mirror of
https://github.com/c-sooyoung/fold_slice.git
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initial commit
This commit is contained in:
@@ -0,0 +1,176 @@
|
||||
%PREP_INITIAL_CONDITIONS prepares the initial_conditions file for the
|
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% reconstruction with external C++ code
|
||||
% save2hdf5 is used to save the required datasets and attributes to an h5 file
|
||||
%
|
||||
% ** p p structure
|
||||
%
|
||||
% see also: engines.c_solver
|
||||
%
|
||||
|
||||
% Academic License Agreement
|
||||
%
|
||||
% Source Code
|
||||
%
|
||||
% Introduction
|
||||
% • This license agreement sets forth the terms and conditions under which the PAUL SCHERRER INSTITUT (PSI), CH-5232 Villigen-PSI, Switzerland (hereafter "LICENSOR")
|
||||
% will grant you (hereafter "LICENSEE") a royalty-free, non-exclusive license for academic, non-commercial purposes only (hereafter "LICENSE") to use the PtychoShelves
|
||||
% computer software program and associated documentation furnished hereunder (hereafter "PROGRAM").
|
||||
%
|
||||
% Terms and Conditions of the LICENSE
|
||||
% 1. LICENSOR grants to LICENSEE a royalty-free, non-exclusive license to use the PROGRAM for academic, non-commercial purposes, upon the terms and conditions
|
||||
% hereinafter set out and until termination of this license as set forth below.
|
||||
% 2. LICENSEE acknowledges that the PROGRAM is a research tool still in the development stage. The PROGRAM is provided without any related services, improvements
|
||||
% or warranties from LICENSOR and that the LICENSE is entered into in order to enable others to utilize the PROGRAM in their academic activities. It is the
|
||||
% LICENSEE’s responsibility to ensure its proper use and the correctness of the results.”
|
||||
% 3. THE PROGRAM IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR
|
||||
% A PARTICULAR PURPOSE AND NONINFRINGEMENT OF ANY PATENTS, COPYRIGHTS, TRADEMARKS OR OTHER RIGHTS. IN NO EVENT SHALL THE LICENSOR, THE AUTHORS OR THE COPYRIGHT
|
||||
% HOLDERS BE LIABLE FOR ANY CLAIM, DIRECT, INDIRECT OR CONSEQUENTIAL DAMAGES OR OTHER LIABILITY ARISING FROM, OUT OF OR IN CONNECTION WITH THE PROGRAM OR THE USE
|
||||
% OF THE PROGRAM OR OTHER DEALINGS IN THE PROGRAM.
|
||||
% 4. LICENSEE agrees that it will use the PROGRAM and any modifications, improvements, or derivatives of PROGRAM that LICENSEE may create (collectively,
|
||||
% "IMPROVEMENTS") solely for academic, non-commercial purposes and that any copy of PROGRAM or derivatives thereof shall be distributed only under the same
|
||||
% license as PROGRAM. The terms "academic, non-commercial", as used in this Agreement, mean academic or other scholarly research which (a) is not undertaken for
|
||||
% profit, or (b) is not intended to produce works, services, or data for commercial use, or (c) is neither conducted, nor funded, by a person or an entity engaged
|
||||
% in the commercial use, application or exploitation of works similar to the PROGRAM.
|
||||
% 5. LICENSEE agrees that it shall make the following acknowledgement in any publication resulting from the use of the PROGRAM or any translation of the code into
|
||||
% another computing language:
|
||||
% "Data processing was carried out using the PtychoShelves package developed by the Science IT and the coherent X-ray scattering (CXS) groups, Paul
|
||||
% Scherrer Institut, Switzerland."
|
||||
%
|
||||
% Additionally, any publication using the package, or any translation of the code into another computing language should cite
|
||||
% K. Wakonig, H.-C. Stadler, M. Odstrčil, E.H.R. Tsai, A. Diaz, M. Holler, I. Usov, J. Raabe, A. Menzel, M. Guizar-Sicairos, PtychoShelves, a versatile
|
||||
% high-level framework for high-performance analysis of ptychographic data, J. Appl. Cryst. 53(2) (2020). (doi: 10.1107/S1600576720001776)
|
||||
% and for difference map:
|
||||
% P. Thibault, M. Dierolf, A. Menzel, O. Bunk, C. David, F. Pfeiffer, High-resolution scanning X-ray diffraction microscopy, Science 321, 379–382 (2008).
