[ome-devel] TIFF, PSB, or JPG conversion to SVS or other web-viewable format?

[Turner, Jerrold [PTH]]

Thank you. I'll give it a shot

Jerrold R. Turner, M.D., Ph.D.
Sara and Harold Lincoln Thompson Professor
The University of Chicago

Direct line: 773-702-2433
jturner at bsd.uchicago.edu
turnerlab.bsd.uchicago.edu

sent from my shoe-phone. please excuse brevity, typos, and KAOS.

-----Original Message-----
From: Melissa Linkert [melissa at glencoesoftware.com]
Received: Tuesday, 15 Dec 2015, 8:23AM
To: Turner, Jerrold [PTH] [jturner at bsd.uchicago.edu]
CC: ome-devel at lists.openmicroscopy.org.uk [ome-devel at lists.openmicroscopy.org.uk]
Subject: Re: [ome-devel] TIFF, PSB, or JPG conversion to SVS or other web-viewable format?

Hi Jerrold,

> I am collecting tiled images on my own microscope using metamorph. This produces beautiful tiled TIFFs. I can then combine these, e.g. in photoshop, to create larger tiffs that represent a gallery, but exceed the 32K limit. I would like to put these on a server for viewing. Does anyone have advice as to how these can be converted to  SVS or other web-viewable formats? It would be fine if software other than photoshop was used to combine tiled images into a gallery.

I'm not aware of an easy way to convert files to .svs - Bio-Formats,
OpenSlide, and Aperio's ImageScope software only allow reading.

You might try converting to a generic pyramid TIFF instead; Bio-Formats
does not have an easy way to do this right now, but the OpenSlide
project provides examples of how to do this with ImageMagick[1] and
VIPS[2]:

https://github.com/openslide/openslide/wiki/CreatingPyramidalTIFFs

Regards,
-Melissa

[1] http://www.imagemagick.org/script/index.php
[2] http://www.vips.ecs.soton.ac.uk/index.php?title=VIPS

On Mon, Dec 14, 2015 at 04:26:19PM +0000, Turner, Jerrold [PTH] wrote:
> Hi all,
> I am collecting tiled images on my own microscope using metamorph. This produces beautiful tiled TIFFs. I can then combine these, e.g. in photoshop, to create larger tiffs that represent a gallery, but exceed the 32K limit. I would like to put these on a server for viewing. Does anyone have advice as to how these can be converted to  SVS or other web-viewable formats? It would be fine if software other than photoshop was used to combine tiled images into a gallery.
>
>
> Jerrold R. Turner, M.D., Ph.D.
> Sara and Harold Lincoln Thompson Professor
> Associate Chair, Department of Pathology
> The University of Chicago
> 5841 South Maryland, MC 1089
> Chicago, IL 60637
> Direct line: 773-702-2433
>
>
> jturner at bsd.uchicago.edu<mailto:jturner at bsd.uchicago.edu>
>
> turnerlab.bsd.uchicago.edu
>
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