+ }
+
+ // now sort the results by score (in opposite order of appearance, since the
+ // display function below uses pop() to retrieve items) and then
+ // alphabetically
+ results.sort(function(a, b) {
+ var left = a[4];
+ var right = b[4];
+ if (left > right) {
+ return 1;
+ } else if (left < right) {
+ return -1;
+ } else {
+ // same score: sort alphabetically
+ left = a[1].toLowerCase();
+ right = b[1].toLowerCase();
+ return (left > right) ? -1 : ((left < right) ? 1 : 0);
+ }
+ });
+
+ // for debugging
+ //Search.lastresults = results.slice(); // a copy
+ //console.info('search results:', Search.lastresults);
+
+ // print the results
+ var resultCount = results.length;
+ function displayNextItem() {
+ // results left, load the summary and display it
+ if (results.length) {
+ var item = results.pop();
+ var listItem = $('<li style="display:none"></li>');
+ if (DOCUMENTATION_OPTIONS.FILE_SUFFIX === '') {
+ // dirhtml builder
+ var dirname = item[0] + '/';
+ if (dirname.match(/\/index\/$/)) {
+ dirname = dirname.substring(0, dirname.length-6);
+ } else if (dirname == 'index/') {
+ dirname = '';
+ }
+ listItem.append($('<a/>').attr('href',
+ DOCUMENTATION_OPTIONS.URL_ROOT + dirname +
+ highlightstring + item[2]).html(item[1]));
+ } else {
+ // normal html builders
+ listItem.append($('<a/>').attr('href',
+ item[0] + DOCUMENTATION_OPTIONS.FILE_SUFFIX +
+ highlightstring + item[2]).html(item[1]));
+ }
+ if (item[3]) {
+ listItem.append($('<span> (' + item[3] + ')</span>'));
+ Search.output.append(listItem);
+ listItem.slideDown(5, function() {
+ displayNextItem();
+ });
+ } else if (DOCUMENTATION_OPTIONS.HAS_SOURCE) {
+ $.ajax({url: DOCUMENTATION_OPTIONS.URL_ROOT + '_sources/' + item[0] + '.txt',
+ dataType: "text",
+ complete: function(jqxhr, textstatus) {
+ var data = jqxhr.responseText;
+ if (data !== '') {
+ listItem.append(Search.makeSearchSummary(data, searchterms, hlterms));
+ }
+ Search.output.append(listItem);
+ listItem.slideDown(5, function() {
+ displayNextItem();
+ });
+ }});
+ } else {
+ // no source available, just display title
+ Search.output.append(listItem);
+ listItem.slideDown(5, function() {
+ displayNextItem();
+ });
+ }
+ }
+ // search finished, update title and status message
+ else {
+ Search.stopPulse();
+ Search.title.text(_('Search Results'));
+ if (!resultCount)
+ Search.status.text(_('Your search did not match any documents. Please make sure that all words are spelled correctly and that you\'ve selected enough categories.'));
+ else
+ Search.status.text(_('Search finished, found %s page(s) matching the search query.').replace('%s', resultCount));
+ Search.status.fadeIn(500);
+ }
+ }
+ displayNextItem();
+ },
+
+ /**
+ * search for object names
+ */
+ performObjectSearch : function(object, otherterms) {
+ var filenames = this._index.filenames;
+ var objects = this._index.objects;
+ var objnames = this._index.objnames;
+ var titles = this._index.titles;
+
+ var i;
+ var results = [];
+
+ for (var prefix in objects) {
+ for (var name in objects[prefix]) {
+ var fullname = (prefix ? prefix + '.' : '') + name;
+ if (fullname.toLowerCase().indexOf(object) > -1) {
+ var score = 0;
+ var parts = fullname.split('.');
+ // check for different match types: exact matches of full name or
+ // "last name" (i.e. last dotted part)
+ if (fullname == object || parts[parts.length - 1] == object) {
+ score += Scorer.objNameMatch;
+ // matches in last name
+ } else if (parts[parts.length - 1].indexOf(object) > -1) {
+ score += Scorer.objPartialMatch;
+ }
+ var match = objects[prefix][name];
+ var objname = objnames[match[1]][2];
+ var title = titles[match[0]];
+ // If more than one term searched for, we require other words to be
+ // found in the name/title/description
+ if (otherterms.length > 0) {
+ var haystack = (prefix + ' ' + name + ' ' +
+ objname + ' ' + title).toLowerCase();
+ var allfound = true;
+ for (i = 0; i < otherterms.length; i++) {
+ if (haystack.indexOf(otherterms[i]) == -1) {
+ allfound = false;
+ break;
+ }
+ }
+ if (!allfound) {
+ continue;
+ }
+ }
+ var descr = objname + _(', in ') + title;
+
+ var anchor = match[3];
+ if (anchor === '')
+ anchor = fullname;
+ else if (anchor == '-')
+ anchor = objnames[match[1]][1] + '-' + fullname;
+ // add custom score for some objects according to scorer
+ if (Scorer.objPrio.hasOwnProperty(match[2])) {
+ score += Scorer.objPrio[match[2]];
+ } else {
+ score += Scorer.objPrioDefault;
+ }
+ results.push([filenames[match[0]], fullname, '#'+anchor, descr, score]);
+ }
+ }
+ }
+
+ return results;
+ },
+
+ /**
+ * search for full-text terms in the index
+ */
+ performTermsSearch : function(searchterms, excluded, terms, score) {
+ var filenames = this._index.filenames;
+ var titles = this._index.titles;
+
+ var i, j, file, files;
+ var fileMap = {};
+ var results = [];
+
+ // perform the search on the required terms
+ for (i = 0; i < searchterms.length; i++) {
+ var word = searchterms[i];
+ // no match but word was a required one
+ if ((files = terms[word]) === undefined)
+ break;
+ if (files.length === undefined) {
+ files = [files];
+ }
+ // create the mapping
+ for (j = 0; j < files.length; j++) {
+ file = files[j];
+ if (file in fileMap)
+ fileMap[file].push(word);
+ else
+ fileMap[file] = [word];
+ }
+ }
+
+ // now check if the files don't contain excluded terms
+ for (file in fileMap) {
+ var valid = true;
+
+ // check if all requirements are matched
+ if (fileMap[file].length != searchterms.length)
+ continue;
+
+ // ensure that none of the excluded terms is in the search result
+ for (i = 0; i < excluded.length; i++) {
+ if (terms[excluded[i]] == file ||
+ $u.contains(terms[excluded[i]] || [], file)) {
+ valid = false;
+ break;
+ }
+ }
+
+ // if we have still a valid result we can add it to the result list
+ if (valid) {
+ results.push([filenames[file], titles[file], '', null, score]);
+ }
+ }
+ return results;
+ },
+
+ /**
+ * helper function to return a node containing the
+ * search summary for a given text. keywords is a list
+ * of stemmed words, hlwords is the list of normal, unstemmed
+ * words. the first one is used to find the occurance, the
+ * latter for highlighting it.
+ */
+ makeSearchSummary : function(text, keywords, hlwords) {
+ var textLower = text.toLowerCase();
+ var start = 0;
+ $.each(keywords, function() {
+ var i = textLower.indexOf(this.toLowerCase());
+ if (i > -1)
+ start = i;
+ });
+ start = Math.max(start - 120, 0);
+ var excerpt = ((start > 0) ? '...' : '') +
+ $.trim(text.substr(start, 240)) +
+ ((start + 240 - text.length) ? '...' : '');
+ var rv = $('<div class="context"></div>').text(excerpt);
+ $.each(hlwords, function() {
+ rv = rv.highlightText(this, 'highlighted');
+ });
+ return rv;
+ }
+};
+
+$(document).ready(function() {
+ Search.init();
+}); \ No newline at end of file
diff --git a/python/docSRC/_build/html/_static/sidebar.js b/python/docSRC/_build/html/_static/sidebar.js
new file mode 100644
index 0000000..4f09a0d
--- /dev/null
+++ b/python/docSRC/_build/html/_static/sidebar.js
@@ -0,0 +1,159 @@
+/*
+ * sidebar.js
+ * ~~~~~~~~~~
+ *
+ * This script makes the Sphinx sidebar collapsible.
+ *
+ * .sphinxsidebar contains .sphinxsidebarwrapper. This script adds
+ * in .sphixsidebar, after .sphinxsidebarwrapper, the #sidebarbutton
+ * used to collapse and expand the sidebar.
+ *
+ * When the sidebar is collapsed the .sphinxsidebarwrapper is hidden
+ * and the width of the sidebar and the margin-left of the document
+ * are decreased. When the sidebar is expanded the opposite happens.
+ * This script saves a per-browser/per-session cookie used to
+ * remember the position of the sidebar among the pages.
+ * Once the browser is closed the cookie is deleted and the position
+ * reset to the default (expanded).
+ *
+ * :copyright: Copyright 2007-2014 by the Sphinx team, see AUTHORS.
+ * :license: BSD, see LICENSE for details.
+ *
+ */
+
+$(function() {
+
+
+
+
+
+
+
+
+ // global elements used by the functions.
+ // the 'sidebarbutton' element is defined as global after its
+ // creation, in the add_sidebar_button function
+ var bodywrapper = $('.bodywrapper');
+ var sidebar = $('.sphinxsidebar');
+ var sidebarwrapper = $('.sphinxsidebarwrapper');
+
+ // for some reason, the document has no sidebar; do not run into errors
+ if (!sidebar.length) return;
+
+ // original margin-left of the bodywrapper and width of the sidebar
+ // with the sidebar expanded
+ var bw_margin_expanded = bodywrapper.css('margin-left');
+ var ssb_width_expanded = sidebar.width();
+
+ // margin-left of the bodywrapper and width of the sidebar
+ // with the sidebar collapsed
+ var bw_margin_collapsed = '.8em';
+ var ssb_width_collapsed = '.8em';
+
+ // colors used by the current theme
+ var dark_color = $('.related').css('background-color');
+ var light_color = $('.document').css('background-color');
+
+ function sidebar_is_collapsed() {
+ return sidebarwrapper.is(':not(:visible)');
+ }
+
+ function toggle_sidebar() {
+ if (sidebar_is_collapsed())
+ expand_sidebar();
+ else
+ collapse_sidebar();
+ }
+
+ function collapse_sidebar() {
+ sidebarwrapper.hide();
+ sidebar.css('width', ssb_width_collapsed);
+ bodywrapper.css('margin-left', bw_margin_collapsed);
+ sidebarbutton.css({
+ 'margin-left': '0',
+ 'height': bodywrapper.height()
+ });
+ sidebarbutton.find('span').text('»');
+ sidebarbutton.attr('title', _('Expand sidebar'));
+ document.cookie = 'sidebar=collapsed';
+ }
+
+ function expand_sidebar() {
+ bodywrapper.css('margin-left', bw_margin_expanded);
+ sidebar.css('width', ssb_width_expanded);
+ sidebarwrapper.show();
+ sidebarbutton.css({
+ 'margin-left': ssb_width_expanded-12,
+ 'height': bodywrapper.height()
+ });
+ sidebarbutton.find('span').text('«');
+ sidebarbutton.attr('title', _('Collapse sidebar'));
+ document.cookie = 'sidebar=expanded';
+ }
+
+ function add_sidebar_button() {
+ sidebarwrapper.css({
+ 'float': 'left',
+ 'margin-right': '0',
+ 'width': ssb_width_expanded - 28
+ });
+ // create the button
+ sidebar.append(
+ '<div id="sidebarbutton"><span>&laquo;</span></div>'
+ );
+ var sidebarbutton = $('#sidebarbutton');
+ light_color = sidebarbutton.css('background-color');
+ // find the height of the viewport to center the '<<' in the page
+ var viewport_height;
+ if (window.innerHeight)
+ viewport_height = window.innerHeight;
+ else
+ viewport_height = $(window).height();
+ sidebarbutton.find('span').css({
+ 'display': 'block',
+ 'margin-top': (viewport_height - sidebar.position().top - 20) / 2
+ });
+
+ sidebarbutton.click(toggle_sidebar);
+ sidebarbutton.attr('title', _('Collapse sidebar'));
+ sidebarbutton.css({
+ 'color': '#FFFFFF',
+ 'border-left': '1px solid ' + dark_color,
+ 'font-size': '1.2em',
+ 'cursor': 'pointer',
+ 'height': bodywrapper.height(),
+ 'padding-top': '1px',
+ 'margin-left': ssb_width_expanded - 12
+ });
+
+ sidebarbutton.hover(
+ function () {
+ $(this).css('background-color', dark_color);
+ },
+ function () {
+ $(this).css('background-color', light_color);
+ }
+ );
+ }
+
+ function set_position_from_cookie() {
+ if (!document.cookie)
+ return;
+ var items = document.cookie.split(';');
+ for(var k=0; k<items.length; k++) {
+ var key_val = items[k].split('=');
+ var key = key_val[0].replace(/ /, ""); // strip leading spaces
+ if (key == 'sidebar') {
+ var value = key_val[1];
+ if ((value == 'collapsed') && (!sidebar_is_collapsed()))
+ collapse_sidebar();
+ else if ((value == 'expanded') && (sidebar_is_collapsed()))
+ expand_sidebar();
+ }
+ }
+ }
+
+ add_sidebar_button();
+ var sidebarbutton = $('#sidebarbutton');
+ set_position_from_cookie();
+}); \ No newline at end of file
diff --git a/python/docSRC/_build/html/_static/underscore.js b/python/docSRC/_build/html/_static/underscore.js
new file mode 100644
index 0000000..5b55f32
--- /dev/null
+++ b/python/docSRC/_build/html/_static/underscore.js
@@ -0,0 +1,31 @@
+// Underscore.js 1.3.1
+// (c) 2009-2012 Jeremy Ashkenas, DocumentCloud Inc.
+// Underscore is freely distributable under the MIT license.
+// Portions of Underscore are inspired or borrowed from Prototype,
+// Oliver Steele's Functional, and John Resig's Micro-Templating.
