[ome-devel] Metadata, restoring the metadata of the native image format from an OMEXML/OMETIFF file

[Ghislain Bonamy]

Curtis,

 

Thanks for the answer. I should have been more precise and indicate that
the original format was a TIFF format (with proprietary tags, or rather
non standard tags).

 

I understand why you did not implement writers for proprietary formats.
However, since I was dealing with a tiff format I was curious to know if
original tiff tags could be restored. I take it that it is not possible.

 

Thanks,

 

Ghislain Bonamy, PhD

__________________________________________

Research Investigator I

 

Genomic Institute of the

Novartis Research

Foundation

Department of Molecular & Cell Biology, room G214

10675 John Jay Hopkins Drive

San Diego CA 92121

USA

 

+1 (858) 812-1534 (W & F)

+1 (757) 941-4194 (H)

+1 (858) 354-7388 (M)

www.gnf.org

 

Hudson-Alpha Institute for Biotechnology

www.hudsonalpha.org

 

________________________________

From: ctrueden.wisc at gmail.com [mailto:ctrueden.wisc at gmail.com] On Behalf
Of Curtis Rueden
Sent: Monday, November 17, 2008 3:24 PM
To: Ghislain Bonamy
Cc: ome-devel at lists.openmicroscopy.org.uk
Subject: Re: [ome-devel] Metadata, restoring the metadata of the native
image format from an OMEXML/OMETIFF file

 

Hi Ghislain,

	I wanted to know how I could recover the proprietary tags of an
image
	that was saved into an OMEXML or OMETIFF format.
	
	I am able to save the proprietary tags in the OMEXML and OMETiff
format
	(using the ImageReader.setOriginalMetadataPopulated(true)), but
I cannot
	recover them when trying to convert the OMEXML/OMETIFF back to
the
	native image format. Could you tell me if this is possible and
if so how
	can I restore these proprietary tags?


Bio-Formats cannot write to proprietary file formats, and we have no
plans for it to do so. If you need to write to such a format, you will
need to create a writer yourself, and restore the format's header using
the information from the parsed original metadata table. So I am not
sure what you are doing when you are "trying to convert the
OMEXML/OMETIFF back to the native image format."

-Curtis

On Mon, Nov 17, 2008 at 5:14 PM, Ghislain Bonamy <GBonamy at gnf.org>
wrote:

Dear all,

I wanted to know how I could recover the proprietary tags of an image
that was saved into an OMEXML or OMETIFF format.

I am able to save the proprietary tags in the OMEXML and OMETiff format
(using the ImageReader.setOriginalMetadataPopulated(true)), but I cannot
recover them when trying to convert the OMEXML/OMETIFF back to the
native image format. Could you tell me if this is possible and if so how
can I restore these proprietary tags?

Best,

Ghislain Bonamy, PhD
__________________________________________
Research Investigator I

Genomic Institute of the
Novartis Research
Foundation
Department of Molecular & Cell Biology, room G214
10675 John Jay Hopkins Drive
San Diego CA 92121
USA

+1 (858) 812-1534 (W & F)
+1 (757) 941-4194 (H)
+1 (858) 354-7388 (M)
www.gnf.org
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