|
||||
% (doi: 10.1126/science.1158573),
|
||||
% for maximum likelihood:
|
||||
% P. Thibault and M. Guizar-Sicairos, Maximum-likelihood refinement for coherent diffractive imaging, New J. Phys. 14, 063004 (2012).
|
||||
% (doi: 10.1088/1367-2630/14/6/063004),
|
||||
% for LSQ-ML:
|
||||
% M. Odstrčil, A. Menzel, and M. Guizar-Sicairos, Iterative least-squares solver for generalized maximum-likelihood ptychography, Opt. Express 26(3), 3108 (2018).
|
||||
% (doi: 10.1364/OE.26.003108),
|
||||
% for mixed coherent modes:
|
||||
% P. Thibault and A. Menzel, Reconstructing state mixtures from diffraction measurements, Nature 494, 68–71 (2013). (doi: 10.1038/nature11806),
|
||||
% and/or for multislice:
|
||||
% E. H. R. Tsai, I. Usov, A. Diaz, A. Menzel, and M. Guizar-Sicairos, X-ray ptychography with extended depth of field, Opt. Express 24, 29089–29108 (2016).
|
||||
% (doi: 10.1364/OE.24.029089),
|
||||
% and/or for OPRP:
|
||||
% M. Odstrcil, P. Baksh, S. A. Boden, R. Card, J. E. Chad, J. G. Frey, W. S. Brocklesby, Ptychographic coherent diffractive imaging with orthogonal probe relaxation.
|
||||
% Opt. Express 24.8 (8360-8369) 2016. (doi: 10.1364/OE.24.008360).
|
||||
% 6. Except for the above-mentioned acknowledgment, LICENSEE shall not use the PROGRAM title or the names or logos of LICENSOR, nor any adaptation thereof, nor the
|
||||
% names of any of its employees or laboratories, in any advertising, promotional or sales material without prior written consent obtained from LICENSOR in each case.
|
||||
% 7. Ownership of all rights, including copyright in the PROGRAM and in any material associated therewith, shall at all times remain with LICENSOR, and LICENSEE
|
||||
% agrees to preserve same. LICENSEE agrees not to use any portion of the PROGRAM or of any IMPROVEMENTS in any machine-readable form outside the PROGRAM, nor to
|
||||
% make any copies except for its internal use, without prior written consent of LICENSOR. LICENSEE agrees to place the following copyright notice on any such copies:
|
||||
% © All rights reserved. PAUL SCHERRER INSTITUT, Switzerland, Laboratory for Macromolecules and Bioimaging, 2017.
|
||||
% 8. The LICENSE shall not be construed to confer any rights upon LICENSEE by implication or otherwise except as specifically set forth herein.
|
||||
% 9. DISCLAIMER: LICENSEE shall be aware that Phase Focus Limited of Sheffield, UK has an international portfolio of patents and pending applications which relate
|
||||
% to ptychography and that the PROGRAM may be capable of being used in circumstances which may fall within the claims of one or more of the Phase Focus patents,
|
||||
% in particular of patent with international application number PCT/GB2005/001464. The LICENSOR explicitly declares not to indemnify the users of the software
|
||||
% in case Phase Focus or any other third party will open a legal action against the LICENSEE due to the use of the program.
|
||||
% 10. This Agreement shall be governed by the material laws of Switzerland and any dispute arising out of this Agreement or use of the PROGRAM shall be brought before
|
||||
% the courts of Zürich, Switzerland.
|
||||
|
||||
function prep_initial_conditions( p )
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import utils.verbose
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import io.HDF.save2hdf5
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% define structure and append attributes
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h5_struc = [];
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h5_struc.Attributes.pfft_relaxation = p.pfft_relaxation;
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h5_struc.Attributes.probe_regularization = p.probe_regularization;
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h5_struc.Attributes.probe_radius = p.probe_support_radius;
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h5_struc.Attributes.diffmap_iterations = uint32(p.number_iterations);
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h5_struc.Attributes.max_mlh_iterations = uint32(p.opt_iter);
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% for multi-slice c-code:
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% currently only allow the same initial guess for all slices
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%if isfield(p,'N_layer') && strcmpi(p.engines{1}.name, 'c_solver') && (isfield(p,'object') && var(p.object{1}(:))>1e-5) %&& strcmpi(p.initial_iterate_object,'file')
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if isfield(p,'N_layer') && strcmpi(p.engines{1}.name, 'c_solver') && ~isempty(p.initial_iterate_object_file{1})
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for ii=p.share_object_ID
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%% Simple initial guess
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if size(p.object{ii},4) < p.N_layer
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extra_layers = p.N_layer-size(p.object{ii},4);
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p.object{ii} = cat(4, p.object{ii}, ones([p.object_size(ii,:),p.object_modes,extra_layers]));
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% get the empty layers on top / bottom
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p.object{ii} = circshift(p.object{ii}, floor(extra_layers/2),4);
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end
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%% Esther version, unrealiable ....
