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Ticket #1907 (closed defect: fixed)

Opened 2013-06-04T13:41:35-05:00

Last modified 2013-06-06T15:46:24-05:00

Files open multichannel incorrectly

Reported by:	bdezonia	Owned by:	hinerm
Priority:	major	Milestone:	~~imagej2-b7-ndim-data~~
Component:	I/O	Version:
Severity:	serious	Keywords:
Cc:		Blocked By:
Blocking:	#1563

Description

I have a number of files that open as multichannel when in fact they may have time points or z planes as well. I've attached one. It loads differently in Fiji vs. IJ2.

Attachments

organ-of-corti.tif (15.6 MB) - added by bdezonia 2013-06-04T13:42:00-05:00.
MF-2CH-Z-T.tif (25.4 MB) - added by bdezonia 2013-06-04T14:49:40-05:00.: Another example: compare to BF Importer results in Fiji

Change History

Changed 2013-06-04T13:42:00-05:00 by bdezonia

attachment organ-of-corti.tif added

Changed 2013-06-04T14:49:40-05:00 by bdezonia

attachment MF-2CH-Z-T.tif added

Another example: compare to BF Importer results in Fiji

comment:1 Changed 2013-06-05T12:12:26-05:00 by hinerm

There were two issues here:

axis labels were being mislabeled

fixed in: https://github.com/scifio/scifio/commit/c8b1de8af931426ebe93e86d12ed024bdb15c869

TIFFs were being opened by the MinimalTIFFFormat instead of the TIFFFormat because of a prioritization error.

fixed in: https://github.com/scifio/scifio/commit/53b704524873039d396b91dc521c7f06592d34d7

Note that organ-of-corti.tif still looks off, I believe for the same reasons as #1908

comment:2 Changed 2013-06-06T15:46:24-05:00 by bdezonia

Status changed from new to closed
Resolution set to fixed