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Task #9066 (closed)

Opened 12 years ago

Closed 12 years ago

Last modified 12 years ago

Bug: Import li-flim

Reported by:	jburel	Owned by:	mlinkert
Priority:	critical	Milestone:	OMERO-4.4
Component:	Bio-Formats	Version:	n.a.
Keywords:	n.a.	Cc:	ux@…
Resources:	n.a.	Referenced By:	n.a.
References:	n.a.	Remaining Time:	n.a.
Sprint:	n.a.

Description

The following file li-flim/jean-marie/Flimdata/D Reference fluorescein4ns-CFPbpFILTER-multifreq.fli failed to import

Error below

java.io.EOFException: Unexpected end of ZLIB input stream
	at java.util.zip.InflaterInputStream.fill(InflaterInputStream.java:216)
	at java.util.zip.InflaterInputStream.read(InflaterInputStream.java:134)
	at java.util.zip.GZIPInputStream.read(GZIPInputStream.java:87)
	at java.io.DataInputStream.readFully(DataInputStream.java:176)
	at java.io.DataInputStream.readFully(DataInputStream.java:152)
	at loci.formats.in.LiFlimReader.openBytes(LiFlimReader.java:173)
	at loci.formats.ImageReader.openBytes(ImageReader.java:401)
	at loci.formats.ChannelFiller.openBytes(ChannelFiller.java:184)
	at loci.formats.ChannelSeparator.openBytes(ChannelSeparator.java:213)
	at loci.formats.ReaderWrapper.openBytes(ReaderWrapper.java:304)
	at loci.formats.MinMaxCalculator.openBytes(MinMaxCalculator.java:260)
	at ome.formats.importer.ImportLibrary.writeDataTileBased(ImportLibrary.java:872)
	at ome.formats.importer.ImportLibrary.importData(ImportLibrary.java:797)
	at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:573)
	at

References

Change History (4)

comment:1 Changed 12 years ago by mlinkert

Resolution set to fixed
Status changed from new to closed

Fixed with this commit: https://github.com/melissalinkert/bioformats/commit/dbbef64c91444a817ee25c6a6f4be24f6e7ef814

comment:2 Changed 12 years ago by jburel

Resolution fixed deleted
Status changed from closed to reopened

Imported with this morning build. same error.

comment:3 Changed 12 years ago by mlinkert

Resolution set to fixed
Status changed from reopened to closed

That's because the submodule pointer wasn't updated, so the fixes never made it into the build. The submodule will be updated before tomorrow's build.

comment:4 Changed 12 years ago by jburel

Retested and imported correctly.

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