+// For all details and documentation:
+// http://documentcloud.github.com/underscore
+(function(){function q(a,c,d){if(a===c)return a!==0||1/a==1/c;if(a==null||c==null)return a===c;if(a._chain)a=a._wrapped;if(c._chain)c=c._wrapped;if(a.isEqual&&b.isFunction(a.isEqual))return a.isEqual(c);if(c.isEqual&&b.isFunction(c.isEqual))return c.isEqual(a);var e=l.call(a);if(e!=l.call(c))return false;switch(e){case "[object String]":return a==String(c);case "[object Number]":return a!=+a?c!=+c:a==0?1/a==1/c:a==+c;case "[object Date]":case "[object Boolean]":return+a==+c;case "[object RegExp]":return a.source==
+c.source&&a.global==c.global&&a.multiline==c.multiline&&a.ignoreCase==c.ignoreCase}if(typeof a!="object"||typeof c!="object")return false;for(var f=d.length;f--;)if(d[f]==a)return true;d.push(a);var f=0,g=true;if(e=="[object Array]"){if(f=a.length,g=f==c.length)for(;f--;)if(!(g=f in a==f in c&&q(a[f],c[f],d)))break}else{if("constructor"in a!="constructor"in c||a.constructor!=c.constructor)return false;for(var h in a)if(b.has(a,h)&&(f++,!(g=b.has(c,h)&&q(a[h],c[h],d))))break;if(g){for(h in c)if(b.has(c,
+h)&&!f--)break;g=!f}}d.pop();return g}var r=this,G=r._,n={},k=Array.prototype,o=Object.prototype,i=k.slice,H=k.unshift,l=o.toString,I=o.hasOwnProperty,w=k.forEach,x=k.map,y=k.reduce,z=k.reduceRight,A=k.filter,B=k.every,C=k.some,p=k.indexOf,D=k.lastIndexOf,o=Array.isArray,J=Object.keys,s=Function.prototype.bind,b=function(a){return new m(a)};if(typeof exports!=="undefined"){if(typeof module!=="undefined"&&module.exports)exports=module.exports=b;exports._=b}else r._=b;b.VERSION="1.3.1";var j=b.each=
+b.forEach=function(a,c,d){if(a!=null)if(w&&a.forEach===w)a.forEach(c,d);else if(a.length===+a.length)for(var e=0,f=a.length;e<f;e++){if(e in a&&c.call(d,a[e],e,a)===n)break}else for(e in a)if(b.has(a,e)&&c.call(d,a[e],e,a)===n)break};b.map=b.collect=function(a,c,b){var e=[];if(a==null)return e;if(x&&a.map===x)return a.map(c,b);j(a,function(a,g,h){e[e.length]=c.call(b,a,g,h)});if(a.length===+a.length)e.length=a.length;return e};b.reduce=b.foldl=b.inject=function(a,c,d,e){var f=arguments.length>2;a==
+null&&(a=[]);if(y&&a.reduce===y)return e&&(c=b.bind(c,e)),f?a.reduce(c,d):a.reduce(c);j(a,function(a,b,i){f?d=c.call(e,d,a,b,i):(d=a,f=true)});if(!f)throw new TypeError("Reduce of empty array with no initial value");return d};b.reduceRight=b.foldr=function(a,c,d,e){var f=arguments.length>2;a==null&&(a=[]);if(z&&a.reduceRight===z)return e&&(c=b.bind(c,e)),f?a.reduceRight(c,d):a.reduceRight(c);var g=b.toArray(a).reverse();e&&!f&&(c=b.bind(c,e));return f?b.reduce(g,c,d,e):b.reduce(g,c)};b.find=b.detect=
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+var F=function(){};b.bind=function(a,c){var d,e;if(a.bind===s&&s)return s.apply(a,i.call(arguments,1));if(!b.isFunction(a))throw new TypeError;e=i.call(arguments,2);return d=function(){if(!(this instanceof d))return a.apply(c,e.concat(i.call(arguments)));F.prototype=a.prototype;var b=new F,g=a.apply(b,e.concat(i.call(arguments)));return Object(g)===g?g:b}};b.bindAll=function(a){var c=i.call(arguments,1);c.length==0&&(c=b.functions(a));j(c,function(c){a[c]=b.bind(a[c],a)});return a};b.memoize=function(a,
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+b.isRegExp=function(a){return l.call(a)=="[object RegExp]"};b.isNull=function(a){return a===null};b.isUndefined=function(a){return a===void 0};b.has=function(a,b){return I.call(a,b)};b.noConflict=function(){r._=G;return this};b.identity=function(a){return a};b.times=function(a,b,d){for(var e=0;e<a;e++)b.call(d,e)};b.escape=function(a){return(""+a).replace(/&/g,"&amp;").replace(/</g,"&lt;").replace(/>/g,"&gt;").replace(/"/g,"&quot;").replace(/'/g,"&#x27;").replace(/\//g,"&#x2F;")};b.mixin=function(a){j(b.functions(a),
+function(c){K(c,b[c]=a[c])})};var L=0;b.uniqueId=function(a){var b=L++;return a?a+b:b};b.templateSettings={evaluate:/<%([\s\S]+?)%>/g,interpolate:/<%=([\s\S]+?)%>/g,escape:/<%-([\s\S]+?)%>/g};var t=/.^/,u=function(a){return a.replace(/\\\\/g,"\\").replace(/\\'/g,"'")};b.template=function(a,c){var d=b.templateSettings,d="var __p=[],print=function(){__p.push.apply(__p,arguments);};with(obj||{}){__p.push('"+a.replace(/\\/g,"\\\\").replace(/'/g,"\\'").replace(d.escape||t,function(a,b){return"',_.escape("+
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diff --git a/python/docSRC/_build/html/_static/up-pressed.png b/python/docSRC/_build/html/_static/up-pressed.png
new file mode 100644
index 0000000..8bd587a
--- /dev/null
+++ b/python/docSRC/_build/html/_static/up-pressed.png
Binary files differ
diff --git a/python/docSRC/_build/html/_static/up.png b/python/docSRC/_build/html/_static/up.png
new file mode 100644
index 0000000..b946256
--- /dev/null
+++ b/python/docSRC/_build/html/_static/up.png
Binary files differ
diff --git a/python/docSRC/_build/html/_static/websupport.js b/python/docSRC/_build/html/_static/websupport.js
new file mode 100644
index 0000000..71c0a13
--- /dev/null
+++ b/python/docSRC/_build/html/_static/websupport.js
@@ -0,0 +1,808 @@
+/*
+ * websupport.js
+ * ~~~~~~~~~~~~~
+ *
+ * sphinx.websupport utilties for all documentation.
+ *
+ * :copyright: Copyright 2007-2014 by the Sphinx team, see AUTHORS.
+ * :license: BSD, see LICENSE for details.
+ *
+ */
+
+(function($) {
+ $.fn.autogrow = function() {
+ return this.each(function() {
+ var textarea = this;
+
+ $.fn.autogrow.resize(textarea);
+
+ $(textarea)
+ .focus(function() {
+ textarea.interval = setInterval(function() {
+ $.fn.autogrow.resize(textarea);
+ }, 500);
+ })
+ .blur(function() {
+ clearInterval(textarea.interval);
+ });
+ });
+ };
+
+ $.fn.autogrow.resize = function(textarea) {
+ var lineHeight = parseInt($(textarea).css('line-height'), 10);
+ var lines = textarea.value.split('\n');
+ var columns = textarea.cols;
+ var lineCount = 0;
+ $.each(lines, function() {
+ lineCount += Math.ceil(this.length / columns) || 1;
+ });
+ var height = lineHeight * (lineCount + 1);
+ $(textarea).css('height', height);
+ };
+})(jQuery);
+
+(function($) {
+ var comp, by;
+
+ function init() {
+ initEvents();
+ initComparator();
+ }
+
+ function initEvents() {
+ $('a.comment-close').live("click", function(event) {
+ event.preventDefault();
+ hide($(this).attr('id').substring(2));
+ });
+ $('a.vote').live("click", function(event) {
+ event.preventDefault();
+ handleVote($(this));
+ });
+ $('a.reply').live("click", function(event) {
+ event.preventDefault();
+ openReply($(this).attr('id').substring(2));
+ });
+ $('a.close-reply').live("click", function(event) {
+ event.preventDefault();
+ closeReply($(this).attr('id').substring(2));
+ });
+ $('a.sort-option').live("click", function(event) {
+ event.preventDefault();
+ handleReSort($(this));
+ });
+ $('a.show-proposal').live("click", function(event) {
+ event.preventDefault();
+ showProposal($(this).attr('id').substring(2));
+ });
+ $('a.hide-proposal').live("click", function(event) {
+ event.preventDefault();
+ hideProposal($(this).attr('id').substring(2));
+ });
+ $('a.show-propose-change').live("click", function(event) {
+ event.preventDefault();
+ showProposeChange($(this).attr('id').substring(2));
+ });
+ $('a.hide-propose-change').live("click", function(event) {
+ event.preventDefault();
+ hideProposeChange($(this).attr('id').substring(2));
+ });
+ $('a.accept-comment').live("click", function(event) {
+ event.preventDefault();
+ acceptComment($(this).attr('id').substring(2));
+ });
+ $('a.delete-comment').live("click", function(event) {
+ event.preventDefault();
+ deleteComment($(this).attr('id').substring(2));
+ });
+ $('a.comment-markup').live("click", function(event) {
+ event.preventDefault();
+ toggleCommentMarkupBox($(this).attr('id').substring(2));
+ });
+ }
+
+ /**
+ * Set comp, which is a comparator function used for sorting and
+ * inserting comments into the list.
+ */
+ function setComparator() {
+ // If the first three letters are "asc", sort in ascending order
+ // and remove the prefix.
+ if (by.substring(0,3) == 'asc') {
+ var i = by.substring(3);
+ comp = function(a, b) { return a[i] - b[i]; };
+ } else {
+ // Otherwise sort in descending order.
+ comp = function(a, b) { return b[by] - a[by]; };
+ }
+
+ // Reset link styles and format the selected sort option.
+ $('a.sel').attr('href', '#').removeClass('sel');
+ $('a.by' + by).removeAttr('href').addClass('sel');
+ }
+
+ /**
+ * Create a comp function. If the user has preferences stored in
+ * the sortBy cookie, use those, otherwise use the default.
+ */
+ function initComparator() {
+ by = 'rating'; // Default to sort by rating.
+ // If the sortBy cookie is set, use that instead.
+ if (document.cookie.length > 0) {
+ var start = document.cookie.indexOf('sortBy=');
+ if (start != -1) {
+ start = start + 7;
+ var end = document.cookie.indexOf(";", start);
+ if (end == -1) {
+ end = document.cookie.length;
+ by = unescape(document.cookie.substring(start, end));
+ }
+ }
+ }
+ setComparator();
+ }
+
+ /**
+ * Show a comment div.
+ */
+ function show(id) {
+ $('#ao' + id).hide();
+ $('#ah' + id).show();
+ var context = $.extend({id: id}, opts);
+ var popup = $(renderTemplate(popupTemplate, context)).hide();
+ popup.find('textarea[name="proposal"]').hide();
+ popup.find('a.by' + by).addClass('sel');
+ var form = popup.find('#cf' + id);
+ form.submit(function(event) {
+ event.preventDefault();
+ addComment(form);
+ });
+ $('#s' + id).after(popup);
+ popup.slideDown('fast', function() {
+ getComments(id);
+ });
+ }
+
+ /**
+ * Hide a comment div.
+ */
+ function hide(id) {
+ $('#ah' + id).hide();
+ $('#ao' + id).show();
+ var div = $('#sc' + id);
+ div.slideUp('fast', function() {
+ div.remove();
+ });
+ }
+
+ /**
+ * Perform an ajax request to get comments for a node
+ * and insert the comments into the comments tree.
+ */
+ function getComments(id) {
+ $.ajax({
+ type: 'GET',
+ url: opts.getCommentsURL,
+ data: {node: id},
+ success: function(data, textStatus, request) {
+ var ul = $('#cl' + id);
+ var speed = 100;
+ $('#cf' + id)
+ .find('textarea[name="proposal"]')
+ .data('source', data.source);
+
+ if (data.comments.length === 0) {
+ ul.html('<li>No comments yet.</li>');
+ ul.data('empty', true);
+ } else {
+ // If there are comments, sort them and put them in the list.
+ var comments = sortComments(data.comments);
+ speed = data.comments.length * 100;
+ appendComments(comments, ul);
+ ul.data('empty', false);
+ }
+ $('#cn' + id).slideUp(speed + 200);
+ ul.slideDown(speed);
+ },
+ error: function(request, textStatus, error) {
+ showError('Oops, there was a problem retrieving the comments.');
+ },
+ dataType: 'json'
+ });
+ }
+
+ /**
+ * Add a comment via ajax and insert the comment into the comment tree.
+ */
+ function addComment(form) {
+ var node_id = form.find('input[name="node"]').val();
+ var parent_id = form.find('input[name="parent"]').val();
+ var text = form.find('textarea[name="comment"]').val();
+ var proposal = form.find('textarea[name="proposal"]').val();
+
+ if (text == '') {
+ showError('Please enter a comment.');
+ return;
+ }
+
+ // Disable the form that is being submitted.
+ form.find('textarea,input').attr('disabled', 'disabled');
+
+ // Send the comment to the server.
+ $.ajax({
+ type: "POST",
+ url: opts.addCommentURL,
+ dataType: 'json',
+ data: {
+ node: node_id,
+ parent: parent_id,
+ text: text,
+ proposal: proposal
+ },
+ success: function(data, textStatus, error) {
+ // Reset the form.
+ if (node_id) {
+ hideProposeChange(node_id);
+ }
+ form.find('textarea')
+ .val('')
+ .add(form.find('input'))
+ .removeAttr('disabled');
+ var ul = $('#cl' + (node_id || parent_id));
+ if (ul.data('empty')) {
+ $(ul).empty();
+ ul.data('empty', false);
+ }
+ insertComment(data.comment);
+ var ao = $('#ao' + node_id);
+ ao.find('img').attr({'src': opts.commentBrightImage});
+ if (node_id) {
+ // if this was a "root" comment, remove the commenting box
+ // (the user can get it back by reopening the comment popup)
+ $('#ca' + node_id).slideUp();
+ }
+ },
+ error: function(request, textStatus, error) {
+ form.find('textarea,input').removeAttr('disabled');
+ showError('Oops, there was a problem adding the comment.');
+ }
+ });
+ }
+
+ /**
+ * Recursively append comments to the main comment list and children
+ * lists, creating the comment tree.
