- 15 Jun, 2021 2 commits
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Forquet Nicolas authored
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Forquet Nicolas authored
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- 13 Oct, 2019 2 commits
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Martinez-Carvajal German authored
In the_"not_parallelized" version I write the new function that will be parallelized and checj it works Int the "yes_parallelized" version, the multiprocessing.map method is used.
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Martinez-Carvajal German authored
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- 09 Oct, 2019 2 commits
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
some prints went back AND surface voxels file must be in the path_read input (if computed, flag_SV = True) it will be saved in path_input instead of path_save
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- 08 Oct, 2019 1 commit
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Martinez-Carvajal German authored
an image with connected pores (obtained using the FIJI's pluggin connected regions over the void's phase of a segmentation) and computes the volume of each reagion the min and max X,Y,Z coordinate the lenght of the pore in each direction (of the inscribing box) a bool saying if the pore is connected to the top of the sample (top = when z = 0)
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- 05 Oct, 2019 1 commit
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Martinez-Carvajal German authored
specific surfaces where the FM/voids surface is divided by 1) FM volume 2) Air Volume 3) FM+Air Volume 4) Air + Grv + FM volume
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- 20 Sep, 2019 3 commits
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
in the past commit
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Martinez-Carvajal German authored
ne marchait pas bien. Celle là oui!
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- 19 Sep, 2019 5 commits
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
set by the user OR computed by the program Remember When you set manually the max size of pores to computehistograms you can do comparisons between different Local Thickness maps
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- 18 Sep, 2019 1 commit
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Martinez-Carvajal German authored
whole sample. So the different zones of computation are Whole sample Deposit Layer and Gravel Layer mixed togueter *** Dep Layer Grv Layer *** The criterion we defined for the deposit and gravel layer makes that the sum of the two regions is smaller than the whole sample That is why I added the new line for the whole sample *** O
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- 13 Sep, 2019 8 commits
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Martinez-Carvajal German authored
counter in FIJI. But we won't use that pluggin anymore to compute connected pores. Instead, we are using the connected regions pluggin
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
using the erosion_dilation method for pore size distribution (PSD) anymore
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Martinez-Carvajal German authored
enhacement in FIJI is already well parallelized, so it is much faster. Though in FIJI, YOU MUST BE VERY CAREFUL WHEN YOU DO !!SLICE!! OR !!STACK!! CONTRAST ENHANCEMENT NORMALIZATION because sometimes stack based normalization will not work... I don't know why
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
Concatenation of raw image (when you have to concatenate scans that had to be splitted in two or more parts during at the laboratory) is not as simple as one may think to do it based on computations The best way is to do it manually, and to do it choosing a slice that will not present noise. I say noise, becasie whe you do several scans of an object, at the beggining and at the end of the scan you may find an artifact like a shadow sweeping the image. Hopefully, this shadow disappears at the center of the image. In consequence, when you do a manual concatenation, pick the most inner image you can ! Don't forget there is a script, that concatenates all parts once you have found the indexes of the slices where you want to concatenate
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Martinez-Carvajal German authored
was enhanced as for article 2 (spatial representativity of Xr-CT) we decided to analyze electrical conductivity and not anymore the relative saturation content.
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Martinez-Carvajal German authored
Yes it sounds weird... FIJI will compute the connected regions (CR) but you may have RAM limitations. So you will have to split your original image in different parts. This split will connect this parts as long as you have left one slice of "recouvrement" (covering zone) when you splitted the original image. The programm deals fine with all the possibilities of connections due to the splitting of the image and will reassign new labels for every pore.
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- 06 Sep, 2019 4 commits
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
perform computations in cylinders smaller than total diameter
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
Adding a "rw" parameter, which means the the fraction of the radius that will be taken into account to compute the profiles. In the relabel function, pixels ouside a cilinder of radius r = len(image)*"rw" will be labeled with a value = 1 -> pixels outside the cylinder Not very important: A new parameter sample_name: to create output files with shorter names, not like.
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- 30 Aug, 2019 7 commits
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
eliminating unuseful lists
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Martinez-Carvajal German authored
the new one computes everything, global volume fractions, global volumes, and depths the 3 of them for the deposit layer and the gravel layer once the limits have been established by the vertical volume fraction profiles
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
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- 27 Aug, 2019 3 commits
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
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Martinez-Carvajal German authored
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- 23 Aug, 2019 1 commit
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Martinez-Carvajal German authored
all these changes were writen to follow in the message file the evolution of the growinf procedure
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