[ome-users] LSM import failed.

[Colin Blackburn]

Hi Jerome,

On 11/11/2010 12:44, Jerome Avondo wrote:
> Hi guys,
>
> I have found a couple of LSM files that seem to be failing to load/import...
>
> I initially tried with OMERO.importer (4.2) and it generates the error
> attached as a screenshot, (errorpng.png)
> And I also tried to test importing it with Fiji, using the trunk of
> bioformats, and it also crashes, see the attached log file for the error
> (log.txt)
>
> So I believe this is a bug.
>
> The dataset has been made available and you can download it from here:
> http://cmpdartsvr1.cmp.uea.ac.uk/downloads/data/All_tub_40_25min_01__Sum.lsm

I've just tested this file with the imminent 4.2.1 release and it 
imports okay.

> I also have some other LSM files that are failing with the
> OMERO.importer (4.2) but which open fine in FIJI using the trunk of
> bioformats.
> So I guess those bugs are resolved, and I just have to wait for a newer
> version of the importer.

Hopefully that wait won't be too much longer!

> Which leads me to my second question:
> How safe is it for me to just update the bioformats library manually in
> the OMERO tools, such that the second scenario can be easily resolved?
>
> And ideally it would be great that the OMERO tools always check and use
> the trunk of bioformats, such that we always have the best
> capabilities/latest bug fixes without having to wait for OMERO releases,
> kinda like what FIJI does ie: always pull the trunk, but I guess there
> are probably some other aspects/issues I am neglecting for why you guys
> don't do this..
> Just a wish list/feature really :)

The automatic updating of Bio-formats is on our to-do list

Cheers,

Colin