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Bug 316 - Bio-Formats Exporter inverts 8-bit stacks after saving as Quicktime movie
Bio-Formats Exporter inverts 8-bit stacks after saving as Quicktime movie
Status: RESOLVED FIXED
Product: Fiji
Classification: Unclassified
Component: Other
unspecified
Macintosh Mac OS
: P2 normal
Assigned To: ImageJ Bugs Mailing List
Depends on:
Blocks:
 
Reported: 2011-05-18 10:01 CDT by Jan Eglinger
Modified: 2011-10-20 02:36 CDT
0 users

See Also:
Description Jan Eglinger 2011-05-18 10:01:31 CDT 
When saving an 8-bit stack as Quicktime movie using Bio-Formats Exporter, the stack is inverted after saving. (The .mov file is correctly saved however)

The following macro reproduces the bug (in latest Fiji on Mac OS 10.5 and 10.6):

run("Bat Cochlea Volume (19K)");
// run("MRI Stack (528K)");
before = getPixel(10,10);
run("Bio-Formats Exporter", "save=/Users/eglinger/Desktop/bcv_macro.mov");
after = getPixel(10,10);
showMessage("Pixel (10,10) before saving: " + before + " after saving:" + after);
// shows: Pixel (10,10) before saving: 0 after saving: 255

Additional note:
When you run the same macro twice (replacing the same file), the opened stack is inverted upon displaying already, and the file seems to be corrupted (cannot be opened by Quicktime any more).
Comment 1 Curtis Rueden 2011-05-18 18:46:16 CDT 
Thanks for the macro, Jan. A fix is in the works; see this ticket on the OME Trac:

  http://trac.openmicroscopy.org.uk/ome/ticket/5356