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% if ~isfield(p,'ms_init_ob_fraction') || sum(p.ms_init_ob_fraction)~=1 || length(p.ms_init_ob_fraction)~=p.N_layer
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% verbose(3, '## p.ms_init_ob_fraction: using default 1/N_layer');
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% p.ms_init_ob_fraction = ones(1,p.N_layer) / p.N_layer;
|
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% end
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||||
% if sum(p.ms_init_ob_fraction==1)==0
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% for ii=p.share_object_ID
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% ob_phase = engines.ML_MS.fun_ramp_unwrap(p.object{ii}, p.asize);
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% ob_abs = abs(p.object{ii});
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% for n = 1:p.N_layer
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% p.object{ii}(:,:,1,n) = ob_abs.^(p.ms_init_ob_fraction(1)) .* exp(1i*ob_phase.*p.ms_init_ob_fraction(n));
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% end
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||||
% end
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% elseif size(p.object{1},4)==1 % No p.object_layers loaded; No unwrapping
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% for ii=p.share_object_ID
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% ob = p.object{ii};
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% for n = 1:p.N_layer
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% if p.ms_init_ob_fraction(n)==1
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% p.object{ii}(:,:,1,n) = ob;
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% else
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% p.object{ii}(:,:,1,n) = ones(size(ob))*(1+1i*1e-8);
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% end
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% end
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% end
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% end
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% if 1
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% figure(100);
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% for n = 1:p.N_layer
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% subplot(1,p.N_layer,n);
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% imagesc(angle(p.object{1}(:,:,1,n))); axis xy equal tight; colorbar
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% title(sprintf('Initial condition (phase), layer %d',n));
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% end
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% drawnow
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% end
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end
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end
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if ~isempty(p.delta_z) && p.preshift_ML_probe
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% if multilayer extension is used, assume that the probe is
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% reconstructed at the center plane of the sample -> apply shift
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probe_offset = -sum(p.delta_z)/2;
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p.probes = utils.prop_free_nf(p.probes, p.lambda , probe_offset, p.dx_spec(1)) ;
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end
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% define object and probe datasets
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% axes have to be permuted
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for ii=p.share_object_ID
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h5_struc.objects.(['object_' num2str(ii-1)]) = permute(p.object{ii}, [2 1 3 4]);
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end
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for ii=p.share_probe_ID
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h5_struc.probes.(['probe_' num2str(ii-1)]) = permute(squeeze(p.probes(:,:,ii,:)), [2 1 3]);
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end
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% write data to disk, using a compression level as defined in
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% template_ptycho
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verbose(3,'Writing H5 initial conditions file: %s',[p.initial_conditions_path p.initial_conditions_file]);
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save2hdf5([p.initial_conditions_path p.initial_conditions_file], h5_struc, 'overwrite', true, 'comp', p.io.file_compression);
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% update object size defined in the prepared data
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verbose(3,'Updating measurement file: %s',[p.prepare_data_path p.prepare_data_filename]);
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for ii = 1:p.numobjs
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objects(:,ii) = uint64([size(p.object{ii},1),size(p.object{ii},2)]);
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end
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save2hdf5([p.prepare_data_path p.prepare_data_filename], objects, 'data_name', 'objects', 'overwrite', false);
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% save updated positions into the prepared data
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% save2hdf5([p.prepare_data_path p.prepare_data_filename], uint32(p.positions'), 'data_name', 'measurement/n0/positions', 'overwrite', false);
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end
|
||||
|
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@@ -0,0 +1,172 @@
|
||||
% Call the external reconstruction program
|
||||
|
||||
% Academic License Agreement
|
||||
%
|
||||
% Source Code
|
||||
%
|
||||
% Introduction
|
||||
% • This license agreement sets forth the terms and conditions under which the PAUL SCHERRER INSTITUT (PSI), CH-5232 Villigen-PSI, Switzerland (hereafter "LICENSOR")
|
||||
% will grant you (hereafter "LICENSEE") a royalty-free, non-exclusive license for academic, non-commercial purposes only (hereafter "LICENSE") to use the PtychoShelves
|
||||
% computer software program and associated documentation furnished hereunder (hereafter "PROGRAM").