+ */
+ function appendComments(comments, ul) {
+ $.each(comments, function() {
+ var div = createCommentDiv(this);
+ ul.append($(document.createElement('li')).html(div));
+ appendComments(this.children, div.find('ul.comment-children'));
+ // To avoid stagnating data, don't store the comments children in data.
+ this.children = null;
+ div.data('comment', this);
+ });
+ }
+
+ /**
+ * After adding a new comment, it must be inserted in the correct
+ * location in the comment tree.
+ */
+ function insertComment(comment) {
+ var div = createCommentDiv(comment);
+
+ // To avoid stagnating data, don't store the comments children in data.
+ comment.children = null;
+ div.data('comment', comment);
+
+ var ul = $('#cl' + (comment.node || comment.parent));
+ var siblings = getChildren(ul);
+
+ var li = $(document.createElement('li'));
+ li.hide();
+
+ // Determine where in the parents children list to insert this comment.
+ for(i=0; i < siblings.length; i++) {
+ if (comp(comment, siblings[i]) <= 0) {
+ $('#cd' + siblings[i].id)
+ .parent()
+ .before(li.html(div));
+ li.slideDown('fast');
+ return;
+ }
+ }
+
+ // If we get here, this comment rates lower than all the others,
+ // or it is the only comment in the list.
+ ul.append(li.html(div));
+ li.slideDown('fast');
+ }
+
+ function acceptComment(id) {
+ $.ajax({
+ type: 'POST',
+ url: opts.acceptCommentURL,
+ data: {id: id},
+ success: function(data, textStatus, request) {
+ $('#cm' + id).fadeOut('fast');
+ $('#cd' + id).removeClass('moderate');
+ },
+ error: function(request, textStatus, error) {
+ showError('Oops, there was a problem accepting the comment.');
+ }
+ });
+ }
+
+ function deleteComment(id) {
+ $.ajax({
+ type: 'POST',
+ url: opts.deleteCommentURL,
+ data: {id: id},
+ success: function(data, textStatus, request) {
+ var div = $('#cd' + id);
+ if (data == 'delete') {
+ // Moderator mode: remove the comment and all children immediately
+ div.slideUp('fast', function() {
+ div.remove();
+ });
+ return;
+ }
+ // User mode: only mark the comment as deleted
+ div
+ .find('span.user-id:first')
+ .text('[deleted]').end()
+ .find('div.comment-text:first')
+ .text('[deleted]').end()
+ .find('#cm' + id + ', #dc' + id + ', #ac' + id + ', #rc' + id +
+ ', #sp' + id + ', #hp' + id + ', #cr' + id + ', #rl' + id)
+ .remove();
+ var comment = div.data('comment');
+ comment.username = '[deleted]';
+ comment.text = '[deleted]';
+ div.data('comment', comment);
+ },
+ error: function(request, textStatus, error) {
+ showError('Oops, there was a problem deleting the comment.');
+ }
+ });
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diff --git a/python/docSRC/_build/html/algorithm.html b/python/docSRC/_build/html/algorithm.html
new file mode 100644
index 0000000..bf4b90f
--- /dev/null
+++ b/python/docSRC/_build/html/algorithm.html
@@ -0,0 +1,205 @@
+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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+
+
+<html xmlns="http://www.w3.org/1999/xhtml">
+ <head>
+ <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
+
+ <title>Algorithms: the algorithm module &mdash; PyASTRAToolbox 1.6 documentation</title>
+
+ <link rel="stylesheet" href="_static/default.css" type="text/css" />
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+ <h3>Navigation</h3>
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+ accesskey="I">index</a></li>
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+ >modules</a> |</li>
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+ <div class="documentwrapper">
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+ <div class="body">
+
+ <div class="section" id="module-astra.algorithm">
+<span id="algorithms-the-algorithm-module"></span><h1>Algorithms: the <tt class="xref py py-mod docutils literal"><span class="pre">algorithm</span></tt> module<a class="headerlink" href="#module-astra.algorithm" title="Permalink to this headline">¶</a></h1>
+<dl class="function">
+<dt id="astra.algorithm.clear">
+<tt class="descclassname">astra.algorithm.</tt><tt class="descname">clear</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/algorithm.html#clear"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.algorithm.clear" title="Permalink to this definition">¶</a></dt>
+<dd><p>Clear all matrix objects.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.algorithm.create">
+<tt class="descclassname">astra.algorithm.</tt><tt class="descname">create</tt><big>(</big><em>config</em><big>)</big><a class="reference internal" href="_modules/astra/algorithm.html#create"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.algorithm.create" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create algorithm object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>config</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Algorithm options.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> &#8211; the ID of the constructed object.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.algorithm.delete">
+<tt class="descclassname">astra.algorithm.</tt><tt class="descname">delete</tt><big>(</big><em>ids</em><big>)</big><a class="reference internal" href="_modules/astra/algorithm.html#delete"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.algorithm.delete" title="Permalink to this definition">¶</a></dt>
+<dd><p>Delete a matrix object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>ids</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#list" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">list</span></tt></a>) &#8211; ID or list of ID&#8217;s to delete.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.algorithm.get_res_norm">
+<tt class="descclassname">astra.algorithm.</tt><tt class="descname">get_res_norm</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/algorithm.html#get_res_norm"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.algorithm.get_res_norm" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get residual norm of algorithm.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a> &#8211; The residual norm.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.algorithm.info">
+<tt class="descclassname">astra.algorithm.</tt><tt class="descname">info</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/algorithm.html#info"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.algorithm.info" title="Permalink to this definition">¶</a></dt>
+<dd><p>Print info on matrix objects in memory.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.algorithm.run">
+<tt class="descclassname">astra.algorithm.</tt><tt class="descname">run</tt><big>(</big><em>i</em>, <em>iterations=1</em><big>)</big><a class="reference internal" href="_modules/astra/algorithm.html#run"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.algorithm.run" title="Permalink to this definition">¶</a></dt>
+<dd><p>Run an algorithm.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
+<li><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object.</li>
+<li><strong>iterations</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of iterations to run.</li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
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diff --git a/python/docSRC/_build/html/astra.html b/python/docSRC/_build/html/astra.html
new file mode 100644
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+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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+ <title>Additional ASTRA methods: the astra module &mdash; PyASTRAToolbox 1.6 documentation</title>
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+
+ <div class="section" id="module-astra.astra">
+<span id="additional-astra-methods-the-astra-module"></span><h1>Additional ASTRA methods: the <tt class="xref py py-mod docutils literal"><span class="pre">astra</span></tt> module<a class="headerlink" href="#module-astra.astra" title="Permalink to this headline">¶</a></h1>
+<dl class="function">
+<dt id="astra.astra.credits">
+<tt class="descclassname">astra.astra.</tt><tt class="descname">credits</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/astra.html#credits"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.astra.credits" title="Permalink to this definition">¶</a></dt>
+<dd><p>Print credits of the ASTRA Toolbox.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.astra.set_gpu_index">
+<tt class="descclassname">astra.astra.</tt><tt class="descname">set_gpu_index</tt><big>(</big><em>idx</em><big>)</big><a class="reference internal" href="_modules/astra/astra.html#set_gpu_index"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.astra.set_gpu_index" title="Permalink to this definition">¶</a></dt>
+<dd><p>Set default GPU index to use.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>idx</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; GPU index</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.astra.use_cuda">
+<tt class="descclassname">astra.astra.</tt><tt class="descname">use_cuda</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/astra.html#use_cuda"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.astra.use_cuda" title="Permalink to this definition">¶</a></dt>
+<dd><p>Test if CUDA is enabled.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a> &#8211; <tt class="docutils literal"><span class="pre">True</span></tt> if CUDA is enabled.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.astra.version">
+<tt class="descclassname">astra.astra.</tt><tt class="descname">version</tt><big>(</big><em>printToScreen=False</em><big>)</big><a class="reference internal" href="_modules/astra/astra.html#version"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.astra.version" title="Permalink to this definition">¶</a></dt>
+<dd><p>Check version of the ASTRA Toolbox.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>printToScreen</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If <tt class="docutils literal"><span class="pre">True</span></tt>, print version string. If <tt class="docutils literal"><span class="pre">False</span></tt>, return version integer.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><tt class="xref py py-class docutils literal"><span class="pre">string</span></tt> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> &#8211; The version string or integer.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+</div>
+
+
+ </div>
+ </div>
+ </div>
+ <div class="sphinxsidebar">
+ <div class="sphinxsidebarwrapper">
+ <h4>Previous topic</h4>
+ <p class="topless"><a href="matlab.html"
+ title="previous chapter">MATLAB compatibility interface: the <tt class="docutils literal"><span class="pre">matlab</span></tt> module</a></p>
+ <h3>This Page</h3>
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+</html> \ No newline at end of file
diff --git a/python/docSRC/_build/html/creators.html b/python/docSRC/_build/html/creators.html
new file mode 100644
index 0000000..2f29232
--- /dev/null
+++ b/python/docSRC/_build/html/creators.html
@@ -0,0 +1,520 @@
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+ <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
+
+ <title>Creation of objects: the creators module &mdash; PyASTRAToolbox 1.6 documentation</title>
+
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+ <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
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+
+ <div class="section" id="module-astra.creators">
+<span id="creation-of-objects-the-creators-module"></span><h1>Creation of objects: the <tt class="xref py py-mod docutils literal"><span class="pre">creators</span></tt> module<a class="headerlink" href="#module-astra.creators" title="Permalink to this headline">¶</a></h1>
+<dl class="function">
+<dt id="astra.creators.astra_dict">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">astra_dict</tt><big>(</big><em>intype</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#astra_dict"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.astra_dict" title="Permalink to this definition">¶</a></dt>
+<dd><p>Creates a dict to use with the ASTRA Toolbox.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>intype</strong> (<tt class="xref py py-class docutils literal"><span class="pre">string</span></tt>) &#8211; Type of the ASTRA object.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a> &#8211; An ASTRA dict of type <tt class="docutils literal"><span class="pre">intype</span></tt>.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.creators.create_backprojection">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">create_backprojection</tt><big>(</big><em>data</em>, <em>proj_id</em>, <em>useCUDA=False</em>, <em>returnData=True</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#create_backprojection"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.create_backprojection" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a backprojection of a sinogram (2D).</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>data</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Sinogram data or ID.</li>
+<li><strong>proj_id</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of the projector to use.</li>
+<li><strong>useCUDA</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If <tt class="docutils literal"><span class="pre">True</span></tt>, use CUDA for the calculation.</li>
+<li><strong>returnData</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If False, only return the ID of the backprojection.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>, <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; If <tt class="docutils literal"><span class="pre">returnData=False</span></tt>, returns the ID of the backprojection. Otherwise, returns a tuple containing the ID of the backprojection and the backprojection itself, in that order.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.creators.create_backprojection3d_gpu">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">create_backprojection3d_gpu</tt><big>(</big><em>data</em>, <em>proj_geom</em>, <em>vol_geom</em>, <em>returnData=True</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#create_backprojection3d_gpu"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.create_backprojection3d_gpu" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a backprojection of a sinogram (3D) using CUDA.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>data</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Sinogram data or ID.</li>
+<li><strong>proj_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Projection geometry.</li>
+<li><strong>vol_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Volume geometry.</li>
+<li><strong>returnData</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If False, only return the ID of the backprojection.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>, <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; If <tt class="docutils literal"><span class="pre">returnData=False</span></tt>, returns the ID of the backprojection. Otherwise, returns a tuple containing the ID of the backprojection and the backprojection itself, in that order.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.creators.create_proj_geom">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">create_proj_geom</tt><big>(</big><em>intype</em>, <em>*args</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#create_proj_geom"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.create_proj_geom" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a projection geometry.</p>
+<p>This method can be called in a number of ways:</p>
+<p><tt class="docutils literal"><span class="pre">create_proj_geom('parallel',</span> <span class="pre">detector_spacing,</span> <span class="pre">det_count,</span> <span class="pre">angles)</span></tt>:</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>detector_spacing</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Distance between two adjacent detector pixels.</li>
+<li><strong>det_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixels.</li>
+<li><strong>angles</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Array of angles in radians.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last">A parallel projection geometry.</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p><tt class="docutils literal"><span class="pre">create_proj_geom('fanflat',</span> <span class="pre">det_width,</span> <span class="pre">det_count,</span> <span class="pre">angles,</span> <span class="pre">source_origin,</span> <span class="pre">source_det)</span></tt>:</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>det_width</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Size of a detector pixel.</li>
+<li><strong>det_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixels.</li>
+<li><strong>angles</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Array of angles in radians.</li>
+<li><strong>source_origin</strong> &#8211; Position of the source.</li>
+<li><strong>source_det</strong> &#8211; Position of the detector</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last">A fan-beam projection geometry.</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p><tt class="docutils literal"><span class="pre">create_proj_geom('fanflat_vec',</span> <span class="pre">det_count,</span> <span class="pre">V)</span></tt>:</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>det_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixels.</li>
