MRXS huge white borders

[Tom N.]

Thank you very much, Benjamin, for the explanation.
If vips dzsave had an option for cropping the empty borders, it would be 
very useful as a direct conversion since users wouldn't have to write a 
script or C applications to perform cropping before using vips dzsave. 
The conversion time would be much shorter and the Zoomify size would be 
much smaller.

Thanks again.
Tom

On 7/28/2014 2:38 PM, Benjamin Gilbert wrote:
> On 07/28/2014 04:21 PM, Tom N. wrote:
>> I am using "vips dzsave" pyramid builder to convert an MRXS slide to
>> Zoomify on Ubuntu. Vips uses OpenSlide to read the MRXS slide.  The
>> conversion is working fine, but the resulting Zoomify slide has huge
>> white borders.
> Hi Tom,
>
> OpenSlide uses the coordinate system of the original slide file.  For
> MRXS files, this means that the image includes the entire original
> slide, not just the region for which pixels were recorded.
>
> If you are using OpenSlide >= 3.4.0, you can read the
> openslide.bounds-{x,y,width,height} properties to get the level-0
> coordinates of the non-empty portion of the slide.  You should be able
> to use VIPS to crop to these bounds before generating your Zoomify pyramid.
>
> John, what do you think of adding an option to VIPS openslideload to
> automatically crop using the bounds properties?
>
> --Benjamin Gilbert
>
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