|
||||
%
|
||||
% Terms and Conditions of the LICENSE
|
||||
% 1. LICENSOR grants to LICENSEE a royalty-free, non-exclusive license to use the PROGRAM for academic, non-commercial purposes, upon the terms and conditions
|
||||
% hereinafter set out and until termination of this license as set forth below.
|
||||
% 2. LICENSEE acknowledges that the PROGRAM is a research tool still in the development stage. The PROGRAM is provided without any related services, improvements
|
||||
% or warranties from LICENSOR and that the LICENSE is entered into in order to enable others to utilize the PROGRAM in their academic activities. It is the
|
||||
% LICENSEE’s responsibility to ensure its proper use and the correctness of the results.”
|
||||
% 3. THE PROGRAM IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR
|
||||
% A PARTICULAR PURPOSE AND NONINFRINGEMENT OF ANY PATENTS, COPYRIGHTS, TRADEMARKS OR OTHER RIGHTS. IN NO EVENT SHALL THE LICENSOR, THE AUTHORS OR THE COPYRIGHT
|
||||
% HOLDERS BE LIABLE FOR ANY CLAIM, DIRECT, INDIRECT OR CONSEQUENTIAL DAMAGES OR OTHER LIABILITY ARISING FROM, OUT OF OR IN CONNECTION WITH THE PROGRAM OR THE USE
|
||||
% OF THE PROGRAM OR OTHER DEALINGS IN THE PROGRAM.
|
||||
% 4. LICENSEE agrees that it will use the PROGRAM and any modifications, improvements, or derivatives of PROGRAM that LICENSEE may create (collectively,
|
||||
% "IMPROVEMENTS") solely for academic, non-commercial purposes and that any copy of PROGRAM or derivatives thereof shall be distributed only under the same
|
||||
% license as PROGRAM. The terms "academic, non-commercial", as used in this Agreement, mean academic or other scholarly research which (a) is not undertaken for
|
||||
% profit, or (b) is not intended to produce works, services, or data for commercial use, or (c) is neither conducted, nor funded, by a person or an entity engaged
|
||||
% in the commercial use, application or exploitation of works similar to the PROGRAM.
|
||||
% 5. LICENSEE agrees that it shall make the following acknowledgement in any publication resulting from the use of the PROGRAM or any translation of the code into
|
||||
% another computing language:
|
||||
% "Data processing was carried out using the PtychoShelves package developed by the Science IT and the coherent X-ray scattering (CXS) groups, Paul
|
||||
% Scherrer Institut, Switzerland."
|
||||
%
|
||||
% Additionally, any publication using the package, or any translation of the code into another computing language should cite
|
||||
% K. Wakonig, H.-C. Stadler, M. Odstrčil, E.H.R. Tsai, A. Diaz, M. Holler, I. Usov, J. Raabe, A. Menzel, M. Guizar-Sicairos, PtychoShelves, a versatile
|
||||
% high-level framework for high-performance analysis of ptychographic data, J. Appl. Cryst. 53(2) (2020). (doi: 10.1107/S1600576720001776)
|
||||
% and for difference map:
|
||||
% P. Thibault, M. Dierolf, A. Menzel, O. Bunk, C. David, F. Pfeiffer, High-resolution scanning X-ray diffraction microscopy, Science 321, 379–382 (2008).
|
||||
% (doi: 10.1126/science.1158573),
|
||||
% for maximum likelihood:
|
||||
% P. Thibault and M. Guizar-Sicairos, Maximum-likelihood refinement for coherent diffractive imaging, New J. Phys. 14, 063004 (2012).
|
||||
% (doi: 10.1088/1367-2630/14/6/063004),
|
||||
% for LSQ-ML:
|
||||
% M. Odstrčil, A. Menzel, and M. Guizar-Sicairos, Iterative least-squares solver for generalized maximum-likelihood ptychography, Opt. Express 26(3), 3108 (2018).