+<li><strong>V</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Vector array.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last">A fan-beam projection geometry.</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p><tt class="docutils literal"><span class="pre">create_proj_geom('parallel3d',</span> <span class="pre">detector_spacing_x,</span> <span class="pre">detector_spacing_y,</span> <span class="pre">det_row_count,</span> <span class="pre">det_col_count,</span> <span class="pre">angles)</span></tt>:</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>detector_spacing_*</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Distance between two adjacent detector pixels.</li>
+<li><strong>det_row_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixel rows.</li>
+<li><strong>det_col_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixel columns.</li>
+<li><strong>angles</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Array of angles in radians.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last">A parallel projection geometry.</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p><tt class="docutils literal"><span class="pre">create_proj_geom('cone',</span> <span class="pre">detector_spacing_x,</span> <span class="pre">detector_spacing_y,</span> <span class="pre">det_row_count,</span> <span class="pre">det_col_count,</span> <span class="pre">angles,</span> <span class="pre">source_origin,</span> <span class="pre">source_det)</span></tt>:</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>detector_spacing_*</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Distance between two adjacent detector pixels.</li>
+<li><strong>det_row_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixel rows.</li>
+<li><strong>det_col_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixel columns.</li>
+<li><strong>angles</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Array of angles in radians.</li>
+<li><strong>source_origin</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Distance between point source and origin.</li>
+<li><strong>source_det</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Distance between the detector and origin.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last">A cone-beam projection geometry.</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p><tt class="docutils literal"><span class="pre">create_proj_geom('cone_vec',</span> <span class="pre">det_row_count,</span> <span class="pre">det_col_count,</span> <span class="pre">V)</span></tt>:</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>det_row_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixel rows.</li>
+<li><strong>det_col_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixel columns.</li>
+<li><strong>V</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Vector array.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last">A cone-beam projection geometry.</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p><tt class="docutils literal"><span class="pre">create_proj_geom('parallel3d_vec',</span> <span class="pre">det_row_count,</span> <span class="pre">det_col_count,</span> <span class="pre">V)</span></tt>:</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>det_row_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixel rows.</li>
+<li><strong>det_col_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixel columns.</li>
+<li><strong>V</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Vector array.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last">A parallel projection geometry.</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p><tt class="docutils literal"><span class="pre">create_proj_geom('sparse_matrix',</span> <span class="pre">det_width,</span> <span class="pre">det_count,</span> <span class="pre">angles,</span> <span class="pre">matrix_id)</span></tt>:</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>det_width</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Size of a detector pixel.</li>
+<li><strong>det_count</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of detector pixels.</li>
+<li><strong>angles</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Array of angles in radians.</li>
+<li><strong>matrix_id</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of the sparse matrix.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last">A projection geometry based on a sparse matrix.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.creators.create_projector">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">create_projector</tt><big>(</big><em>proj_type</em>, <em>proj_geom</em>, <em>vol_geom</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#create_projector"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.create_projector" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a 2D projector.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>proj_type</strong> (<tt class="xref py py-class docutils literal"><span class="pre">string</span></tt>) &#8211; Projector type, such as <tt class="docutils literal"><span class="pre">'line'</span></tt>, <tt class="docutils literal"><span class="pre">'linear'</span></tt>, ...</li>
+<li><strong>proj_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Projection geometry.</li>
+<li><strong>vol_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Volume geometry.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> &#8211; The ID of the projector.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.creators.create_reconstruction">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">create_reconstruction</tt><big>(</big><em>rec_type</em>, <em>proj_id</em>, <em>sinogram</em>, <em>iterations=1</em>, <em>use_mask='no'</em>, <em>mask=array([]</em>, <em>dtype=float64)</em>, <em>use_minc='no'</em>, <em>minc=0</em>, <em>use_maxc='no'</em>, <em>maxc=255</em>, <em>returnData=True</em>, <em>filterType=None</em>, <em>filterData=None</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#create_reconstruction"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.create_reconstruction" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a reconstruction of a sinogram (2D).</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>rec_type</strong> (<tt class="xref py py-class docutils literal"><span class="pre">string</span></tt>) &#8211; Name of the reconstruction algorithm.</li>
+<li><strong>proj_id</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of the projector to use.</li>
+<li><strong>sinogram</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Sinogram data or ID.</li>
+<li><strong>iterations</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Number of iterations to run.</li>
+<li><strong>use_mask</strong> (<tt class="docutils literal"><span class="pre">'yes'</span></tt> or <tt class="docutils literal"><span class="pre">'no'</span></tt>) &#8211; Whether to use a mask.</li>
+<li><strong>mask</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Mask data or ID</li>
+<li><strong>use_minc</strong> (<tt class="docutils literal"><span class="pre">'yes'</span></tt> or <tt class="docutils literal"><span class="pre">'no'</span></tt>) &#8211; Whether to force a minimum value on the reconstruction pixels.</li>
+<li><strong>minc</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Minimum value to use.</li>
+<li><strong>use_maxc</strong> (<tt class="docutils literal"><span class="pre">'yes'</span></tt> or <tt class="docutils literal"><span class="pre">'no'</span></tt>) &#8211; Whether to force a maximum value on the reconstruction pixels.</li>
+<li><strong>maxc</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Maximum value to use.</li>
+<li><strong>returnData</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If False, only return the ID of the reconstruction.</li>
+<li><strong>filterType</strong> (<tt class="xref py py-class docutils literal"><span class="pre">string</span></tt>) &#8211; Which type of filter to use for filter-based methods.</li>
+<li><strong>filterData</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Optional filter data for filter-based methods.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>, <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; If <tt class="docutils literal"><span class="pre">returnData=False</span></tt>, returns the ID of the reconstruction. Otherwise, returns a tuple containing the ID of the reconstruction and reconstruction itself, in that order.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.creators.create_sino">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">create_sino</tt><big>(</big><em>data</em>, <em>proj_id=None</em>, <em>proj_geom=None</em>, <em>vol_geom=None</em>, <em>useCUDA=False</em>, <em>returnData=True</em>, <em>gpuIndex=None</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#create_sino"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.create_sino" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a forward projection of an image (2D).</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>data</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Image data or ID.</li>
+<li><strong>proj_id</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of the projector to use.</li>
+<li><strong>proj_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Projection geometry.</li>
+<li><strong>vol_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Volume geometry.</li>
+<li><strong>useCUDA</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If <tt class="docutils literal"><span class="pre">True</span></tt>, use CUDA for the calculation.</li>
+<li><strong>returnData</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If False, only return the ID of the forward projection.</li>
+<li><strong>gpuIndex</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Optional GPU index.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>, <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>)</p>
+</td>
+</tr>
+</tbody>
+</table>
+<p>If <tt class="docutils literal"><span class="pre">returnData=False</span></tt>, returns the ID of the forward
+projection. Otherwise, returns a tuple containing the ID of the
+forward projection and the forward projection itself, in that
+order.</p>
+<p>The geometry of setup is defined by <tt class="docutils literal"><span class="pre">proj_id</span></tt> or with
+<tt class="docutils literal"><span class="pre">proj_geom</span></tt> and <tt class="docutils literal"><span class="pre">vol_geom</span></tt>. If <tt class="docutils literal"><span class="pre">proj_id</span></tt> is given, then
+<tt class="docutils literal"><span class="pre">proj_geom</span></tt> and <tt class="docutils literal"><span class="pre">vol_geom</span></tt> must be None and vice versa.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.creators.create_sino3d_gpu">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">create_sino3d_gpu</tt><big>(</big><em>data</em>, <em>proj_geom</em>, <em>vol_geom</em>, <em>returnData=True</em>, <em>gpuIndex=None</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#create_sino3d_gpu"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.create_sino3d_gpu" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a forward projection of an image (3D).</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>data</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Image data or ID.</li>
+<li><strong>proj_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Projection geometry.</li>
+<li><strong>vol_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Volume geometry.</li>
+<li><strong>returnData</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; If False, only return the ID of the forward projection.</li>
+<li><strong>gpuIndex</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Optional GPU index.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>, <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; If <tt class="docutils literal"><span class="pre">returnData=False</span></tt>, returns the ID of the forward projection. Otherwise, returns a tuple containing the ID of the forward projection and the forward projection itself, in that order.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.creators.create_vol_geom">
+<tt class="descclassname">astra.creators.</tt><tt class="descname">create_vol_geom</tt><big>(</big><em>*varargin</em><big>)</big><a class="reference internal" href="_modules/astra/creators.html#create_vol_geom"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.creators.create_vol_geom" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a volume geometry structure.</p>
+<p>This method can be called in a number of ways:</p>
+<dl class="docutils">
+<dt><tt class="docutils literal"><span class="pre">create_vol_geom(N)</span></tt>:</dt>
+<dd><table class="first last docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">returns:</th><td class="field-body">A 2D volume geometry of size <span class="math">\(N \times N\)</span>.</td>
+</tr>
+</tbody>
+</table>
+</dd>
+<dt><tt class="docutils literal"><span class="pre">create_vol_geom((M,</span> <span class="pre">N))</span></tt>:</dt>
+<dd><table class="first last docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">returns:</th><td class="field-body">A 2D volume geometry of size <span class="math">\(M \times N\)</span>.</td>
+</tr>
+</tbody>
+</table>
+</dd>
+<dt><tt class="docutils literal"><span class="pre">create_vol_geom(M,</span> <span class="pre">N)</span></tt>:</dt>
+<dd><table class="first last docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">returns:</th><td class="field-body">A 2D volume geometry of size <span class="math">\(M \times N\)</span>.</td>
+</tr>
+</tbody>
+</table>
+</dd>
+<dt><tt class="docutils literal"><span class="pre">create_vol_geom(M,</span> <span class="pre">N,</span> <span class="pre">minx,</span> <span class="pre">maxx,</span> <span class="pre">miny,</span> <span class="pre">maxy)</span></tt>:</dt>
+<dd><table class="first last docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">returns:</th><td class="field-body">A 2D volume geometry of size <span class="math">\(M \times N\)</span>, windowed as <span class="math">\(minx \leq x \leq maxx\)</span> and <span class="math">\(miny \leq y \leq maxy\)</span>.</td>
+</tr>
+</tbody>
+</table>
+</dd>
+<dt><tt class="docutils literal"><span class="pre">create_vol_geom((M,</span> <span class="pre">N,</span> <span class="pre">Z))</span></tt>:</dt>
+<dd><table class="first last docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">returns:</th><td class="field-body">A 3D volume geometry of size <span class="math">\(M \times N \times Z\)</span>.</td>
+</tr>
+</tbody>
+</table>
+</dd>
+<dt><tt class="docutils literal"><span class="pre">create_vol_geom(M,</span> <span class="pre">N,</span> <span class="pre">Z)</span></tt>:</dt>
+<dd><table class="first last docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">returns:</th><td class="field-body">A 3D volume geometry of size <span class="math">\(M \times N \times Z\)</span>.</td>
+</tr>
+</tbody>
+</table>
+</dd>
+</dl>
+</dd></dl>
+
+</div>
+
+
+ </div>
+ </div>
+ </div>
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+
+ <div class="section" id="module-astra.data2d">
+<span id="d-data-objects-the-data2d-module"></span><h1>2D data objects: the <tt class="xref py py-mod docutils literal"><span class="pre">data2d</span></tt> module<a class="headerlink" href="#module-astra.data2d" title="Permalink to this headline">¶</a></h1>
+<dl class="function">
+<dt id="astra.data2d.change_geometry">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">change_geometry</tt><big>(</big><em>i</em>, <em>geom</em><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#change_geometry"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.change_geometry" title="Permalink to this definition">¶</a></dt>
+<dd><p>Change the geometry of a 2D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
+<li><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object.</li>
+<li><strong>geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; new geometry.</li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.clear">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">clear</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#clear"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.clear" title="Permalink to this definition">¶</a></dt>
+<dd><p>Clear all 2D data objects.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.create">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">create</tt><big>(</big><em>datatype</em>, <em>geometry</em>, <em>data=None</em><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#create"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.create" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a 2D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>datatype</strong> (<tt class="xref py py-class docutils literal"><span class="pre">string</span></tt>) &#8211; Data object type, &#8216;-vol&#8217; or &#8216;-sino&#8217;.</li>
