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-----------------------------------------------------------------------
This file is part of the ASTRA Toolbox
Copyright: 2010-2015, iMinds-Vision Lab, University of Antwerp
2014-2015, CWI, Amsterdam
http://visielab.uantwerpen.be/ and http://www.cwi.nl/
License: Open Source under GPLv3
Contact: astra@uantwerpen.be
Website: http://sf.net/projects/astra-toolbox
-----------------------------------------------------------------------
The ASTRA Toolbox is a MATLAB toolbox of high-performance GPU primitives
for 2D and 3D tomography.
We support 2D parallel and fan beam geometries, and 3D parallel and cone beam.
All of them have highly flexible source/detector positioning.
A large number of 2D and 3D algorithms are available, including FBP, SIRT,
SART, CGLS.
The basic forward and backward projection operations are GPU-accelerated,
and directly callable from MATLAB to enable building new algorithms.
Documentation / samples:
-------------------------
See the matlab code samples in samples/ and on
http://sf.net/projects/astra-toolbox .
Installation instructions:
---------------------------
Windows, binary:
-----------------
Add the mex and tools subdirectories to your matlab path.
Linux, from source:
--------------------
Requirements: g++, boost, CUDA (driver+toolkit), Matlab and/or Python (2.7 or 3.x)
cd build/linux
./autogen.sh # when building a git version
./configure --with-cuda=/usr/local/cuda \
--with-matlab=/usr/local/MATLAB/R2012a \
--with-python \
--prefix=/usr/local/astra
make
make install
Add /usr/local/astra/lib to your LD_LIBRARY_PATH.
Add /usr/local/astra/matlab and its subdirectories (tools, mex)
to your matlab path.
Add /usr/local/astra/python to your PYTHONPATH.
NB: Each matlab version only supports a specific range of g++ versions.
Despite this, if you have a newer g++ and if you get errors related to missing
GLIBCXX_3.4.xx symbols, it is often possible to work around this requirement
by deleting the version of libstdc++ supplied by matlab in
MATLAB_PATH/bin/glnx86 or MATLAB_PATH/bin/glnxa64 (at your own risk).
Windows, from source using Visual Studio 2008:
-----------------------------------------------
Requirements: Visual Studio 2008, boost, CUDA (driver+toolkit), matlab.
Note that a .zip with all required (and precompiled) boost files is
available from our website.
Set the environment variable MATLAB_ROOT to your matlab install location.
Open astra_vc08.sln in Visual Studio.
Select the appropriate solution configuration.
(typically Release_CUDA|win32 or Release_CUDA|x64)
Build the solution.
Install by copying AstraCuda32.dll or AstraCuda64.dll from bin/ and
all .mexw32 or .mexw64 files from bin/Release_CUDA or bin/Debug_CUDA
and the entire matlab/tools directory to a directory to be added to
your matlab path.
References:
------------
If you use the ASTRA Toolbox for your research, we would appreciate it if you would refer to the following paper:
W. van Aarle, W. J. Palenstijn, J. De Beenhouwer, T. Altantzis, S. Bals, K J. Batenburg, and J. Sijbers, "The ASTRA Toolbox: A platform for advanced algorithm development in electron tomography", Ultramicroscopy (2015), http://dx.doi.org/10.1016/j.ultramic.2015.05.002
Additionally, if you use parallel beam GPU code, we would appreciate it if you would refer to the following paper:
W. J. Palenstijn, K J. Batenburg, and J. Sijbers, "Performance improvements
for iterative electron tomography reconstruction using graphics processing
units (GPUs)", Journal of Structural Biology, vol. 176, issue 2, pp. 250-253,
2011, http://dx.doi.org/10.1016/j.jsb.2011.07.017
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