|
||||
% (doi: 10.1364/OE.26.003108),
|
||||
% for mixed coherent modes:
|
||||
% P. Thibault and A. Menzel, Reconstructing state mixtures from diffraction measurements, Nature 494, 68–71 (2013). (doi: 10.1038/nature11806),
|
||||
% and/or for multislice:
|
||||
% E. H. R. Tsai, I. Usov, A. Diaz, A. Menzel, and M. Guizar-Sicairos, X-ray ptychography with extended depth of field, Opt. Express 24, 29089–29108 (2016).
|
||||
% (doi: 10.1364/OE.24.029089),
|
||||
% and/or for OPRP:
|
||||
% M. Odstrcil, P. Baksh, S. A. Boden, R. Card, J. E. Chad, J. G. Frey, W. S. Brocklesby, Ptychographic coherent diffractive imaging with orthogonal probe relaxation.
|
||||
% Opt. Express 24.8 (8360-8369) 2016. (doi: 10.1364/OE.24.008360).
|
||||
% 6. Except for the above-mentioned acknowledgment, LICENSEE shall not use the PROGRAM title or the names or logos of LICENSOR, nor any adaptation thereof, nor the
|
||||
% names of any of its employees or laboratories, in any advertising, promotional or sales material without prior written consent obtained from LICENSOR in each case.
|
||||
% 7. Ownership of all rights, including copyright in the PROGRAM and in any material associated therewith, shall at all times remain with LICENSOR, and LICENSEE
|
||||
% agrees to preserve same. LICENSEE agrees not to use any portion of the PROGRAM or of any IMPROVEMENTS in any machine-readable form outside the PROGRAM, nor to
|
||||
% make any copies except for its internal use, without prior written consent of LICENSOR. LICENSEE agrees to place the following copyright notice on any such copies:
|
||||
% © All rights reserved. PAUL SCHERRER INSTITUT, Switzerland, Laboratory for Macromolecules and Bioimaging, 2017.
|
||||
% 8. The LICENSE shall not be construed to confer any rights upon LICENSEE by implication or otherwise except as specifically set forth herein.
|
||||
% 9. DISCLAIMER: LICENSEE shall be aware that Phase Focus Limited of Sheffield, UK has an international portfolio of patents and pending applications which relate
|
||||
% to ptychography and that the PROGRAM may be capable of being used in circumstances which may fall within the claims of one or more of the Phase Focus patents,
|
||||
% in particular of patent with international application number PCT/GB2005/001464. The LICENSOR explicitly declares not to indemnify the users of the software
|
||||
% in case Phase Focus or any other third party will open a legal action against the LICENSEE due to the use of the program.
|
||||
% 10. This Agreement shall be governed by the material laws of Switzerland and any dispute arising out of this Agreement or use of the PROGRAM shall be brought before
|
||||
% the courts of Zürich, Switzerland.
|
||||
|
||||
function [p, fdb] = prepare_external_call(p, fdb)
|
||||
import utils.check_cpu_load
|
||||
import utils.verbose
|
||||
|
||||
if isempty(p.reconstruction_program)
|
||||
|
||||
if ispc
|
||||
error('C_solver engine is not supported for Windows systems')
|
||||
end
|
||||
if p.single_prec
|
||||
prec = 'singlePrec';
|
||||
else
|
||||
prec = 'doublePrec';
|
||||
end
|
||||
|
||||
if isempty(p.caller_suffix)
|
||||
suffix = '';
|
||||
else
|
||||
suffix = ['_' p.caller_suffix];
|
||||
end
|
||||
|
||||
if isfield(p, 'ra_reservation') && ~isempty(p.ra_reservation)
|
||||
reservation_flag = [' --reservation=' p.ra_reservation];
|
||||
else
|
||||
reservation_flag = ' ';
|
||||
end
|
||||
|
||||
solver_path = fullfile(p.ptycho_package_path,'/+engines/+c_solver/');
|
||||
%disp(p.use_gpu)
|
||||
if ~p.use_gpu
|
||||
num_threads = sprintf('OMP_NUM_THREADS=%d', p.threads);
|
||||
|