+<li><strong>geometry</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Volume or projection geometry.</li>
+<li><strong>data</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a> or <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Data to fill the constructed object with, either a scalar or array.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> &#8211; the ID of the constructed object.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.delete">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">delete</tt><big>(</big><em>ids</em><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#delete"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.delete" title="Permalink to this definition">¶</a></dt>
+<dd><p>Delete a 2D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>ids</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#list" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">list</span></tt></a>) &#8211; ID or list of ID&#8217;s to delete.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.get">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">get</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#get"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.get" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get a 2D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to get.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The object data.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.get_geometry">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">get_geometry</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#get_geometry"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.get_geometry" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get the geometry of a 2D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a> &#8211; The geometry of object with ID <tt class="docutils literal"><span class="pre">i</span></tt>.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.get_shared">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">get_shared</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#get_shared"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.get_shared" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get a 2D object with memory shared between the ASTRA toolbox and numpy array.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to get.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The object data.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.get_single">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">get_single</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#get_single"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.get_single" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get a 2D object in single precision.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to get.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The object data.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.info">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">info</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#info"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.info" title="Permalink to this definition">¶</a></dt>
+<dd><p>Print info on 2D objects in memory.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data2d.store">
+<tt class="descclassname">astra.data2d.</tt><tt class="descname">store</tt><big>(</big><em>i</em>, <em>data</em><big>)</big><a class="reference internal" href="_modules/astra/data2d.html#store"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data2d.store" title="Permalink to this definition">¶</a></dt>
+<dd><p>Fill existing 2D object with data.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
+<li><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to fill.</li>
+<li><strong>data</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a> or <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Data to fill the object with, either a scalar or array.</li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+</div>
+
+
+ </div>
+ </div>
+ </div>
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+
+ <div class="section" id="module-astra.data3d">
+<span id="d-data-objects-the-data3d-module"></span><h1>3D data objects: the <tt class="xref py py-mod docutils literal"><span class="pre">data3d</span></tt> module<a class="headerlink" href="#module-astra.data3d" title="Permalink to this headline">¶</a></h1>
+<dl class="function">
+<dt id="astra.data3d.clear">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">clear</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#clear"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.clear" title="Permalink to this definition">¶</a></dt>
+<dd><p>Clear all 3D data objects.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data3d.create">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">create</tt><big>(</big><em>datatype</em>, <em>geometry</em>, <em>data=None</em><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#create"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.create" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create a 3D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>datatype</strong> (<tt class="xref py py-class docutils literal"><span class="pre">string</span></tt>) &#8211; Data object type, &#8216;-vol&#8217; or &#8216;-sino&#8217;.</li>
+<li><strong>geometry</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Volume or projection geometry.</li>
+<li><strong>data</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a> or <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Data to fill the constructed object with, either a scalar or array.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> &#8211; the ID of the constructed object.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data3d.delete">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">delete</tt><big>(</big><em>ids</em><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#delete"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.delete" title="Permalink to this definition">¶</a></dt>
+<dd><p>Delete a 2D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>ids</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#list" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">list</span></tt></a>) &#8211; ID or list of ID&#8217;s to delete.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data3d.dimensions">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">dimensions</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#dimensions"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.dimensions" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get dimensions of a 3D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><tt class="xref py py-class docutils literal"><span class="pre">tuple</span></tt> &#8211; dimensions of object with ID <tt class="docutils literal"><span class="pre">i</span></tt>.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data3d.get">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">get</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#get"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.get" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get a 3D object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to get.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The object data.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data3d.get_shared">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">get_shared</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#get_shared"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.get_shared" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get a 3D object with memory shared between the ASTRA toolbox and numpy array.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to get.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The object data.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data3d.get_single">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">get_single</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#get_single"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.get_single" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get a 3D object in single precision.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to get.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; The object data.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data3d.info">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">info</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#info"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.info" title="Permalink to this definition">¶</a></dt>
+<dd><p>Print info on 3D objects in memory.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.data3d.store">
+<tt class="descclassname">astra.data3d.</tt><tt class="descname">store</tt><big>(</big><em>i</em>, <em>data</em><big>)</big><a class="reference internal" href="_modules/astra/data3d.html#store"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.data3d.store" title="Permalink to this definition">¶</a></dt>
+<dd><p>Fill existing 3D object with data.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
+<li><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to fill.</li>
+<li><strong>data</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a> or <a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Data to fill the object with, either a scalar or array.</li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+</div>
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+
+ <div class="section" id="module-astra.functions">
+<span id="additional-functions-the-functions-module"></span><h1>Additional functions: the <tt class="xref py py-mod docutils literal"><span class="pre">functions</span></tt> module<a class="headerlink" href="#module-astra.functions" title="Permalink to this headline">¶</a></h1>
+<p>Additional functions for PyAstraToolbox.</p>
+<dl class="function">
+<dt id="astra.functions.add_noise_to_sino">
+<tt class="descclassname">astra.functions.</tt><tt class="descname">add_noise_to_sino</tt><big>(</big><em>sinogram_in</em>, <em>I0</em>, <em>seed=None</em><big>)</big><a class="reference internal" href="_modules/astra/functions.html#add_noise_to_sino"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.functions.add_noise_to_sino" title="Permalink to this definition">¶</a></dt>
+<dd><p>Adds Poisson noise to a sinogram.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>sinogram_in</strong> (<a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a>) &#8211; Sinogram to add noise to.</li>
+<li><strong>I0</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#float" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">float</span></tt></a>) &#8211; Background intensity. Lower values lead to higher noise.</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.scipy.org/doc/numpy/reference/generated/numpy.ndarray.html#numpy.ndarray" title="(in NumPy v1.9)"><tt class="xref py py-class docutils literal"><span class="pre">numpy.ndarray</span></tt></a> &#8211; the sinogram with added noise.</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.functions.clear">
+<tt class="descclassname">astra.functions.</tt><tt class="descname">clear</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/functions.html#clear"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.functions.clear" title="Permalink to this definition">¶</a></dt>
+<dd><p>Clears all used memory of the ASTRA Toolbox.</p>
+<div class="admonition note">
+<p class="first admonition-title">Note</p>
+<p class="last">This is irreversible.</p>
+</div>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.functions.data_op">
+<tt class="descclassname">astra.functions.</tt><tt class="descname">data_op</tt><big>(</big><em>op</em>, <em>data</em>, <em>scalar</em>, <em>gpu_core</em>, <em>mask=None</em><big>)</big><a class="reference internal" href="_modules/astra/functions.html#data_op"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.functions.data_op" title="Permalink to this definition">¶</a></dt>
+<dd><p>Perform data operation on data.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
+<li><strong>op</strong> &#8211; Operation to perform.</li>
+<li><strong>data</strong> &#8211; Data to perform operation on.</li>
+<li><strong>scalar</strong> &#8211; Scalar argument to data operation.</li>
+<li><strong>gpu_core</strong> &#8211; GPU core to perform operation on.</li>
+<li><strong>mask</strong> &#8211; Optional mask.</li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.functions.geom_2vec">
+<tt class="descclassname">astra.functions.</tt><tt class="descname">geom_2vec</tt><big>(</big><em>proj_geom</em><big>)</big><a class="reference internal" href="_modules/astra/functions.html#geom_2vec"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.functions.geom_2vec" title="Permalink to this definition">¶</a></dt>
+<dd><p>Returns a vector-based projection geometry from a basic projection geometry.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>proj_geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Projection geometry to convert</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.functions.geom_size">
+<tt class="descclassname">astra.functions.</tt><tt class="descname">geom_size</tt><big>(</big><em>geom</em>, <em>dim=None</em><big>)</big><a class="reference internal" href="_modules/astra/functions.html#geom_size"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.functions.geom_size" title="Permalink to this definition">¶</a></dt>
+<dd><p>Returns the size of a volume or sinogram, based on the projection or volume geometry.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
+<li><strong>geom</strong> &#8211; Geometry to calculate size from</li>
+<li><strong>dim</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; Optional axis index to return</li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.functions.move_vol_geom">
+<tt class="descclassname">astra.functions.</tt><tt class="descname">move_vol_geom</tt><big>(</big><em>geom</em>, <em>pos</em>, <em>is_relative=False</em><big>)</big><a class="reference internal" href="_modules/astra/functions.html#move_vol_geom"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.functions.move_vol_geom" title="Permalink to this definition">¶</a></dt>
+<dd><p>Moves center of volume geometry to new position.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
+<li><strong>geom</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Input volume geometry</li>
+<li><strong>pos</strong> (<tt class="xref py py-class docutils literal"><span class="pre">tuple</span></tt>) &#8211; Tuple (x,y[,z]) for new position, with the center of the image at (0,0[,0])</li>
+<li><strong>is_relative</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#bool" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">bool</span></tt></a>) &#8211; Whether new position is relative to the old position</li>
+</ul>
+</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><p class="first last"><a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a> &#8211; Volume geometry with the new center</p>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+</div>
+
+
+ </div>
+ </div>
+ </div>
+ <div class="sphinxsidebar">
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+ <h4>Previous topic</h4>
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+ title="previous chapter">Creation of objects: the <tt class="docutils literal"><span class="pre">creators</span></tt> module</a></p>
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+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="functions.html#astra.functions.add_noise_to_sino">add_noise_to_sino() (in module astra.functions)</a>
+ </dt>
+
+
+ <dt><a href="matlab.html#astra.matlab.algorithm">algorithm() (in module astra.matlab)</a>
+ </dt>
+
+
+ <dt><a href="matlab.html#astra.matlab.astra">astra() (in module astra.matlab)</a>
+ </dt>
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+
+ <dt><a href="algorithm.html#module-astra.algorithm">astra.algorithm (module)</a>
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+
+ <dt><a href="astra.html#module-astra.astra">astra.astra (module)</a>
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+ <dt><a href="ASTRAProjector.html#module-astra.ASTRAProjector">astra.ASTRAProjector (module)</a>
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+ <dt><a href="data2d.html#module-astra.data2d">astra.data2d (module)</a>
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+ </dl></td>
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+
+ <dt><a href="data3d.html#module-astra.data3d">astra.data3d (module)</a>
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+
+ <dt><a href="functions.html#module-astra.functions">astra.functions (module)</a>
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+ </dt>
+
+
+ <dt><a href="creators.html#astra.creators.astra_dict">astra_dict() (in module astra.creators)</a>
+ </dt>
+
+
+ <dt><a href="ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2D">ASTRAProjector2D (class in astra.ASTRAProjector)</a>
+ </dt>
+
+
