From a203949c84484fe2641e39451f033d20d445b1f3 Mon Sep 17 00:00:00 2001
From: Edoardo Pasca <edo.paskino@gmail.com>
Date: Wed, 23 Aug 2017 16:51:18 +0100
Subject: export/import data from hdf5
Added file to export the data from DemoRD2.m to HDF5 to pass it to Python.
Added file to import the data from DemoRD2.m from HDF5.
---
demos/exportDemoRD2Data.m | 35 +++++++++++++++++++++++++++++++++++
1 file changed, 35 insertions(+)
create mode 100644 demos/exportDemoRD2Data.m
(limited to 'demos')
diff --git a/demos/exportDemoRD2Data.m b/demos/exportDemoRD2Data.m
new file mode 100644
index 0000000..028353b
--- /dev/null
+++ b/demos/exportDemoRD2Data.m
@@ -0,0 +1,35 @@
+clear all
+close all
+%%
+% % adding paths
+addpath('../data/');
+addpath('../main_func/'); addpath('../main_func/regularizers_CPU/');
+addpath('../supp/');
+
+load('DendrRawData.mat') % load raw data of 3D dendritic set
+angles_rad = angles*(pi/180); % conversion to radians
+size_det = size(data_raw3D,1); % detectors dim
+angSize = size(data_raw3D, 2); % angles dim
+slices_tot = size(data_raw3D, 3); % no of slices
+recon_size = 950; % reconstruction size
+
+Sino3D = zeros(size_det, angSize, slices_tot, 'single'); % log-corrected sino
+% normalizing the data
+for jj = 1:slices_tot
+ sino = data_raw3D(:,:,jj);
+ for ii = 1:angSize
+ Sino3D(:,ii,jj) = log((flats_ar(:,jj)-darks_ar(:,jj))./(single(sino(:,ii)) - darks_ar(:,jj)));
+ end
+end
+
+Sino3D = Sino3D.*1000;
+Weights3D = single(data_raw3D); % weights for PW model
+clear data_raw3D
+
+hdf5write('DendrData.h5', '/Weights3D', Weights3D)
+hdf5write('DendrData.h5', '/Sino3D', Sino3D, 'WriteMode', 'append')
+hdf5write('DendrData.h5', '/angles_rad', angles_rad, 'WriteMode', 'append')
+hdf5write('DendrData.h5', '/size_det', size_det, 'WriteMode', 'append')
+hdf5write('DendrData.h5', '/angSize', angSize, 'WriteMode', 'append')
+hdf5write('DendrData.h5', '/slices_tot', slices_tot, 'WriteMode', 'append')
+hdf5write('DendrData.h5', '/recon_size', recon_size, 'WriteMode', 'append')
\ No newline at end of file
--
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