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Task #5921 (closed)

Opened 8 years ago

Closed 8 years ago

Last modified 8 years ago

Bug: Single Z-section multiple stage position MetaMorph STKs with ND

Reported by: cxallan Owned by: cxallan
Priority: critical Milestone: OMERO-Beta4.3.1
Component: Bio-Formats Version: n.a.
Keywords: n.a. Cc: mlinkert
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: 0.0d
Sprint: 2011-07-07 (1)

Description

When a MetaMorph? STKs with an ND file have multiple stage positions but there are no Z-sections present setId() fails.

Change History (9)

comment:1 Changed 8 years ago by cxallan

  • Owner changed from mlinkert-x to cxallan
  • Status changed from new to accepted

comment:2 Changed 8 years ago by cxallan

Exception:

Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException: 5
	at loci.formats.in.MetamorphReader.initFile(MetamorphReader.java:458)
	at loci.formats.FormatReader.setId(FormatReader.java:1072)
	at loci.formats.ImageReader.setId(ImageReader.java:670)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:488)
	at loci.formats.ChannelFiller.setId(ChannelFiller.java:249)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:488)
	at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:257)
	at Test.test(Test.java:61)
	at Test.main(Test.java:81)

comment:3 Changed 8 years ago by Chris Allan <callan@…>

(In [284763763c41d044bde46f094571f652a3053dbf/bioformats.git]) Fix off by one when we have stage positions but no Z-sections. (See #5921)

comment:4 Changed 8 years ago by Chris Allan <callan@…>

  • Remaining Time set to 0
  • Resolution set to fixed
  • Status changed from accepted to closed

(In [19669967b14194e0c881db53d754f8095ed0fb5d/ome.git] on branch develop) Updating to [284763763c41d044bde46f094571f652a3053dbf/bioformats.git]. (Fixes #5921)

comment:5 Changed 8 years ago by Chris Allan <callan@…>

(In [284763763c41d044bde46f094571f652a3053dbf/bioformats.git]) Fix off by one when we have stage positions but no Z-sections. (See #5921)

comment:6 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [9cfac49b15569371c04af688d3dac0b3ccc25265/bioformats.git]) Fix off by one when we have stage positions but no Z-sections. (See #5921)
(cherry picked from commit 284763763c41d044bde46f094571f652a3053dbf)

comment:7 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [9cfac49b15569371c04af688d3dac0b3ccc25265/bioformats.git]) Fix off by one when we have stage positions but no Z-sections. (See #5921)
(cherry picked from commit 284763763c41d044bde46f094571f652a3053dbf)

comment:8 Changed 8 years ago by Chris Allan <callan@…>

(In [284763763c41d044bde46f094571f652a3053dbf/bioformats.git]) Fix off by one when we have stage positions but no Z-sections. (See #5921)

comment:9 Changed 8 years ago by Chris Allan <callan@…>

(In [284763763c41d044bde46f094571f652a3053dbf/bioformats.git]) Fix off by one when we have stage positions but no Z-sections. (See #5921)

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