+ <dt><a href="ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2DTranspose">ASTRAProjector2DTranspose (class in astra.ASTRAProjector)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="B">B</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2D.backProject">backProject() (astra.ASTRAProjector.ASTRAProjector2D method)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="C">C</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="data2d.html#astra.data2d.change_geometry">change_geometry() (in module astra.data2d)</a>
+ </dt>
+
+
+ <dt><a href="algorithm.html#astra.algorithm.clear">clear() (in module astra.algorithm)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="data2d.html#astra.data2d.clear">(in module astra.data2d)</a>
+ </dt>
+
+
+ <dt><a href="data3d.html#astra.data3d.clear">(in module astra.data3d)</a>
+ </dt>
+
+
+ <dt><a href="functions.html#astra.functions.clear">(in module astra.functions)</a>
+ </dt>
+
+
+ <dt><a href="matrix.html#astra.matrix.clear">(in module astra.matrix)</a>
+ </dt>
+
+
+ <dt><a href="projector.html#astra.projector.clear">(in module astra.projector)</a>
+ </dt>
+
+ </dl></dd>
+
+ <dt><a href="algorithm.html#astra.algorithm.create">create() (in module astra.algorithm)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="data2d.html#astra.data2d.create">(in module astra.data2d)</a>
+ </dt>
+
+
+ <dt><a href="data3d.html#astra.data3d.create">(in module astra.data3d)</a>
+ </dt>
+
+
+ <dt><a href="matrix.html#astra.matrix.create">(in module astra.matrix)</a>
+ </dt>
+
+
+ <dt><a href="projector.html#astra.projector.create">(in module astra.projector)</a>
+ </dt>
+
+ </dl></dd>
+
+ <dt><a href="creators.html#astra.creators.create_backprojection">create_backprojection() (in module astra.creators)</a>
+ </dt>
+
+
+ <dt><a href="creators.html#astra.creators.create_backprojection3d_gpu">create_backprojection3d_gpu() (in module astra.creators)</a>
+ </dt>
+
+
+ <dt><a href="creators.html#astra.creators.create_proj_geom">create_proj_geom() (in module astra.creators)</a>
+ </dt>
+
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="creators.html#astra.creators.create_projector">create_projector() (in module astra.creators)</a>
+ </dt>
+
+
+ <dt><a href="creators.html#astra.creators.create_reconstruction">create_reconstruction() (in module astra.creators)</a>
+ </dt>
+
+
+ <dt><a href="creators.html#astra.creators.create_sino">create_sino() (in module astra.creators)</a>
+ </dt>
+
+
+ <dt><a href="creators.html#astra.creators.create_sino3d_gpu">create_sino3d_gpu() (in module astra.creators)</a>
+ </dt>
+
+
+ <dt><a href="creators.html#astra.creators.create_vol_geom">create_vol_geom() (in module astra.creators)</a>
+ </dt>
+
+
+ <dt><a href="astra.html#astra.astra.credits">credits() (in module astra.astra)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="D">D</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="matlab.html#astra.matlab.data2d">data2d() (in module astra.matlab)</a>
+ </dt>
+
+
+ <dt><a href="matlab.html#astra.matlab.data3d">data3d() (in module astra.matlab)</a>
+ </dt>
+
+
+ <dt><a href="functions.html#astra.functions.data_op">data_op() (in module astra.functions)</a>
+ </dt>
+
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="algorithm.html#astra.algorithm.delete">delete() (in module astra.algorithm)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="data2d.html#astra.data2d.delete">(in module astra.data2d)</a>
+ </dt>
+
+
+ <dt><a href="data3d.html#astra.data3d.delete">(in module astra.data3d)</a>
+ </dt>
+
+
+ <dt><a href="matrix.html#astra.matrix.delete">(in module astra.matrix)</a>
+ </dt>
+
+
+ <dt><a href="projector.html#astra.projector.delete">(in module astra.projector)</a>
+ </dt>
+
+ </dl></dd>
+
+ <dt><a href="data3d.html#astra.data3d.dimensions">dimensions() (in module astra.data3d)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="F">F</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2D.forwardProject">forwardProject() (astra.ASTRAProjector.ASTRAProjector2D method)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="G">G</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="functions.html#astra.functions.geom_2vec">geom_2vec() (in module astra.functions)</a>
+ </dt>
+
+
+ <dt><a href="functions.html#astra.functions.geom_size">geom_size() (in module astra.functions)</a>
+ </dt>
+
+
+ <dt><a href="data2d.html#astra.data2d.get">get() (in module astra.data2d)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="data3d.html#astra.data3d.get">(in module astra.data3d)</a>
+ </dt>
+
+
+ <dt><a href="matrix.html#astra.matrix.get">(in module astra.matrix)</a>
+ </dt>
+
+ </dl></dd>
+
+ <dt><a href="data2d.html#astra.data2d.get_geometry">get_geometry() (in module astra.data2d)</a>
+ </dt>
+
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="algorithm.html#astra.algorithm.get_res_norm">get_res_norm() (in module astra.algorithm)</a>
+ </dt>
+
+
+ <dt><a href="data2d.html#astra.data2d.get_shared">get_shared() (in module astra.data2d)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="data3d.html#astra.data3d.get_shared">(in module astra.data3d)</a>
+ </dt>
+
+ </dl></dd>
+
+ <dt><a href="data2d.html#astra.data2d.get_single">get_single() (in module astra.data2d)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="data3d.html#astra.data3d.get_single">(in module astra.data3d)</a>
+ </dt>
+
+ </dl></dd>
+
+ <dt><a href="matrix.html#astra.matrix.get_size">get_size() (in module astra.matrix)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="I">I</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="algorithm.html#astra.algorithm.info">info() (in module astra.algorithm)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="data2d.html#astra.data2d.info">(in module astra.data2d)</a>
+ </dt>
+
+
+ <dt><a href="data3d.html#astra.data3d.info">(in module astra.data3d)</a>
+ </dt>
+
+
+ <dt><a href="matrix.html#astra.matrix.info">(in module astra.matrix)</a>
+ </dt>
+
+
+ <dt><a href="projector.html#astra.projector.info">(in module astra.projector)</a>
+ </dt>
+
+ </dl></dd>
+ </dl></td>
+</tr></table>
+
+<h2 id="M">M</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="matlab.html#astra.matlab.matrix">matrix() (in module astra.matlab)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="projector.html#astra.projector.matrix">(in module astra.projector)</a>
+ </dt>
+
+ </dl></dd>
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="functions.html#astra.functions.move_vol_geom">move_vol_geom() (in module astra.functions)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="P">P</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="projector.html#astra.projector.projection_geometry">projection_geometry() (in module astra.projector)</a>
+ </dt>
+
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="matlab.html#astra.matlab.projector">projector() (in module astra.matlab)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="R">R</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="ASTRAProjector.html#astra.ASTRAProjector.ASTRAProjector2D.reconstruct">reconstruct() (astra.ASTRAProjector.ASTRAProjector2D method)</a>
+ </dt>
+
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="algorithm.html#astra.algorithm.run">run() (in module astra.algorithm)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="S">S</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="astra.html#astra.astra.set_gpu_index">set_gpu_index() (in module astra.astra)</a>
+ </dt>
+
+
+ <dt><a href="projector.html#astra.projector.splat">splat() (in module astra.projector)</a>
+ </dt>
+
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="data2d.html#astra.data2d.store">store() (in module astra.data2d)</a>
+ </dt>
+
+ <dd><dl>
+
+ <dt><a href="data3d.html#astra.data3d.store">(in module astra.data3d)</a>
+ </dt>
+
+
+ <dt><a href="matrix.html#astra.matrix.store">(in module astra.matrix)</a>
+ </dt>
+
+ </dl></dd>
+ </dl></td>
+</tr></table>
+
+<h2 id="U">U</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="astra.html#astra.astra.use_cuda">use_cuda() (in module astra.astra)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="V">V</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="astra.html#astra.astra.version">version() (in module astra.astra)</a>
+ </dt>
+
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="projector.html#astra.projector.volume_geometry">volume_geometry() (in module astra.projector)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+<h2 id="W">W</h2>
+<table style="width: 100%" class="indextable genindextable"><tr>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="projector.html#astra.projector.weights_projection">weights_projection() (in module astra.projector)</a>
+ </dt>
+
+ </dl></td>
+ <td style="width: 33%" valign="top"><dl>
+
+ <dt><a href="projector.html#astra.projector.weights_single_ray">weights_single_ray() (in module astra.projector)</a>
+ </dt>
+
+ </dl></td>
+</tr></table>
+
+
+
+ </div>
+ </div>
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+<h1>Welcome to PyASTRAToolbox&#8217;s documentation!<a class="headerlink" href="#welcome-to-pyastratoolbox-s-documentation" title="Permalink to this headline">¶</a></h1>
+<p>Contents:</p>
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+<ul>
+<li class="toctree-l1"><a class="reference internal" href="data2d.html">2D data objects: the <tt class="docutils literal"><span class="pre">data2d</span></tt> module</a></li>
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+<li class="toctree-l1"><a class="reference internal" href="projector.html">Projector object: the <tt class="docutils literal"><span class="pre">projector</span></tt> module</a></li>
+<li class="toctree-l1"><a class="reference internal" href="algorithm.html">Algorithms: the <tt class="docutils literal"><span class="pre">algorithm</span></tt> module</a></li>
+<li class="toctree-l1"><a class="reference internal" href="matrix.html">Sparse matrices: the <tt class="docutils literal"><span class="pre">matrix</span></tt> module</a></li>
+<li class="toctree-l1"><a class="reference internal" href="creators.html">Creation of objects: the <tt class="docutils literal"><span class="pre">creators</span></tt> module</a></li>
+<li class="toctree-l1"><a class="reference internal" href="functions.html">Additional functions: the <tt class="docutils literal"><span class="pre">functions</span></tt> module</a></li>
+<li class="toctree-l1"><a class="reference internal" href="ASTRAProjector.html">Helper class: the <tt class="docutils literal"><span class="pre">ASTRAProjector</span></tt> module</a></li>
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+<li class="toctree-l1"><a class="reference internal" href="astra.html">Additional ASTRA methods: the <tt class="docutils literal"><span class="pre">astra</span></tt> module</a></li>
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+</div>
+</div>
+<div class="section" id="indices-and-tables">
+<h1>Indices and tables<a class="headerlink" href="#indices-and-tables" title="Permalink to this headline">¶</a></h1>
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+
+ <div class="section" id="module-astra.matlab">
+<span id="matlab-compatibility-interface-the-matlab-module"></span><h1>MATLAB compatibility interface: the <tt class="xref py py-mod docutils literal"><span class="pre">matlab</span></tt> module<a class="headerlink" href="#module-astra.matlab" title="Permalink to this headline">¶</a></h1>
+<p>This module implements a MATLAB-like interface to the ASTRA Toolbox.</p>
+<p>Note that all functions are called with a <tt class="xref py py-class docutils literal"><span class="pre">string</span></tt> as the first
+argument, specifying the operation to perform. This un-pythonic way
+is used to make transitioning from MATLAB code to Python code easier, as
+the MATLAB interface uses the same type of method calling.</p>
+<p>After an initial <tt class="docutils literal"><span class="pre">import</span> <span class="pre">astra</span></tt>, these functions can be accessed in the
+<tt class="docutils literal"><span class="pre">astra.m</span></tt> module.</p>
+<dl class="function">
+<dt id="astra.matlab.algorithm">
+<tt class="descclassname">astra.matlab.</tt><tt class="descname">algorithm</tt><big>(</big><em>command</em>, <em>*args</em><big>)</big><a class="reference internal" href="_modules/astra/matlab.html#algorithm"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matlab.algorithm" title="Permalink to this definition">¶</a></dt>
+<dd><p>MATLAB-like interface to the <a class="reference internal" href="algorithm.html#module-astra.algorithm" title="astra.algorithm"><tt class="xref py py-mod docutils literal"><span class="pre">astra.algorithm</span></tt></a> module</p>
+<p>For example:</p>
+<p><tt class="docutils literal"><span class="pre">astra.m.algorithm('run',i,1000)</span></tt> &#8211; Run an algorithm with 1000 iterations.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matlab.astra">
+<tt class="descclassname">astra.matlab.</tt><tt class="descname">astra</tt><big>(</big><em>command</em>, <em>*args</em><big>)</big><a class="reference internal" href="_modules/astra/matlab.html#astra"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matlab.astra" title="Permalink to this definition">¶</a></dt>
+<dd><p>MATLAB-like interface to the <a class="reference internal" href="astra.html#module-astra.astra" title="astra.astra"><tt class="xref py py-mod docutils literal"><span class="pre">astra.astra</span></tt></a> module</p>
+<p>For example:</p>
+<p><tt class="docutils literal"><span class="pre">astra.m.astra('use_cuda')</span></tt> &#8211; Check if CUDA is enabled.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matlab.data2d">
+<tt class="descclassname">astra.matlab.</tt><tt class="descname">data2d</tt><big>(</big><em>command</em>, <em>*args</em><big>)</big><a class="reference internal" href="_modules/astra/matlab.html#data2d"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matlab.data2d" title="Permalink to this definition">¶</a></dt>
+<dd><p>MATLAB-like interface to the <a class="reference internal" href="data2d.html#module-astra.data2d" title="astra.data2d"><tt class="xref py py-mod docutils literal"><span class="pre">astra.data2d</span></tt></a> module</p>
+<p>For example:</p>
+<p><tt class="docutils literal"><span class="pre">astra.m.data2d('create',type,geometry,data)</span></tt> &#8211; Create a 2D object.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matlab.data3d">
+<tt class="descclassname">astra.matlab.</tt><tt class="descname">data3d</tt><big>(</big><em>command</em>, <em>*args</em><big>)</big><a class="reference internal" href="_modules/astra/matlab.html#data3d"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matlab.data3d" title="Permalink to this definition">¶</a></dt>
+<dd><p>MATLAB-like interface to the <a class="reference internal" href="data3d.html#module-astra.data3d" title="astra.data3d"><tt class="xref py py-mod docutils literal"><span class="pre">astra.data3d</span></tt></a> module</p>
+<p>For example:</p>
+<p><tt class="docutils literal"><span class="pre">astra.m.data3d('get',i)</span></tt> &#8211; Get 3D object data.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matlab.matrix">
+<tt class="descclassname">astra.matlab.</tt><tt class="descname">matrix</tt><big>(</big><em>command</em>, <em>*args</em><big>)</big><a class="reference internal" href="_modules/astra/matlab.html#matrix"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matlab.matrix" title="Permalink to this definition">¶</a></dt>
+<dd><p>MATLAB-like interface to the <a class="reference internal" href="matrix.html#module-astra.matrix" title="astra.matrix"><tt class="xref py py-mod docutils literal"><span class="pre">astra.matrix</span></tt></a> module</p>
+<p>For example:</p>
+<p><tt class="docutils literal"><span class="pre">astra.m.matrix('delete',i)</span></tt> &#8211; Delete a matrix.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matlab.projector">
+<tt class="descclassname">astra.matlab.</tt><tt class="descname">projector</tt><big>(</big><em>command</em>, <em>*args</em><big>)</big><a class="reference internal" href="_modules/astra/matlab.html#projector"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matlab.projector" title="Permalink to this definition">¶</a></dt>
+<dd><p>MATLAB-like interface to the <a class="reference internal" href="projector.html#module-astra.projector" title="astra.projector"><tt class="xref py py-mod docutils literal"><span class="pre">astra.projector</span></tt></a> module</p>
+<p>For example:</p>
+<p><tt class="docutils literal"><span class="pre">astra.m.projector('volume_geometry',i)</span></tt> &#8211; Get volume geometry.</p>
+</dd></dl>
+
+</div>
+
+
+ </div>
+ </div>
+ </div>
+ <div class="sphinxsidebar">
+ <div class="sphinxsidebarwrapper">
+ <h4>Previous topic</h4>
+ <p class="topless"><a href="ASTRAProjector.html"
+ title="previous chapter">Helper class: the <tt class="docutils literal"><span class="pre">ASTRAProjector</span></tt> module</a></p>
+ <h4>Next topic</h4>
+ <p class="topless"><a href="astra.html"
+ title="next chapter">Additional ASTRA methods: the <tt class="docutils literal"><span class="pre">astra</span></tt> module</a></p>
+ <h3>This Page</h3>
+ <ul class="this-page-menu">
+ <li><a href="_sources/matlab.txt"
+ rel="nofollow">Show Source</a></li>
+ </ul>
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+ Enter search terms or a module, class or function name.
