Re: Stitching output has missing pixels

Posted by on Dec 25, 2016; 9:38pm
URL: http://imagej.273.s1.nabble.com/Stitching-output-has-missing-pixels-tp5017714p5017813.html

Hi, I am happy to have a look at it, I am sure this is a quick fix. You could upload it to google drive as a zip and share the document, this does work with pretty big files.

Sorry for the delay, I was on holidays.

All the best,
Stephan
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Dr. Stephan Preibisch
Group Leader

Berlin Institute of Medical Systems Biology of the MDC
Building 89, 1.08b

email: [hidden email]<mailto:[hidden email]>
web: http://www.preibisch.net/<http://fly.mpi-cbg.de/preibisch>

On Dec 9, 2016, at 1:47 PM, MChapman <[hidden email]<mailto:[hidden email]>> wrote:

Curtis,

I would be happy to share, and I have been trying to figure out how to
upload these two images (16bit, 1292x968 .tif) but whenever I try to shrink
the images or change the file type this stitching error doesn't occur
anymore.

If there is somewhere that I could post the pictures in their raw form I
will.

The macro for the stitch is:
run("Grid/Collection stitching", "type=[Grid: snake by rows] order=[Right &
Down                ] grid_size_x=2 grid_size_y=1 tile_overlap=20
first_file_index_i=0 directory=[E:\ImageJ mailing list]
file_names=1000{i}.tif output_textfile_name=TileConfiguration.txt
fusion_method=[Linear Blending] regression_threshold=0.30
max/avg_displacement_threshold=2.50 absolute_displacement_threshold=3.50
compute_overlap subpixel_accuracy computation_parameters=[Save computation
time (but use more RAM)] image_output=[Fuse and display]");

and the resulting log file output is:
Stitching internal version: 1.2
Loading (0, 0): E:\\ImageJ<smb://ImageJ> mailing list\10000.tif ...
1292x968px, channels=1, timepoints=1 (80 ms)
Loading (1, 0): E:\\ImageJ<smb://ImageJ> mailing list\10001.tif ...
1292x968px, channels=1, timepoints=1 (70 ms)
10000.tif[1] <- 10001.tif[1]: (1037.8536, -1.7621746) correlation
(R)=0.29953933 (150 ms)
ERROR: Error: No correlated tiles found, setting the first tile to (0, 0).
number of tiles = 1
Finished registration process (150 ms).
10000.tif: [3,3](AffineTransform[[1.0, 0.0, 0.0], [0.0, 1.0, 0.0]])
1.7976931348623157E308
Writing registered TileConfiguration: E:ImageJ mailing
list\TileConfiguration.registered.txt
Fuse & Display ...
Finished fusion (70 ms)
Finished ... (370 ms)




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