[ome-users] Fwd: .ND2 reader in BioFormats

[Christophe Leterrier]

I have a question regarding Bio-Formats regarding memory use of Nikon .nd2
files, and Curtis Rueden advised me to post it here rather than on the
ImageJ mailing list.

thanks for your help,

--
Christophe Leterrier
Chercheur
Equipe Architecture des Domaines Axonaux
CRN2M CNRS UMR 7286 - Aix Marseille Université

---------- Forwarded message ----------
From: Christophe Leterrier <christophe.leterrier at gmail.com>
Date: 2014-09-05 16:42 GMT+02:00
Subject: .ND2 reader in BioFormats
To: ImageJ Mailing List <imagej at list.nih.gov>


Hi,

This is primarily a Bio-Formats question.

I'm trying to open a big Nikon .nd2 files in Fiji using Bio-Formats (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
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