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Task #13059 (closed)

Opened 9 years ago

Closed 9 years ago

Last modified 8 years ago

Bug: Spider files (Reader issues)

Reported by: bramalingam Owned by: mlinkert
Priority: minor Milestone: B-F-5.2.0
Component: Bio-Formats Version: Bio-Formats-5.1.3
Keywords: SpiderReader, our-fault Cc: andrii@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: 0.0d
Sprint: n.a.

Description (last modified by bramalingam)

Ref : http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2015-October/003480.html

Tested with BF 5.1.5:
Even after renaming the .dat files to .spi, the following exception was thrown.

ImageJ 1.50a; Java 1.6.0_65 [64-bit]; Mac OS X 10.9.5; 13MB of 5000MB (<1%)

java.lang.IllegalArgumentException?: 0 must not be null and positive.

at ome.xml.model.primitives.PositiveInteger?.<init>(PositiveInteger?.java:48)
at loci.formats.MetadataTools?.populatePixelsOnly(MetadataTools?.java:292)
at loci.formats.MetadataTools?.populateMetadata(MetadataTools?.java:255)
at loci.formats.MetadataTools?.populatePixels(MetadataTools?.java:155)
at loci.formats.MetadataTools?.populatePixels(MetadataTools?.java:101)
at loci.formats.in.SpiderReader?.initFile(SpiderReader?.java:255)
at loci.formats.FormatReader?.setId(FormatReader?.java:1426)
at loci.plugins.in.ImportProcess?.initializeFile(ImportProcess?.java:505)
at loci.plugins.in.ImportProcess?.execute(ImportProcess?.java:143)
at loci.plugins.in.Importer.showDialogs(Importer.java:137)
at loci.plugins.in.Importer.run(Importer.java:75)
at loci.plugins.LociImporter?.run(LociImporter?.java:78)
at ij.IJ.runUserPlugIn(IJ.java:212)
at ij.IJ.runPlugIn(IJ.java:176)
at ij.Executer.runCommand(Executer.java:132)
at ij.Executer.run(Executer.java:65)
at java.lang.Thread.run(Thread.java:695)

Change History (4)

comment:1 Changed 9 years ago by bramalingam

  • Description modified (diff)

comment:2 Changed 9 years ago by mlinkert

  • Keywords SpiderReader added
  • Milestone changed from OMERO-5.2.0 to B-F-5.2.0

comment:3 Changed 9 years ago by mlinkert

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

comment:4 Changed 8 years ago by Melissa Linkert <melissa@…>

  • Remaining Time set to 0

(In [cffb831c21fb8fdb20fe25704ff6a4ecec86b537/bioformats.git] on branch develop) Spider: fix reading of big-endian files

Fixes #13059.

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