Question about readRegion on MIRAX files

[David Gutman]

Is the image dark or any chance the contrast and or max/min or window
settings are just set improperly?   With 12 or 16 bit images sometimes at
least in other formats I've seen it where the image range is set from 0 to
2x16 but the image is only hundreds or thousands of units bright.. so
basically everything looks black because the range is goofed..

On Sat, Jun 27, 2020, 8:38 PM Sowrirajan Sowmithran <ssowmith94 at gmail.com>
wrote:

> Sorry for the late reply.
>
> Much thanks Dr. Cupitt for your suggestion.
>
> No matter what region I read for a MIRAX file I keep getting the dark
> region only. On the other hand I have no difficulties with the svs file.
> One additional question is how do I determine the tile-size and block size
> of the MIRAX file. I knew from the post by Benjamin that "CameraImageDivisionsPerSide"
> = 4 means a 4x4 blocks but what is the actual size of this tile?
>
>
> https://lists.andrew.cmu.edu/pipermail/openslide-users/2012-July/000373.html
>
>
> Any help is much appreciated.
>
> On Sat, Jun 13, 2020 at 5:40 AM <jcupitt at gmail.com> wrote:
>
>> On Fri, 12 Jun 2020 at 17:57, Sowrirajan Sowmithran
>> <ssowmith94 at gmail.com> wrote:
>> > On trying to apply the openslide_readRegion() function to get the
>> desired part (random area) of the data, I end up getting a dark image
>> instead (all 0s). Does this have something to do with the MIRAX format or
>> the region being empty? If it is the later how do I determine which region
>> has data and display it?
>>
>> 0 means transparent (ie. the slide background colour), so you are
>> probably reading outside the image area. I would check the openslide
>> bounds:
>>
>>                 "openslide.bounds-x",
>>                 "openslide.bounds-y",
>>                 "openslide.bounds-width",
>>                 "openslide.bounds-height"
>>
>> And make sure you are inside them. You could also open the image file
>> in a viewer and note the position of some real pixels.
>>
>> John
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