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Task #11513 (closed)

Opened 11 years ago

Closed 10 years ago

Bug: CZI linescan dimensions incorrect

Reported by: rleigh Owned by: mlinkert
Priority: major Milestone: Unscheduled
Component: Bio-Formats Version: 4.4.8
Keywords: n.a. Cc: aaron.ponti@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.

Description

See:
​http://lists.openmicroscopy.org.uk/pipermail/ome-users/2013-September/003953.html for original description and example image.

From showinf (current dev_4_4):

	Image count = 1
	RGB = true (3)
	Interleaved = false
	Indexed = false (false color)
	Width = 1798
	Height = 312
	SizeZ = 1
	SizeT = 1
	SizeC = 3 (effectively 1)

However, this does not match the real dimensions: 2048x1x24x1x(2?) x/y/z/t/c.

Information|Image|PixelType|0: Gray16
Information|Image|RefractiveIndex|0: 1.333
Information|Image|SizeC|0: 2
Information|Image|SizeT|0: 1
Information|Image|SizeX|0: 2048
Information|Image|SizeY|0: 1
Information|Image|SizeZ|0: 25
Information|Image|Track|ChannelRef|Id: 372658696712399224324611823933028701035
Information|Image|Track|Id: Track:1

This looks like 2-channel greyscale with false colour. But, it looks like there's only one channel (ChS1-T2) in the original metadata unless we're missing/overwriting some of the original metadata. Should we be adding suffixing channel/track numbers? Is track 1 missing? Looks like it's probably a 2-track acquisition, with only the second track shown.

Regards,
Roger

Change History (2)

comment:2 Changed 10 years ago by mlinkert

  • Resolution set to fixed
  • Status changed from new to closed

Fixed with: ​https://github.com/openmicroscopy/bioformats/pull/777

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