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macronucleus / Chromagnon

Image correction software for chromatic shifts in fluorescence microscopic images
GNU General Public License v2.0
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Error help #31

Open smith6jt-cop opened 9 months ago

smith6jt-cop commented 9 months ago

Hello, image

I have a 3 channel, 3D lightsheet .tiff stack (968x914x1465) as both the reference and target images. Using 092Win I get the following error:

Traceback (most recent call last):

File "Chromagnon\threads.py", line 206, in run

File "Chromagnon\aligner.py", line 454, in findAlignParamWave

File "Chromagnon\aligner.py", line 418, in setRefImg

File "Chromagnon\alignfuncs.py", line 105, in fixSaturation

File "Chromagnon\alignfuncs.py", line 121, in lowPassGaussFilter

File "Priithon\fftfuncs.py", line 1472, in lowPassGaussFilter

File "Priithon\fftfuncs.py", line 995, in rfft

File "Priithon\fftmanager.py", line 298, in rfft

File "Priithon\fftmanager.py", line 244, in rfft

File "Priithon\fftmanager.py", line 194, in _fftw

File "site-packages\pyfftw\builders\builders.py", line 490, in rfftn

File "site-packages\pyfftw\builders_utils.py", line 127, in _Xfftn

File "pyfftw\utils.pxi", line 172, in pyfftw.pyfftw.empty_aligned (C:\projects\pyfftw\pyfftw\pyfftw.c:3958)

File "pyfftw\utils.pxi", line 209, in pyfftw.pyfftw.empty_aligned (C:\projects\pyfftw\pyfftw\pyfftw.c:3816)

ValueError: cannot reshape array of size 112992228 into shape (1466,914,485)

macronucleus commented 8 months ago

Thank you for reporting the problem, and I am so sorry to reply you very late. The array size in the error message is totally different from the real shape, but I have no idea why. Probably the error is because the file format is the one that has never been tried for Chromagnon before. It would be great if you are willing to help us and send your file using this URL. https://fexcc.nict.go.jp/user/~th/umt55kodgj8vu0pd1abssvia2c password: nh84756gE7 If your image file contains important secrets, then it's okay not to send it. Also, I need to tell you that I may not fix the problem until April due to my current work.