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Task #11722 (closed)

Opened 10 years ago

Closed 9 years ago

Last modified 9 years ago

Bug: Imspector plane count set incorrectly

Reported by:	omero-qa	Owned by:	mlinkert
Priority:	minor	Milestone:	5.1.3
Component:	Bio-Formats	Version:	4.4.9
Keywords:	n.a.	Cc:	i.munro@…
Resources:	n.a.	Referenced By:	n.a.
References:	n.a.	Remaining Time:	0.0d
Sprint:	n.a.

Description (last modified by jamoore)

https://www.openmicroscopy.org/qa2/qa/feedback/7702/

Comment: LaVision? Imspector .msr z-stack data (inc corresponding one-tiffs) as provided by the Beatson institute.

At the moment, both .msr files throw an IndexOutOfBoundsException? when attempting to parse/store the metadata. However, the underlying problem is that only the first plane is detected, when in reality there are many planes (Z and T) as shown in the corresponding OME-TIFF files.

References

Change History (7)

comment:1 Changed 10 years ago by jamoore

Component changed from from QA to Bio-Formats
Description modified (diff)

comment:2 Changed 10 years ago by mlinkert

See also QA 9468 and corresponding thread: http://lists.openmicroscopy.org.uk/pipermail/ome-users/2014-August/004673.html

comment:3 Changed 9 years ago by mlinkert

Milestone changed from Unscheduled to 5.1.1

Moving to 5.1.1 for triage.

comment:4 Changed 9 years ago by mlinkert

Milestone changed from 5.1.1 to 5.1.3

This is a little trickier than it looks on the surface - probably needs 1-2 days of dedicated work to improve the pixel block detection.

comment:5 Changed 9 years ago by mlinkert

Resolution set to fixed
Status changed from new to closed

Fixed with: https://github.com/openmicroscopy/bioformats/pull/1872

comment:6 Changed 9 years ago by Melissa Linkert <melissa@…>

(In [f26c3cc0932cb8e3c338588b04ef242770cf93a6/bioformats.git] on branch develop) Imspector: correct for variable block sizes

Fixes QA 9468, see #11722.

comment:7 Changed 9 years ago by Melissa Linkert <melissa@…>

Remaining Time set to 0

(In [86ac8417c1b795699c97c45c92e0d888f15a84c3/bioformats.git] on branch develop) Imspector: better block detection for FLIM Z stacks

Fixes QA 7702; fixes #11722.

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