Notice: In order to edit this ticket you need to be either: a Product Owner, The owner or the reporter of the ticket, or, in case of a Task not yet assigned, a team_member"

Task #12839 (closed)

Opened 5 years ago

Closed 5 years ago

Last modified 5 years ago

Bug: some large .ndpi files cannot be fully read

Reported by: mlinkert Owned by: mlinkert
Priority: major Milestone: 5.1.2
Component: Bio-Formats Version: 5.1.0
Keywords: n.a. Cc: qigong@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: 0.0d
Sprint: n.a.

Description

See file in hamamatsu/qi and http://lists.openmicroscopy.org.uk/pipermail/ome-users/2015-April/005268.html.

Setting the 'use64Bit' flag unconditionally in NDPIReader seems to help with reading the pixels, but also breaks metadata (e.g. physical pixel size) parsing.

Change History (3)

comment:1 Changed 5 years ago by mlinkert

  • Cc qigong@… added

comment:2 Changed 5 years ago by mlinkert

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

Fixed with: https://github.com/openmicroscopy/bioformats/pull/1789

The 5.1.2 release of Bio-Formats/OMERO will resolve this problem.

comment:3 Changed 5 years ago by Melissa Linkert <melissa@…>

  • Remaining Time set to 0

(In [caf9b8b8cf61f60898098bc1885f20b80d2e618a/bioformats.git] on branch develop) NDPI: fix tile offsets for files between 2 and 4 GB

Fixes #12839

Note: See TracTickets for help on using tickets. You may also have a look at Agilo extensions to the ticket.

1.3.13-PRO © 2008-2011 Agilo Software all rights reserved (this page was served in: 0.117703 sec.)

We're Hiring!