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+ >modules</a> |</li>
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+ <a href="astra.html" title="Additional ASTRA methods: the astra module"
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diff --git a/python/docSRC/_build/html/matrix.html b/python/docSRC/_build/html/matrix.html
new file mode 100644
index 0000000..1df4c30
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+ <title>Sparse matrices: the matrix module &mdash; PyASTRAToolbox 1.6 documentation</title>
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+
+ <div class="section" id="module-astra.matrix">
+<span id="sparse-matrices-the-matrix-module"></span><h1>Sparse matrices: the <tt class="xref py py-mod docutils literal"><span class="pre">matrix</span></tt> module<a class="headerlink" href="#module-astra.matrix" title="Permalink to this headline">¶</a></h1>
+<dl class="function">
+<dt id="astra.matrix.clear">
+<tt class="descclassname">astra.matrix.</tt><tt class="descname">clear</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/matrix.html#clear"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matrix.clear" title="Permalink to this definition">¶</a></dt>
+<dd><p>Clear all matrix objects.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matrix.create">
+<tt class="descclassname">astra.matrix.</tt><tt class="descname">create</tt><big>(</big><em>data</em><big>)</big><a class="reference internal" href="_modules/astra/matrix.html#create"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matrix.create" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create matrix object with data.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>data</strong> (<tt class="xref py py-class docutils literal"><span class="pre">scipy.sparse.csr_matrix</span></tt>) &#8211; Data to fill the created object with.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> &#8211; the ID of the constructed object.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matrix.delete">
+<tt class="descclassname">astra.matrix.</tt><tt class="descname">delete</tt><big>(</big><em>ids</em><big>)</big><a class="reference internal" href="_modules/astra/matrix.html#delete"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matrix.delete" title="Permalink to this definition">¶</a></dt>
+<dd><p>Delete a matrix object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>ids</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#list" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">list</span></tt></a>) &#8211; ID or list of ID&#8217;s to delete.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matrix.get">
+<tt class="descclassname">astra.matrix.</tt><tt class="descname">get</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/matrix.html#get"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matrix.get" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get a matrix object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to get.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><tt class="xref py py-class docutils literal"><span class="pre">scipy.sparse.csr_matrix</span></tt> &#8211; The object data.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matrix.get_size">
+<tt class="descclassname">astra.matrix.</tt><tt class="descname">get_size</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/matrix.html#get_size"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matrix.get_size" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get matrix dimensions.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><tt class="xref py py-class docutils literal"><span class="pre">tuple</span></tt> &#8211; matrix dimensions.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matrix.info">
+<tt class="descclassname">astra.matrix.</tt><tt class="descname">info</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/matrix.html#info"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matrix.info" title="Permalink to this definition">¶</a></dt>
+<dd><p>Print info on matrix objects in memory.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.matrix.store">
+<tt class="descclassname">astra.matrix.</tt><tt class="descname">store</tt><big>(</big><em>i</em>, <em>data</em><big>)</big><a class="reference internal" href="_modules/astra/matrix.html#store"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.matrix.store" title="Permalink to this definition">¶</a></dt>
+<dd><p>Fill existing matrix object with data.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
+<li><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of object to fill.</li>
+<li><strong>data</strong> (<tt class="xref py py-class docutils literal"><span class="pre">scipy.sparse.csr_matrix</span></tt>) &#8211; Data to fill the object with.</li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+</div>
+
+
+ </div>
+ </div>
+ </div>
+ <div class="sphinxsidebar">
+ <div class="sphinxsidebarwrapper">
+ <h4>Previous topic</h4>
+ <p class="topless"><a href="algorithm.html"
+ title="previous chapter">Algorithms: the <tt class="docutils literal"><span class="pre">algorithm</span></tt> module</a></p>
+ <h4>Next topic</h4>
+ <p class="topless"><a href="creators.html"
+ title="next chapter">Creation of objects: the <tt class="docutils literal"><span class="pre">creators</span></tt> module</a></p>
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+
+ <div class="section" id="module-astra.projector">
+<span id="projector-object-the-projector-module"></span><h1>Projector object: the <tt class="xref py py-mod docutils literal"><span class="pre">projector</span></tt> module<a class="headerlink" href="#module-astra.projector" title="Permalink to this headline">¶</a></h1>
+<dl class="function">
+<dt id="astra.projector.clear">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">clear</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/projector.html#clear"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.clear" title="Permalink to this definition">¶</a></dt>
+<dd><p>Clear all projector objects.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.create">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">create</tt><big>(</big><em>config</em><big>)</big><a class="reference internal" href="_modules/astra/projector.html#create"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.create" title="Permalink to this definition">¶</a></dt>
+<dd><p>Create projector object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>config</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a>) &#8211; Projector options.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> &#8211; the ID of the constructed object.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.delete">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">delete</tt><big>(</big><em>ids</em><big>)</big><a class="reference internal" href="_modules/astra/projector.html#delete"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.delete" title="Permalink to this definition">¶</a></dt>
+<dd><p>Delete a projector object.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>ids</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> or <a class="reference external" href="http://docs.python.org/2.7/library/functions.html#list" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">list</span></tt></a>) &#8211; ID or list of ID&#8217;s to delete.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.info">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">info</tt><big>(</big><big>)</big><a class="reference internal" href="_modules/astra/projector.html#info"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.info" title="Permalink to this definition">¶</a></dt>
+<dd><p>Print info on projector objects in memory.</p>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.matrix">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">matrix</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/projector.html#matrix"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.matrix" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get sparse matrix of a projector.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of projector.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a> &#8211; ID of sparse matrix.</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.projection_geometry">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">projection_geometry</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/projector.html#projection_geometry"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.projection_geometry" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get projection geometry of a projector.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of projector.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a> &#8211; projection geometry</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.splat">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">splat</tt><big>(</big><em>i</em>, <em>row</em>, <em>col</em><big>)</big><a class="reference internal" href="_modules/astra/projector.html#splat"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.splat" title="Permalink to this definition">¶</a></dt>
+<dd></dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.volume_geometry">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">volume_geometry</tt><big>(</big><em>i</em><big>)</big><a class="reference internal" href="_modules/astra/projector.html#volume_geometry"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.volume_geometry" title="Permalink to this definition">¶</a></dt>
+<dd><p>Get volume geometry of a projector.</p>
+<table class="docutils field-list" frame="void" rules="none">
+<col class="field-name" />
+<col class="field-body" />
+<tbody valign="top">
+<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><strong>i</strong> (<a class="reference external" href="http://docs.python.org/2.7/library/functions.html#int" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">int</span></tt></a>) &#8211; ID of projector.</td>
+</tr>
+<tr class="field-even field"><th class="field-name">Returns:</th><td class="field-body"><a class="reference external" href="http://docs.python.org/2.7/library/stdtypes.html#dict" title="(in Python v2.7)"><tt class="xref py py-class docutils literal"><span class="pre">dict</span></tt></a> &#8211; volume geometry</td>
+</tr>
+</tbody>
+</table>
+</dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.weights_projection">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">weights_projection</tt><big>(</big><em>i</em>, <em>projection_index</em><big>)</big><a class="reference internal" href="_modules/astra/projector.html#weights_projection"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.weights_projection" title="Permalink to this definition">¶</a></dt>
+<dd></dd></dl>
+
+<dl class="function">
+<dt id="astra.projector.weights_single_ray">
+<tt class="descclassname">astra.projector.</tt><tt class="descname">weights_single_ray</tt><big>(</big><em>i</em>, <em>projection_index</em>, <em>detector_index</em><big>)</big><a class="reference internal" href="_modules/astra/projector.html#weights_single_ray"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#astra.projector.weights_single_ray" title="Permalink to this definition">¶</a></dt>
+<dd></dd></dl>
+
+</div>
+
+
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+ ga('create', 'UA-40340335-1', 'dmpelt.github.io');
+ ga('send', 'pageview');
+
+</script>
+
+ </body>
+</html> \ No newline at end of file
diff --git a/python/docSRC/_build/html/search.html b/python/docSRC/_build/html/search.html
new file mode 100644
index 0000000..ac8ee73
--- /dev/null
+++ b/python/docSRC/_build/html/search.html
@@ -0,0 +1,118 @@
+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
+
+
+<html xmlns="http://www.w3.org/1999/xhtml">
+ <head>
+ <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
+
+ <title>Search &mdash; PyASTRAToolbox 1.6 documentation</title>
+
+ <link rel="stylesheet" href="_static/default.css" type="text/css" />
+ <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
+
+ <script type="text/javascript">
+ var DOCUMENTATION_OPTIONS = {
+ URL_ROOT: './',
+ VERSION: '1.6',
+ COLLAPSE_INDEX: false,
+ FILE_SUFFIX: '.html',
+ HAS_SOURCE: true
+ };
+ </script>
+ <script type="text/javascript" src="_static/jquery.js"></script>
+ <script type="text/javascript" src="_static/underscore.js"></script>
+ <script type="text/javascript" src="_static/doctools.js"></script>
+ <script type="text/javascript" src="http://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script>
+ <script type="text/javascript" src="_static/searchtools.js"></script>
+ <link rel="top" title="PyASTRAToolbox 1.6 documentation" href="index.html" />
+ <script type="text/javascript">
+ jQuery(function() { Search.loadIndex("searchindex.js"); });
+ </script>
+
+ <script type="text/javascript" id="searchindexloader"></script>
+
+
+ </head>
+ <body>
+ <div class="related">
+ <h3>Navigation</h3>
+ <ul>
+ <li class="right" style="margin-right: 10px">
+ <a href="genindex.html" title="General Index"
+ accesskey="I">index</a></li>
+ <li class="right" >
+ <a href="py-modindex.html" title="Python Module Index"
+ >modules</a> |</li>
+ <li><a href="index.html">PyASTRAToolbox 1.6 documentation</a> &raquo;</li>
+ </ul>
+ </div>
+
+ <div class="document">
+ <div class="documentwrapper">
+ <div class="bodywrapper">
+ <div class="body">
+
+ <h1 id="search-documentation">Search</h1>
+ <div id="fallback" class="admonition warning">
+ <script type="text/javascript">$('#fallback').hide();</script>
+ <p>
+ Please activate JavaScript to enable the search
+ functionality.
+ </p>
+ </div>
+ <p>
+ From here you can search these documents. Enter your search
+ words into the box below and click "search". Note that the search
+ function will automatically search for all of the words. Pages
+ containing fewer words won't appear in the result list.
+ </p>
+ <form action="" method="get">
+ <input type="text" name="q" value="" />
+ <input type="submit" value="search" />
+ <span id="search-progress" style="padding-left: 10px"></span>
+ </form>
+
+ <div id="search-results">
+
+ </div>
+
+ </div>
+ </div>
+ </div>
+ <div class="sphinxsidebar">
+ <div class="sphinxsidebarwrapper">
+ </div>
+ </div>
+ <div class="clearer"></div>
+ </div>
+ <div class="related">
+ <h3>Navigation</h3>
+ <ul>
+ <li class="right" style="margin-right: 10px">
+ <a href="genindex.html" title="General Index"
+ >index</a></li>
+ <li class="right" >
+ <a href="py-modindex.html" title="Python Module Index"
+ >modules</a> |</li>
+ <li><a href="index.html">PyASTRAToolbox 1.6 documentation</a> &raquo;</li>
+ </ul>
+ </div>
+
+ <div class="footer">
+ &copy; Copyright 2013, Centrum Wiskunde &amp; Informatica, Amsterdam.
+ Created using <a href="http://sphinx-doc.org/">Sphinx</a> 1.2.3.
+ </div>
+<script>
+ (function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
+ (i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o),
+ m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m)
+ })(window,document,'script','//www.google-analytics.com/analytics.js','ga');
+
+ ga('create', 'UA-40340335-1', 'dmpelt.github.io');
+ ga('send', 'pageview');
+
+</script>
+
+ </body>
+</html> \ No newline at end of file
diff --git a/python/docSRC/_build/html/searchindex.js b/python/docSRC/_build/html/searchindex.js
new file mode 100644
index 0000000..cc69a68
--- /dev/null
+++ b/python/docSRC/_build/html/searchindex.js
@@ -0,0 +1 @@
+Search.setIndex({objtypes:{"0":"py:module","1":"py:function","2":"py:method","3":"py:class"},objnames:{"0":["py","module","Python module"],"1":["py","function","Python function"],"2":["py","method","Python method"],"3":["py","class","Python 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\ No newline at end of file
diff --git a/python/docSRC/_templates/layout.html b/python/docSRC/_templates/layout.html
new file mode 100644
index 0000000..f30df11
--- /dev/null
+++ b/python/docSRC/_templates/layout.html
@@ -0,0 +1,15 @@
+{% extends "!layout.html" %}
+
+{% block footer %}
+{{ super() }}
+<script>
+ (function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
+ (i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o),
+ m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m)
+ })(window,document,'script','//www.google-analytics.com/analytics.js','ga');
+
+ ga('create', 'UA-40340335-1', 'dmpelt.github.io');
+ ga('send', 'pageview');
+
+</script>
+{% endblock %}
diff --git a/python/docSRC/algorithm.rst b/python/docSRC/algorithm.rst
new file mode 100644
index 0000000..83752bd
--- /dev/null
+++ b/python/docSRC/algorithm.rst
@@ -0,0 +1,8 @@
+Algorithms: the :mod:`algorithm` module
+=======================================
+
+.. automodule:: astra.algorithm
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/astra.rst b/python/docSRC/astra.rst
new file mode 100644
index 0000000..5d5fdf0
--- /dev/null
+++ b/python/docSRC/astra.rst
@@ -0,0 +1,8 @@
+Additional ASTRA methods: the :mod:`astra` module
+========================================================
+
+.. automodule:: astra.astra
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/conf.py b/python/docSRC/conf.py
new file mode 100644
index 0000000..e54bbb8
--- /dev/null
+++ b/python/docSRC/conf.py
@@ -0,0 +1,287 @@
+# -*- coding: utf-8 -*-
+#
+# .. documentation build configuration file, created by
+# sphinx-quickstart on Wed Mar 13 16:36:32 2013.
+#
+# This file is execfile()d with the current directory set to its containing dir.
+#
+# Note that not all possible configuration values are present in this
+# autogenerated file.
+#
+# All configuration values have a default; values that are commented out
+# serve to show the default.
+
+import sys, os
+
+# If extensions (or modules to document with autodoc) are in another directory,
+# add these directories to sys.path here. If the directory is relative to the
+# documentation root, use os.path.abspath to make it absolute, like shown here.
+#sys.path.insert(0, os.path.abspath('.'))
+
+# -- General configuration -----------------------------------------------------
+
+# If your documentation needs a minimal Sphinx version, state it here.
+#needs_sphinx = '1.0'
+
+# Add any Sphinx extension module names here, as strings. They can be extensions
+# coming with Sphinx (named 'sphinx.ext.*') or your custom ones.
+extensions = ['sphinx.ext.autodoc', 'sphinx.ext.viewcode','sphinx.ext.mathjax','sphinx.ext.intersphinx']
+
+# Add any paths that contain templates here, relative to this directory.
+templates_path = ['_templates']
+
+# The suffix of source filenames.
+source_suffix = '.rst'
+
+# The encoding of source files.
+#source_encoding = 'utf-8-sig'
+
+# The master toctree document.
+master_doc = 'index'
+
+# General information about the project.
+project = u'PyASTRAToolbox'
+copyright = u'2013, Centrum Wiskunde & Informatica, Amsterdam'
+
+# The version info for the project you're documenting, acts as replacement for
+# |version| and |release|, also used in various other places throughout the
+# built documents.
+#
+# The short X.Y version.
+version = '1.6'
+# The full version, including alpha/beta/rc tags.
+release = '1.6'
+
+# The language for content autogenerated by Sphinx. Refer to documentation
+# for a list of supported languages.
+#language = None
+
+# There are two options for replacing |today|: either, you set today to some
+# non-false value, then it is used:
+#today = ''
+# Else, today_fmt is used as the format for a strftime call.
+#today_fmt = '%B %d, %Y'
+
+# List of patterns, relative to source directory, that match files and
+# directories to ignore when looking for source files.
+exclude_patterns = ['_build']
+
+# The reST default role (used for this markup: `text`) to use for all documents.
+#default_role = None
+
+# If true, '()' will be appended to :func: etc. cross-reference text.
+#add_function_parentheses = True
+
+# If true, the current module name will be prepended to all description
+# unit titles (such as .. function::).
+#add_module_names = True
+
+# If true, sectionauthor and moduleauthor directives will be shown in the
+# output. They are ignored by default.
+#show_authors = False
+
+# The name of the Pygments (syntax highlighting) style to use.
+pygments_style = 'sphinx'
+
+# A list of ignored prefixes for module index sorting.
+#modindex_common_prefix = []
+
+
+# -- Options for HTML output ---------------------------------------------------
+
+# The theme to use for HTML and HTML Help pages. See the documentation for
+# a list of builtin themes.
+html_theme = 'default'
+
+# Theme options are theme-specific and customize the look and feel of a theme
+# further. For a list of options available for each theme, see the
+# documentation.
+#html_theme_options = {}
+
+# Add any paths that contain custom themes here, relative to this directory.
+#html_theme_path = []
+
+# The name for this set of Sphinx documents. If None, it defaults to
+# "<project> v<release> documentation".
+#html_title = None
+
+# A shorter title for the navigation bar. Default is the same as html_title.
+#html_short_title = None
+
+# The name of an image file (relative to this directory) to place at the top
+# of the sidebar.
+#html_logo = None
+
+# The name of an image file (within the static path) to use as favicon of the
+# docs. This file should be a Windows icon file (.ico) being 16x16 or 32x32
+# pixels large.
+#html_favicon = None
+
+# Add any paths that contain custom static files (such as style sheets) here,
+# relative to this directory. They are copied after the builtin static files,
+# so a file named "default.css" will overwrite the builtin "default.css".
+html_static_path = ['_static']
+
+# If not '', a 'Last updated on:' timestamp is inserted at every page bottom,
+# using the given strftime format.
+#html_last_updated_fmt = '%b %d, %Y'
+
+# If true, SmartyPants will be used to convert quotes and dashes to
+# typographically correct entities.
+#html_use_smartypants = True
+
+# Custom sidebar templates, maps document names to template names.
+#html_sidebars = {}
+
+# Additional templates that should be rendered to pages, maps page names to
+# template names.
