- Nov 06, 2019
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Sebastien Herbert authored
Skeleton only
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Sebastien Herbert authored
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- Oct 31, 2019
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Sebastien Herbert authored
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Sebastien Herbert authored
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Sebastien Herbert authored
Ensures that the majority of the faces are facing upward
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Sebastien Herbert authored
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Sebastien Herbert authored
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- Oct 30, 2019
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Sebastien Herbert authored
Only takes care of the cells contour, doesn't take into account the junction network Signed-off-by:
sebherbert <sherbert@pasteur.fr>
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Sebastien Herbert authored
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Sebastien Herbert authored
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Sebastien Herbert authored
Overwrites and gets rid of the contourPo2D for the cellContour2D
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Sebastien Herbert authored
adapted fields of the dataCells variable to match the later requirements. Improved the output readability of the cell2face function
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Sebastien Herbert authored
dataSeg.cellIdx replaces dataSeg.numbers
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Sebastien Herbert authored
Each cell is tested for contour position before being added to the main structure. Any contour position at the border of the image leads to object rejection
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Sebastien Herbert authored
Method is only working for label images with ridges, update for binary mask
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Sebastien Herbert authored
Elevation map input function is now a pure imread() Fixes warning: "Warning: TIFF library warning - 'TIFFReadDirectory: Unknown field with tag50838 (0xc696) encountered.'"
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Sebastien Herbert authored
Signed-off-by:
sebherbert <sherbert@pasteur.fr>
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- Oct 29, 2019
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Sebastien Herbert authored
Currently only runs until the findContour line
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Sebastien Herbert authored
The adapted findContour.m function in coordination with the main script allows the user to provide a ridge segmented image instead of the original .mat file Function is already parallelized for faster processing Still requires cleaning of the old code Still requires to get rid of cells at the border of the image Code is currently not running past that point Signed-off-by:
sebherbert <sherbert@pasteur.fr>
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Sebastien Herbert authored
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- Oct 24, 2019
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Sebastien Herbert authored
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Sebastien Herbert authored
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- Sep 02, 2019
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Sebastien Herbert authored
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Sebastien Herbert authored
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Sebastien Herbert authored
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Sebastien Herbert authored
This reverts commit a71c1fe2.
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Sebastien Herbert authored
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Sebastien Herbert authored
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- Aug 22, 2019
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Sebastien Herbert authored
Adds a the following command as a GUI StartupFcn which switches MATLAB to use Java file dialogs instead of native file dialogs (i.e. those of your operating system): >> com.mathworks.mwswing.MJFileChooserPerPlatform.setUseSwingDialog(1)
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Sebastien Herbert authored
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Sebastien Herbert authored
Error introduced in commit 46c3e745 about parallelization
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- Aug 21, 2019
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Sebastien Herbert authored
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Sebastien Herbert authored
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Sebastien Herbert authored
Produced with R2017b. New error at usage of the main method to be fixed, but GUI is running as is with relevant parameters accessible to user
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- Aug 02, 2019
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Sebastien Herbert authored
GUI was made with the app designer of MATLAB R2019a (or R2017a for the temp version). It has not been tested again under Ubuntu because of freezing issues when interacting with the GUI. Mathworks has been contacted Signed-off-by:
sebherbert <sherbert@pasteur.fr>
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- Jul 31, 2019
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Sebastien Herbert authored
improved speed but only by a marginal value (~20%) Signed-off-by:
sebherbert <sherbert@pasteur.fr>
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Sebastien Herbert authored
Now accepts a 2D elevation map in .tif format (z is the height of the tissue) Signed-off-by:
sebherbert <sherbert@pasteur.fr>
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- Jul 23, 2019
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Sebastien Herbert authored
Signed-off-by:
sebherbert <sherbert@pasteur.fr>
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- Oct 16, 2017
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Sebastien Herbert authored
This file must be updated regularly to stay up to date with the different commits
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Sebastien Herbert authored
Added the angular transformation of the ellipses to create a 3D orientation of the ellipses Refactoring the code for new variable names easier to handle. Last non nuclear commit! Signed-off-by:
sebherbert <sherbert@pasteur.fr>
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