[ome-users] Lif files made in Leica LAS AF 4 couldn't be opened

[Roger Leigh]

On 15/08/2014 05:20, Makoto Kamei wrote:

> We just got an update on our Leica LAS AF software (to version 4). The
> lif files made using this new version cannot be opened by FIJI through
> the bio-formats plugin (I use the “bio-formats importer” function). I’ve
> updated both FIJI (ImageJ 2.0.0-rc-13/1.49e; Java 1.6.0_24[64-bit]) and
> bio-formats plugin (ver 5.0.3-DEV) but this did not help. When I try
> opening the file, this is the error message I get; in a dialog box, it
> says “Sorry, there was a problem during import” and the log window
> displays the following:
>
> loci.formats.FormatException: Invalid Memory Block: found magic bytes 0,
> expected 112
>
>                  at loci.formats.in.LIFReader.initFile(LIFReader.java:416)
>
>                  at loci.formats.FormatReader.setId(FormatReader.java:1317)
>
>                  at
> loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:494)
>
>                  at
> loci.plugins.in.ImportProcess.execute(ImportProcess.java:144)
>
>                  at loci.plugins.in.Importer.showDialogs(Importer.java:141)
>
>                  at loci.plugins.in.Importer.run(Importer.java:79)
>
>                  at loci.plugins.LociImporter.run(LociImporter.java:81)
>
>                  at ij.IJ.runUserPlugIn(IJ.java:202)
>
>                  at ij.IJ.runPlugIn(IJ.java:166)
>
>                  at ij.Executer.runCommand(Executer.java:131)
>
>                  at ij.Executer.run(Executer.java:64)
>
>                  at java.lang.Thread.run(Thread.java:662)
>
> I can upload an example file if it is helpful to anyone. Thank you for
> your help.

This is a known issue, please see
https://trac.openmicroscopy.org/ome/ticket/12144 for more details.  If
you would like adding as a CC to this ticket, please let me know and
I'll add you.

Additional sample data for this updated format would certainly be useful
and appreciated.  It's possible to send files to us using
http://qa.openmicroscopy.org.uk/qa/upload/


Kind regards,
Roger

--
Dr Roger Leigh -- Open Microscopy Environment
Wellcome Trust Centre for Gene Regulation and Expression,
College of Life Sciences, University of Dundee, Dow Street,
Dundee DD1 5EH Scotland UK   Tel: (01382) 386364

The University of Dundee is a registered Scottish Charity, No: SC015096