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Task #9570 (closed)

Opened 7 years ago

Closed 7 years ago

Bug: Big images fail to import properly when using sub-resolutions

Reported by:	rleigh	Owned by:	mlinkert
Priority:	critical	Milestone:	OMERO-4.4.4
Component:	Services	Version:	n.a.
Keywords:	sub-resolutions	Cc:	mlinkert
Resources:	n.a.	Referenced By:	n.a.
References:	n.a.	Remaining Time:	n.a.
Sprint:	2012-09-11 (4)

Description

This looks like a broken assumption in the server when using subresolutions. Here, it's saying that "4" is an invalid series. It's certainly valid in the non-subresolution case, with there being 7--9 series in the files. But, with subresolutions there are only 2 or 3 series in the files for which we are currently trying to generate pyramids when not using flattened resolutions.

Regards,
Roger

java.lang.IllegalArgumentException: Invalid series: 4
        at loci.formats.FormatReader.setSeries(FormatReader.java:830)
        at loci.formats.DelegateReader.setSeries(DelegateReader.java:124)
        at loci.formats.ImageReader.setSeries(ImageReader.java:436)
        at loci.formats.ReaderWrapper.setSeries(ReaderWrapper.java:339)
        at loci.formats.ReaderWrapper.setSeries(ReaderWrapper.java:339)
        at loci.formats.ReaderWrapper.setSeries(ReaderWrapper.java:339)
        at ome.io.bioformats.BfPixelBuffer.setSeries(BfPixelBuffer.java:104)
        at ome.io.nio.PixelsService.createMinMaxBfPixelBuffer(PixelsService.java
:580)
        at ome.io.nio.PixelsService.performWrite(PixelsService.java:242)
        at ome.io.nio.PixelsService.makePyramid(PixelsService.java:194)
        at ome.services.pixeldata.PixelDataHandler.process(PixelDataHandler.java
:137)
        at ome.services.pixeldata.PixelDataHandler.doWork(PixelDataHandler.java:88)

References

Change History (2)

comment:1 Changed 7 years ago by mlinkert

Owner set to mlinkert-x

comment:2 Changed 7 years ago by mlinkert

Resolution set to fixed
Status changed from new to closed

Should be fixed with: https://github.com/melissalinkert/bioformats/commit/9899eed6b0dd24f0dceb6645966e35862eb6305e

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