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AstraReconGpu
AstraReconGpu
Summary
AstraReconGpu | |||||
Process category | Brief description | Computational demand for typical tomography data (low, medium, high) | Comment(s) | Reference(s) | Common alternative process(es) |
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reconstructor | To reconstruct normalised and conditioned data. | Depends on the reconstruction algorithm selected. | Uses GPU resources. | The Astra Toolbox |
Parameters
Brief description |
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Savu Configurator command
>>> disp -avv ------------------------------------------------------------------------------------- 8) AstraReconGpu(savu.plugins.reconstructions.astra_recons.astra_recon_gpu) Wrapper around the Astra toolbox for gpu reconstruction. 1) init_vol : None Dataset to use as volume initialiser (doesn't currently work with preview). 2) preview : [] A slice list of required frames. 3) log : True Take the log of the data before reconstruction (True or False). 4) algorithm : FBP_CUDA Reconstruction type (FBP_CUDA|SIRT_CUDA| SART_CUDA (not currently working)|CGLS_CUDA|FP_CUDA|BP_CUDA| SIRT3D_CUDA|CGLS3D_CUDA). 5) n_iterations : 1 Number of Iterations - only valid for iterative algorithms. 6) res_norm : False Output the residual norm at each iteration (Error in the solution - iterative solvers only). 7) centre_of_rotation : 0.0 Centre of rotation to use for the reconstruction. 8) FBP_filter : ram-lak The FBP reconstruction filter type (none|ram-lak| shepp- logan|cosine|hamming|hann|tukey|lanczos|triangular|gaussian| barlett- hann|blackman|nuttall|blackman-harris|blackman-nuttall| flat-top|kaiser|parzen). 9) in_datasets : [] Create a list of the dataset(s) to process. 10) ratio : 0.95 Ratio of the masks diameter in pixels to the smallest edge size along given axis. 11) out_datasets : [] Create a list of the dataset(s) to create. 12) centre_pad : False Pad the sinogram to centre it in order to fill the reconstructed volume ROI for asthetic purposes. NB: Only available for selected algorithms and will be ignored otherwise. WARNING: This will significantly increase the size of the data and the time to compute the reconstruction). 13) outer_pad : False Pad the sinogram width to fill the reconstructed volume for asthetic purposes. Choose from True (defaults to sqrt(2)), False or float <= 2.1. NB: Only available for selected algorithms and will be ignored otherwise. WARNING: This will increase the size of the data and the time to compute the reconstruction). 14) log_func : np.nan_to_num(-np.log(sino)) Override the default log function. 15) force_zero : [None, None] Set any values in the reconstructed image outside of this range to zero. ------------------------------------------------------------------------------------- >>>
Additional notes |
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For basic information on this process, please use the disp -av (or disp -avv or disp -v[v] <process index>) command in Savu Configurator (see above). The table below is intended to provide some additional notes on a number of selected topics:
Item | Parameter name | Parameter format | Example(s) | Comment(s) | |
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Parameter value | Effect | ||||
1 | init_vol | ||||
2 | preview | ||||
3 | log | The log parameter needs to be set to False, if PaganinFilter is applied beforehand. | |||
4 | algorithm | ||||
5 | n_iterations | ||||
6 | res_norm | ||||
7 | centre_of_rotation | The default value of the centre_of_rotation parameter is 0.0, which normally needs to be manually modified to a more appropriate value or, if VoCentering is used beforehand in the process chain, then this parameter is automatically set to a value determined by this auto-centring process. | |||
8 | FBP_filter | ||||
9 | in_datasets | ||||
10 | ratio | ||||
11 | out_datasets | ||||
12 | centre_pad | ||||
13 | outer_pad | ||||
14 | force_zero |
Usage
TBC.
, multiple selections available,
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