Scrambled tiles when importing from czi

scifio / scifio-itk-bridge

Java code which pipes information between SCIFIO and ITK.

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Scrambled tiles when importing from czi #5

Open gbkedar opened 10 years ago

gbkedar commented 10 years ago

Tiles get scrambled at random when importing 2d images from czi. If czi has multiple channels, all the channels in the tile are scrambled. Following code used to import czi and write nrrd files for each channel. https://github.com/gbkedar/farsight/blob/IlluminationGraphCuts/IlluminationCorrection/readCziWriteCorrectedTiles.cpp Sample images sent to Mark Hiner.

ctrueden commented 10 years ago

This is probably an issue with Bio-Formats rather than with the SCIFIO ITK bridge. Please test with Bio-Formats from the command line, and/or from Fiji, to verify, and if so, report the bug to the Bio-Formats team.