[ome-users] Importing legacy .mdb Zeiss databases

[Curtis Rueden]

Hi Alex & Frans,

As Brian said, the core Bio-Formats library supports parsing information
from MDB, but it may be a while before the OMERO system supports it.
Fortunately, once it does it should be easy to retrieve the original MDB
file, as OMERO is capable of archiving the original data files. Lastly, I
believe OMERO has the ability to attach files as binary blobs to an image,
so for now you could simply archive the MDB files with the imported LSM
data.

-Curtis

On Thu, Feb 5, 2009 at 4:58 PM, Brian Loranger <
brian.loranger at lifesci.dundee.ac.uk> wrote:

> Hi Alexandre,
>
> Alas, we have done no testing with .mdb files in the Importer
> (although the good news is that its supported by the underlying bio-
> formats package).
>
> Most likely if we turned that format on there would be some issues
> importing. I can switch it on and and see how things look  and let you
> know a time estimate - if we're lucky it will just be a matter of
> turning the format on (although more then likely that won't be the
> case). We are less then 2 weeks away from our next release, *knocks on
> wood*,  so I doubt we will be able to get that working before then,
> but I would be hopeful we can get something for you after that.
>
> Cheers,
>
> Brian
>
>
> On 5 Feb 2009, at 09:26, Alexandre Cunha wrote:
>
> > Hello,
> >
> > I have sent the following question to the Bio-formats folks and
> > thought to also
> > seek help here.
> >
> > We are starting to move diverse proprietary databases (mainly Zeiss)
> > from one
> > of the Biology labs here on campus to OMERO. A typical lab user has
> > a directory
> > per project and a .mdb database file in that directory that I
> > believe refers to
> > the many .lsm image files in that same directory.
> >
> > My question is: is there a way in OMERO to directly read the
> > many .mdb files
> > and save each as a OMERO database (or project) ? We would like to
> > avoid
> > rebuilding each database and if possible store legacy databases
> > seamlessly in
> > OMERO.
> >
> > I appreciate receiving your suggestions.
> > Many thanks,
> > - Alex.
> >
> >
> >
> > _______________________________________________
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> > ome-users at lists.openmicroscopy.org.uk
> > http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>
> Brian Loranger
> Software Developer, Open Microscopy Environment
> Division of Gene Regulation and Expression
> University of Dundee
> (The University of Dundee is a registered Scottish charity, No:
> SC015096)
>
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