[ome-users] hdf5 format huygens

[Bruckbauer, Andreas]

I found this on the SVI webpage:

Huygens Core, part of the Huygens Software, is a full compute engine intended to run image processing and deconvolution jobs on large 64 bit multiprocessor servers. It has no specific graphical interface by itself. Huygens Remote Manager (HRM) is an open source web task manager for servers that can acts as an interface to Huygens Core to handle multi-user batch processing. HRM has an optimized interface connection to the open source OMERO server. Click here to try out HRM/Huygens Core on our online demo server.
https://svi.nl/Huygens-Core

Has anyone tried this?

Best wishes

Andreas

----------------------------------------------------
Dr Andreas Bruckbauer
FILM facility manager

Sir Alexander Fleming Building
South Kensington Campus
Imperial College London
Exhibition Road
London, SW7 2AZ

SAF 4th floor, open space desk 401
+44 (0)20 7594 2023
a.bruckbauer at imperial.ac.uk<mailto:a.bruckbauer at imperial.ac.uk>

http://www.imperial.ac.uk/medicine/facility-for-imaging-by-light-microscopy/
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From: ome-users [mailto:ome-users-bounces at lists.openmicroscopy.org.uk] On Behalf Of Glyn Nelson
Sent: 25 September 2017 12:16
To: ome-users at lists.openmicroscopy.org.uk
Subject: Re: [ome-users] hdf5 format huygens

Hi Vita, and other Huygens users,

Regarding your question:
-
I would like to ask when BioFormats plan to start supporting h5 file which are generated by the Huygens software? We just recently had a course with 16 participants, where they learned how to use Huygens and after that the participants wanted to open their images in Fiji/ImageJ, but unfortunately Fiji/ImageJ does not support h5 format. I was told by SVI, that I can contact you about this issue.
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As a user of Huygens and ImageJ/ Fiji, I get round the problem by saving out as ics2 file format from Huygens.  This file format maintains all the metadata and image bitdepth, and is supported in bioformats.

A better workaround which would be less work for everyone would be if Huygens allowed you to choose your default save file format: it always defaults to h5.  I have requested SVI for this as a feature, but it hasn’t happened so far.

Best wishes,

Glyn
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