+#html_additional_pages = {}
+
+# If false, no module index is generated.
+#html_domain_indices = True
+
+# If false, no index is generated.
+#html_use_index = True
+
+# If true, the index is split into individual pages for each letter.
+#html_split_index = False
+
+# If true, links to the reST sources are added to the pages.
+#html_show_sourcelink = True
+
+# If true, "Created using Sphinx" is shown in the HTML footer. Default is True.
+#html_show_sphinx = True
+
+# If true, "(C) Copyright ..." is shown in the HTML footer. Default is True.
+#html_show_copyright = True
+
+# If true, an OpenSearch description file will be output, and all pages will
+# contain a <link> tag referring to it. The value of this option must be the
+# base URL from which the finished HTML is served.
+#html_use_opensearch = ''
+
+# This is the file name suffix for HTML files (e.g. ".xhtml").
+#html_file_suffix = None
+
+# Output file base name for HTML help builder.
+htmlhelp_basename = 'doc'
+
+
+# -- Options for LaTeX output --------------------------------------------------
+
+latex_elements = {
+# The paper size ('letterpaper' or 'a4paper').
+#'papersize': 'letterpaper',
+
+# The font size ('10pt', '11pt' or '12pt').
+#'pointsize': '10pt',
+
+# Additional stuff for the LaTeX preamble.
+#'preamble': '',
+}
+
+# Grouping the document tree into LaTeX files. List of tuples
+# (source start file, target name, title, author, documentclass [howto/manual]).
+latex_documents = [
+ ('index', '.tex', u'.. Documentation',
+ u'Author', 'manual'),
+]
+
+# The name of an image file (relative to this directory) to place at the top of
+# the title page.
+#latex_logo = None
+
+# For "manual" documents, if this is true, then toplevel headings are parts,
+# not chapters.
+#latex_use_parts = False
+
+# If true, show page references after internal links.
+#latex_show_pagerefs = False
+
+# If true, show URL addresses after external links.
+#latex_show_urls = False
+
+# Documents to append as an appendix to all manuals.
+#latex_appendices = []
+
+# If false, no module index is generated.
+#latex_domain_indices = True
+
+
+# -- Options for manual page output --------------------------------------------
+
+# One entry per manual page. List of tuples
+# (source start file, name, description, authors, manual section).
+man_pages = [
+ ('index', '', u'.. Documentation',
+ [u'Author'], 1)
+]
+
+# If true, show URL addresses after external links.
+#man_show_urls = False
+
+
+# -- Options for Texinfo output ------------------------------------------------
+
+# Grouping the document tree into Texinfo files. List of tuples
+# (source start file, target name, title, author,
+# dir menu entry, description, category)
+texinfo_documents = [
+ ('index', '', u'.. Documentation',
+ u'Author', '', 'One line description of project.',
+ 'Miscellaneous'),
+]
+
+# Documents to append as an appendix to all manuals.
+#texinfo_appendices = []
+
+# If false, no module index is generated.
+#texinfo_domain_indices = True
+
+# How to display URL addresses: 'footnote', 'no', or 'inline'.
+#texinfo_show_urls = 'footnote'
+
+
+# -- Options for Epub output ---------------------------------------------------
+
+# Bibliographic Dublin Core info.
+epub_title = u'..'
+epub_author = u'Author'
+epub_publisher = u'Author'
+epub_copyright = u'2013, Author'
+
+# The language of the text. It defaults to the language option
+# or en if the language is not set.
+#epub_language = ''
+
+# The scheme of the identifier. Typical schemes are ISBN or URL.
+#epub_scheme = ''
+
+# The unique identifier of the text. This can be a ISBN number
+# or the project homepage.
+#epub_identifier = ''
+
+# A unique identification for the text.
+#epub_uid = ''
+
+# A tuple containing the cover image and cover page html template filenames.
+#epub_cover = ()
+
+# HTML files that should be inserted before the pages created by sphinx.
+# The format is a list of tuples containing the path and title.
+#epub_pre_files = []
+
+# HTML files shat should be inserted after the pages created by sphinx.
+# The format is a list of tuples containing the path and title.
+#epub_post_files = []
+
+# A list of files that should not be packed into the epub file.
+#epub_exclude_files = []
+
+# The depth of the table of contents in toc.ncx.
+#epub_tocdepth = 3
+
+# Allow duplicate toc entries.
+#epub_tocdup = True
+
+intersphinx_mapping = {'python': ('http://docs.python.org/2.7', None), 'numpy':('http://docs.scipy.org/doc/numpy/',None)}
diff --git a/python/docSRC/creators.rst b/python/docSRC/creators.rst
new file mode 100644
index 0000000..d6249c3
--- /dev/null
+++ b/python/docSRC/creators.rst
@@ -0,0 +1,8 @@
+Creation of objects: the :mod:`creators` module
+===============================================
+
+.. automodule:: astra.creators
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/data2d.rst b/python/docSRC/data2d.rst
new file mode 100644
index 0000000..342cbec
--- /dev/null
+++ b/python/docSRC/data2d.rst
@@ -0,0 +1,8 @@
+2D data objects: the :mod:`data2d` module
+=========================================
+
+.. automodule:: astra.data2d
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/data3d.rst b/python/docSRC/data3d.rst
new file mode 100644
index 0000000..5b7de23
--- /dev/null
+++ b/python/docSRC/data3d.rst
@@ -0,0 +1,8 @@
+3D data objects: the :mod:`data3d` module
+=========================================
+
+.. automodule:: astra.data3d
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/functions.rst b/python/docSRC/functions.rst
new file mode 100644
index 0000000..749eb27
--- /dev/null
+++ b/python/docSRC/functions.rst
@@ -0,0 +1,8 @@
+Additional functions: the :mod:`functions` module
+=================================================
+
+.. automodule:: astra.functions
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/index.rst b/python/docSRC/index.rst
new file mode 100644
index 0000000..8d17a4a
--- /dev/null
+++ b/python/docSRC/index.rst
@@ -0,0 +1,34 @@
+.. .. documentation master file, created by
+ sphinx-quickstart on Wed Mar 13 16:36:32 2013.
+ You can adapt this file completely to your liking, but it should at least
+ contain the root `toctree` directive.
+
+Welcome to PyASTRAToolbox's documentation!
+==========================================
+
+Contents:
+
+.. toctree::
+ :maxdepth: 4
+
+ data2d
+ data3d
+ projector
+ algorithm
+ matrix
+ creators
+ functions
+ ASTRAProjector
+ matlab
+ astra
+.. astra
+.. builder
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
diff --git a/python/docSRC/make.bat b/python/docSRC/make.bat
new file mode 100644
index 0000000..d70c604
--- /dev/null
+++ b/python/docSRC/make.bat
@@ -0,0 +1,190 @@
+@ECHO OFF
+
+REM Command file for Sphinx documentation
+
+if "%SPHINXBUILD%" == "" (
+ set SPHINXBUILD=sphinx-build
+)
+set BUILDDIR=_build
+set ALLSPHINXOPTS=-d %BUILDDIR%/doctrees %SPHINXOPTS% .
+set I18NSPHINXOPTS=%SPHINXOPTS% .
+if NOT "%PAPER%" == "" (
+ set ALLSPHINXOPTS=-D latex_paper_size=%PAPER% %ALLSPHINXOPTS%
+ set I18NSPHINXOPTS=-D latex_paper_size=%PAPER% %I18NSPHINXOPTS%
+)
+
+if "%1" == "" goto help
+
+if "%1" == "help" (
+ :help
+ echo.Please use `make ^<target^>` where ^<target^> is one of
+ echo. html to make standalone HTML files
+ echo. dirhtml to make HTML files named index.html in directories
+ echo. singlehtml to make a single large HTML file
+ echo. pickle to make pickle files
+ echo. json to make JSON files
+ echo. htmlhelp to make HTML files and a HTML help project
+ echo. qthelp to make HTML files and a qthelp project
+ echo. devhelp to make HTML files and a Devhelp project
+ echo. epub to make an epub
+ echo. latex to make LaTeX files, you can set PAPER=a4 or PAPER=letter
+ echo. text to make text files
+ echo. man to make manual pages
+ echo. texinfo to make Texinfo files
+ echo. gettext to make PO message catalogs
+ echo. changes to make an overview over all changed/added/deprecated items
+ echo. linkcheck to check all external links for integrity
+ echo. doctest to run all doctests embedded in the documentation if enabled
+ goto end
+)
+
+if "%1" == "clean" (
+ for /d %%i in (%BUILDDIR%\*) do rmdir /q /s %%i
+ del /q /s %BUILDDIR%\*
+ goto end
+)
+
+if "%1" == "html" (
+ %SPHINXBUILD% -b html %ALLSPHINXOPTS% %BUILDDIR%/html
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished. The HTML pages are in %BUILDDIR%/html.
+ goto end
+)
+
+if "%1" == "dirhtml" (
+ %SPHINXBUILD% -b dirhtml %ALLSPHINXOPTS% %BUILDDIR%/dirhtml
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished. The HTML pages are in %BUILDDIR%/dirhtml.
+ goto end
+)
+
+if "%1" == "singlehtml" (
+ %SPHINXBUILD% -b singlehtml %ALLSPHINXOPTS% %BUILDDIR%/singlehtml
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished. The HTML pages are in %BUILDDIR%/singlehtml.
+ goto end
+)
+
+if "%1" == "pickle" (
+ %SPHINXBUILD% -b pickle %ALLSPHINXOPTS% %BUILDDIR%/pickle
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished; now you can process the pickle files.
+ goto end
+)
+
+if "%1" == "json" (
+ %SPHINXBUILD% -b json %ALLSPHINXOPTS% %BUILDDIR%/json
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished; now you can process the JSON files.
+ goto end
+)
+
+if "%1" == "htmlhelp" (
+ %SPHINXBUILD% -b htmlhelp %ALLSPHINXOPTS% %BUILDDIR%/htmlhelp
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished; now you can run HTML Help Workshop with the ^
+.hhp project file in %BUILDDIR%/htmlhelp.
+ goto end
+)
+
+if "%1" == "qthelp" (
+ %SPHINXBUILD% -b qthelp %ALLSPHINXOPTS% %BUILDDIR%/qthelp
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished; now you can run "qcollectiongenerator" with the ^
+.qhcp project file in %BUILDDIR%/qthelp, like this:
+ echo.^> qcollectiongenerator %BUILDDIR%\qthelp\.qhcp
+ echo.To view the help file:
+ echo.^> assistant -collectionFile %BUILDDIR%\qthelp\.ghc
+ goto end
+)
+
+if "%1" == "devhelp" (
+ %SPHINXBUILD% -b devhelp %ALLSPHINXOPTS% %BUILDDIR%/devhelp
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished.
+ goto end
+)
+
+if "%1" == "epub" (
+ %SPHINXBUILD% -b epub %ALLSPHINXOPTS% %BUILDDIR%/epub
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished. The epub file is in %BUILDDIR%/epub.
+ goto end
+)
+
+if "%1" == "latex" (
+ %SPHINXBUILD% -b latex %ALLSPHINXOPTS% %BUILDDIR%/latex
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished; the LaTeX files are in %BUILDDIR%/latex.
+ goto end
+)
+
+if "%1" == "text" (
+ %SPHINXBUILD% -b text %ALLSPHINXOPTS% %BUILDDIR%/text
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished. The text files are in %BUILDDIR%/text.
+ goto end
+)
+
+if "%1" == "man" (
+ %SPHINXBUILD% -b man %ALLSPHINXOPTS% %BUILDDIR%/man
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished. The manual pages are in %BUILDDIR%/man.
+ goto end
+)
+
+if "%1" == "texinfo" (
+ %SPHINXBUILD% -b texinfo %ALLSPHINXOPTS% %BUILDDIR%/texinfo
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished. The Texinfo files are in %BUILDDIR%/texinfo.
+ goto end
+)
+
+if "%1" == "gettext" (
+ %SPHINXBUILD% -b gettext %I18NSPHINXOPTS% %BUILDDIR%/locale
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Build finished. The message catalogs are in %BUILDDIR%/locale.
+ goto end
+)
+
+if "%1" == "changes" (
+ %SPHINXBUILD% -b changes %ALLSPHINXOPTS% %BUILDDIR%/changes
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.The overview file is in %BUILDDIR%/changes.
+ goto end
+)
+
+if "%1" == "linkcheck" (
+ %SPHINXBUILD% -b linkcheck %ALLSPHINXOPTS% %BUILDDIR%/linkcheck
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Link check complete; look for any errors in the above output ^
+or in %BUILDDIR%/linkcheck/output.txt.
+ goto end
+)
+
+if "%1" == "doctest" (
+ %SPHINXBUILD% -b doctest %ALLSPHINXOPTS% %BUILDDIR%/doctest
+ if errorlevel 1 exit /b 1
+ echo.
+ echo.Testing of doctests in the sources finished, look at the ^
+results in %BUILDDIR%/doctest/output.txt.
+ goto end
+)
+
+:end
diff --git a/python/docSRC/matlab.rst b/python/docSRC/matlab.rst
new file mode 100644
index 0000000..fb7033e
--- /dev/null
+++ b/python/docSRC/matlab.rst
@@ -0,0 +1,8 @@
+MATLAB compatibility interface: the :mod:`matlab` module
+========================================================
+
+.. automodule:: astra.matlab
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/matrix.rst b/python/docSRC/matrix.rst
new file mode 100644
index 0000000..6f11d8a
--- /dev/null
+++ b/python/docSRC/matrix.rst
@@ -0,0 +1,8 @@
+Sparse matrices: the :mod:`matrix` module
+=========================================
+
+.. automodule:: astra.matrix
+ :members:
+ :undoc-members:
+ :show-inheritance:
+
diff --git a/python/docSRC/projector.rst b/python/docSRC/projector.rst
new file mode 100644
index 0000000..b0854e8
--- /dev/null
+++ b/python/docSRC/projector.rst
@@ -0,0 +1,8 @@
+Projector object: the :mod:`projector` module
+=============================================
+
+.. automodule:: astra.projector
+ :members:
+ :undoc-members:
+ :show-inheritance:
+