ChristophKirst / ClearMap

ClearMap is a python toolbox for the analysis and registration of volumetric data from cleared tissues.
http://christophkirst.github.io/ClearMap/build/html/index.html
GNU General Public License v3.0
49 stars 40 forks source link

TIFFReadDirectory warning: Unknown field with tag 50838 #31

Open mbzkandel opened 4 years ago

mbzkandel commented 4 years ago

I'm getting a set of warnings through Elastix:

TIFFReadDirectory: Warning, Unknown field with tag 50838 (0xc696) encountered. TIFFReadDirectory: Warning, Unknown field with tag 50839 (0xc697) encountered. TIFFReadDirectory: Warning, Unknown field with tag 50838 (0xc696) encountered. TIFFReadDirectory: Warning, Unknown field with tag 50839 (0xc697) encountered.

Additionally, while the ClearMap seems to run, it's not outputting any heatmap or points_voxelized tif file. The program stops like this:

Reading the elastix parameters from file ...

Calling all ReadFromFile()'s took 0.012353 s Transforming points ... The transform is evaluated on some points, specified in the input point file. Reading input point file: /tmp/elastix_input.txt Input points are specified as image indices. Number of specified input points: 1159 The input points are transformed. The transformed points are saved in: /tmp/elastix_output/outputpoints.txt Transforming points done, it took 0.01s Compute determinant of spatial Jacobian ... The command-line option "-jac" is not used, so no det(dT/dx) computed. Computing determinant of spatial Jacobian done, it took 0.00s Compute spatial Jacobian (full matrix) ... The command-line option "-jacmat" is not used, so no dT/dx computed. Computing spatial Jacobian done, it took 0.00s

transformix has finished at Fri Aug 2 12:29:58 2019. Total time elapsed: 0.1s.

Processed 0/1159

Processed 0/1159

Process finished with exit code 0

I'm not sure if the TIFFReadDirectory warnings are leading to the problem above that no data is being processed in transformix - any insight would be helpful! Thank you

mbzkandel commented 4 years ago

*I am getting a cells_heatmap file, but no points_voxelized

Thank you!