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Task #12596 (closed)

Opened 10 years ago

Closed 9 years ago

Bug: TIFF reading can't handle certain tile size variants

Reported by: rleigh Owned by: mlinkert
Priority: major Milestone: B-F-5.2.0
Component: Bio-Formats Version: 5.1.0-m0
Keywords: TiffReader, our-fault Cc:
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.

Description

See the attached sample images and screenshots. It looks like

  • All strip variants are OK
  • Tiles where the tilewidth == the imagewidth are OK
  • Tiles where the tilewidth is less than the imagewidth are corrupted, though some visible structure is present; the red and blue channels are less affected than the green.

Attachments (4)

tiling-samples.zip​ (467.7 KB) - added by rleigh 10 years ago.
Sample images
samples-insight.png​ (204.6 KB) - added by rleigh 10 years ago.
Insight, showing corrupted images
samples-geeqie.png​ (169.3 KB) - added by rleigh 10 years ago.
Geequie, showing correctly rendered images
samples-gwenview.png​ (160.5 KB) - added by rleigh 10 years ago.
Gwenview, showing correctly-rendered images

Download all attachments as: .zip

Change History (10)

Changed 10 years ago by rleigh

Sample images

Changed 10 years ago by rleigh

Insight, showing corrupted images

Changed 10 years ago by rleigh

Geequie, showing correctly rendered images

Changed 10 years ago by rleigh

Gwenview, showing correctly-rendered images

comment:1 Changed 10 years ago by rleigh

I ran into this while testing the C++ TIFF reader since I wanted to make sure that the written TIFF images were readable with the Java reader. These were all created with "gm convert" from GraphicsMagick?.

Version 0, edited 10 years ago by rleigh (next)

comment:2 Changed 10 years ago by mlinkert

  • Milestone changed from Unscheduled to 5.1.1

Moving to 5.1.1 for triage.

comment:3 Changed 9 years ago by mlinkert

  • Milestone changed from 5.1.1 to 5.2.0-m1

Attachments no longer available? Pushing pending data re-upload.

comment:4 Changed 9 years ago by rleigh

Hi Melissa, I attached these to #11335 last week: ​http://trac.openmicroscopy.org/ome/attachment/ticket/11335/tiling-variants.tar.xz
There's a heck of a lot of valuable data lost due to the attachments vanishing; I really hope we can get them back soon, if possible.

comment:5 Changed 9 years ago by jamoore

  • Milestone changed from 5.2.0 to B-F-5.2.0

Splitting due to milestone decoupling.

comment:6 Changed 9 years ago by mlinkert

  • Keywords TiffReader our-fault added
  • Resolution set to fixed
  • Status changed from new to closed

Fixed with: ​https://github.com/openmicroscopy/bioformats/pull/2265

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