Extracting bar code label and overview image from MRXS slide

[Tom N.]

Hi Benjamin,

Thank for the pointer. I explored my MRXS slides and found 3 associated 
gray scale images embedded (they are called "label", "macro" and 
"thumbnail") and could extract them to JPG format with vips 
--associated. These images are exactly the same as I could extract them 
using the manufacturer's viewer. However, the one extracted using vips 
is slightly red and not gray as the one extracted using Windows based 
program from the manufacturer. See attached comparison of one example. I 
have not explored further with other options and arguments of vips, just 
post here to see if it's a known fact.

Thanks.
Tom


On 7/30/2014 10:30 AM, Benjamin Gilbert wrote:
> On 07/30/2014 10:17 AM, Tom N. wrote:
>> 3DHistech scanners take grey scale image of the bar code label on the
>> slide as well as of the glass slide. These images are embedded in the
>> MRXS file. How would one go about extracting those images from the file
>> using preferable VIPS or if not possible, using an available OpenSlide
>> tool or API ?
> Hi Tom,
>
> OpenSlide calls these "associated images".  For examples of extracting
> associated images with VIPS, see the OpenSlide wiki:
>
>       https://github.com/openslide/openslide/wiki/OpenSlideAndVIPS
>
> --Benjamin Gilbert
>
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> openslide-users mailing list
> openslide-users at lists.andrew.cmu.edu
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>
>

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