Opinions regarding MIRAX data file contents

John Minnie jminnie at live.com
Sun Aug 19 20:52:52 EDT 2012

Thanks Benjamin. After posting my initial message, I actually also noticed
the XMLInfo section in the ini file, so I agree, there does appear to be a
specific section to which this data applies and is likely unrelated to the
position file.

I will have a look at the latest parse-mirax.py.

Regards and thanks,

-----Original Message-----
From: openslide-users-bounces+jminnie=live.com at lists.andrew.cmu.edu
[mailto:openslide-users-bounces+jminnie=live.com at lists.andrew.cmu.edu] On
Behalf Of Benjamin Gilbert (OpenSlide)
Sent: Sunday, August 19, 2012 6:58 PM
To: openslide-users at lists.andrew.cmu.edu
Subject: Re: Opinions regarding MIRAX data file contents

On Fri, August 17, 2012 1:08 am, John Minnie wrote:
> <scaninfo XImagePos="8" YImagePos="115"
> XMotorPos="3006" YMotorPos="47110" ZMotorPos="1356" XMotorError="0"
> YMotorError="0" ZMotorError="0" ObjectLevel="0.0143"
> OpticalFocusLevel="-1"
> LaserFocusLevel="-1.0000" FocusingType="OptPartialRange"
> Neighbours="1:(26;132)" FocalPlane="(26;132)" ImageAcquisitionTime="
> 4616.000 ms"/>
> Does anybody have any idea what this data is and if there is any 
> relation  between this data and the so-called "slide position file"?

I'd guess that this is the ScanInfoLayer_XMLInfoLevel hierarchical section,
but I haven't verified that.

The XImagePos and YImagePos appear to correspond to camera positions (i.e.,
the tile coordinates in the position map dumped by parse-mirax.py, divided
by CameraImageDivisionsPerSide).  I didn't find a clear relationship between
the XMotorPos/YMotorPos and the values in the slide position map.
Regardless, the values are not large enough to give pixel precision in level
0, so I don't think this data will help us.

BTW, while investigating this, I modified parse-mirax.py to dump
file/offset/length tuples for all non-hierarchical sections.  The new
version is in Git.

--Benjamin Gilbert

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