||||
[status, hostname] = system('hostname');
|
||||
fdb.status = core.engine_status(status);
|
||||
host_pre = strsplit(hostname, '-');
|
||||
|
||||
if ~isfield(p, 'hybrid')
|
||||
p.hybrid = 1;
|
||||
end
|
||||
if p.number_iterations+p.opt_iter > 5000
|
||||
slurm_partition='week';
|
||||
else
|
||||
slurm_partition='day';
|
||||
end
|
||||
switch host_pre{1}
|
||||
case 'ra'
|
||||
if p.ra_nodes == 0
|
||||
multiproc = 'OMP';
|
||||
p.reconstruction_program = [num_threads ' ', solver_path 'ptycho_' prec '_' multiproc suffix];
|
||||
elseif p.ra_nodes==1
|
||||
multiproc = 'OMP';
|
||||
p.reconstruction_program = ['OMP_PROC_BIND=spread ' num_threads ' salloc -p ' slurm_partition reservation_flag ' --ntasks-per-node=1 --job-name=ptycho_recons -N ' num2str(p.ra_nodes) ' $(which mpirun) -x OMP_NUM_THREADS -x OMP_PROC_BIND --bind-to none --map-by ppr:1:node ', solver_path 'ptycho_' prec '_' multiproc suffix];
|
||||
else
|
||||
if p.hybrid
|
||||
multiproc = 'hybrid';
|
||||
p.reconstruction_program = ['OMP_PROC_BIND=spread ' num_threads ' salloc -p ' slurm_partition reservation_flag ' --ntasks-per-node=1 --job-name=ptycho_recons -N ' num2str(p.ra_nodes) ' $(which mpirun) -x OMP_NUM_THREADS -x OMP_PROC_BIND --bind-to none --map-by core=' num2str(p.threads) ' --map-by ppr:1:node ', solver_path 'ptycho_' prec '_' multiproc suffix];
|
||||
else
|
||||
multiproc = 'MPI';
|
||||
p.reconstruction_program = ['salloc -p ' slurm_partition reservation_flag ' --ntasks-per-node=1 -N ' num2str(p.ra_nodes) ' $(which mpirun) -x --map-by core=' num2str(p.threads) ' --map-by ppr:1:node ', solver_path 'ptycho_' prec '_' multiproc suffix];
|
||||
end
|
||||
end
|
||||
case 'x12sa'
|
||||
if isempty(p.beamline_nodes)
|
||||
multiproc = 'OMP';
|
||||
p.reconstruction_program = [num_threads ' ', solver_path 'ptycho_' prec '_' multiproc suffix];
|
||||
|
||||
else
|
||||
% if p.check_cpu_load
|
||||
% fprintf('Checking CPU load...\n');
|
||||
% cn_usage = check_cpu_load(p.beamline_nodes);
|
||||
% if any(cn_usage>=15)
|
||||
% fprintf('Usage: \n');
|
||||
% check_cpu_load;
|
||||
% pause(10);
|
||||
% fprintf('Okay, I will try to squeeze in...\n');
|
||||
% end
|
||||
% end
|
||||
|
||||
hosts = join(cellstr(p.beamline_nodes), ',');
|
||||
Nhosts = length(p.beamline_nodes);
|
||||
|
||||
if p.hybrid
|
||||
multiproc = 'hybrid';
|
||||
p.reconstruction_program = [num_threads ' $(which mpirun) --bind-to none -x OMP_NUM_THREADS -x LD_LIBRARY_PATH -H ' hosts{1} ' -np ' num2str(Nhosts) ' ', solver_path 'ptycho_' prec '_' multiproc suffix];
|
||||
else
|
||||
multiproc = 'MPI';
|
||||
p.reconstruction_program = ['$(which mpirun) -x LD_LIBRARY_PATH -H ' hosts{1} ' -np ' num2str(Nhosts) ' ', solver_path '/ptycho_' prec '_' multiproc suffix];
|
||||
end
|
||||
|
||||
end
|
||||
otherwise
|
||||
multiproc = 'OMP';
|
||||
p.reconstruction_program = [num_threads ' ', solver_path 'ptycho_' prec '_' multiproc suffix];
|
||||
disp(p.reconstruction_program)
|
||||
verbose(2, 'Unknown host. Please make sure that the correct libraries are loaded or run it on the DaaS / X12SA beamline nodes.');
|
||||
end
|
||||
else
|
||||
if p.num_gpus==1
|
||||
p.reconstruction_program = [solver_path '/ptycho_' prec '_singleGPU' suffix ' --cuda_device ' num2str(p.gpu_id-1)];
|
||||
else
|
||||
p.reconstruction_program = ['$(which mpirun) -np ' num2str(p.num_gpus) ' ' solver_path '/ptycho_' prec '_multiGPU' suffix ' --cuda_device ' num2str(p.gpu_id-1)];
|
||||
end
|
||||
end
|
||||
|
||||
end
|
||||
end
|
||||
|
||||
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Reference in New Issue
Block a user