Re: .ND2 reader in BioFormats

Posted by lechristophe on Sep 08, 2014; 10:03am
URL: http://imagej.273.s1.nabble.com/ND2-reader-in-BioFormats-tp5009525p5009542.html

Hi Curtis,

I have forwarded my question to the ome-users list, thanks for the tip.

The last part about strategies other than Bio-Formats to open/convert .nd2
files in ImageJ is an ImageJ question though. I have found a mention of
this plugin on the .nd2 page of Bio-Formats:
http://rsbweb.nih.gov/ij/plugins/nd2-reader.html

Best Regards,

Christophe


2014-09-05 17:16 GMT+02:00 Curtis Rueden <[hidden email]>:

> Hi Christophe,
>
> > This is primarily a BioFormat question.
>
> The best place for Bio-Formats questions is the ome-users mailing list.
>
> Regards,
> Curtis
> On Sep 5, 2014 9:52 AM, "Christophe Leterrier" <
> [hidden email]> wrote:
>
> > Hi,
> >
> > This is primarily a BioFormat question.
> >
> > I'm trying to open a big Nikon .nd2 files in Fiji using BioFormats (not
> the
> > new SciFiIO) in Fiji, Windows 7 64 bits, 64GB RAM. The "Reading file
> header
> > part" usually peaks well above the actual file size with 17.6 GB (on
> ImageJ
> > memory monitor) for a 6.3 GB nd2 file. For a 15.9 GB file, it maxes out
> the
> > 60 GB allocated to Fiji. As it is the header reading part, it does not
> make
> > a difference to try to open as a virtual stack or not.
> >
> > Is this a known situation? What are my options for opening these files?
> >
> > Thanks for your help,
> >
> > Christophe
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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