[ome-users] LIF format - metadata

[Woodbridge, Mark R]

Hi,

Leica's free LAS AF Lite<ftp://ftp.llt.de/softlib/LAS_AF_Lite/1.7.0_build_1111/setup.exe> software can open .lif files:

ftp://ftp.llt.de/softlib/LAS_AF_Lite

The Bio-Formats homepage links to free software for various imaging formats:

http://www.loci.wisc.edu/ome/formats.html

Mark.

From: ome-users-bounces at lists.openmicroscopy.org.uk [mailto:ome-users-bounces at lists.openmicroscopy.org.uk] On Behalf Of Will Moore
Sent: 20 July 2009 11:37
To: mallouh at igbmc.fr
Cc: ome-users at lists.openmicroscopy.org.uk
Subject: Re: [ome-users] LIF format - metadata

Hi Veronique,

We would like to be able to import all this metadata if possible.

However, it is quite tricky to map the data in the LIF file to our OME data model.

For example, in a sample LIF file I'm looking at (with ImageJ and BioFormats plugin), there appears to be only 1 pin-hole size, whereas our model requires a pin-hole size for each channel.

One problem we have is that we don't know how the LIF files are read and displayed by the Leica software.
(Do you know of any LIF viewing software that is available to download?)

You could help us a lot by sending us any sample LIF files you have, together with a list of all the metadata you want to view from the files.
Alternatively, if you could also take a screen-shot of what the files look like, and what metadata is displayed in the Leica software, that would allow us to work out how to read this metadata from the file.

If you want details of how to upload sample files to our image repository, please e-mail melissa melissa at glencoesoftware.com<mailto:melissa at glencoesoftware.com>

 Many thanks,

  Will.


On 20 Jul 2009, at 08:36, V. Mallouh wrote:


Hello,

We are importing LIF files in Omero 4.0.3 : it would be very useful to have original metadata (Laser wavelength, Pinhole, PMT, SP Mirror Channel, ...) available in Insight.
Is it planned to import these informations in Omero?

Best regards,

Véronique Mallouh
IGBMC
1 Rue Laurent Fries
67404 Illkirch Cedex
France
mallouh at igbmc.fr<mailto:mallouh at igbmc.u-strasbg.fr>

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William Moore
Division of Gene Regulation and Expression
College of Life Sciences
University of Dundee
Scotland
DD1 5PH

Tel 01382 386364

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