Hey, thanks for the reply. I did see this one but was hoping for something 
made for when there are many pictures with exactly known locations --- it 
just seems like a waste to *have *this information precisely and not use 
it. 

I would love to try techniques for improving image quality, but stitching 
by itself is what I'm after for now. I recently changed my setup and was 
able to get an image I was very happy with of a coin to 400 megapixels (in 
microsoft ICE):

https://www.easyzoom.com/imageaccess/7ebced02a92e40f6b8f7d866bfc6ef15

It's not really microscopy so much as normal macro photography --- just 
with many pictures. The above one was about a thousand pictures, which is 
about the limit for me with ICE. I'd like to see the above quality but for 
images that are tens or hundreds of times bigger in area.

Thanks so much!. 
 
On Monday, March 30, 2020 at 2:00:46 PM UTC-4, aks wrote:
>
> Maybe this task is similar to what is described in the Hugin tutorial — 
> Stitching murals using mosaic mode 
> <http://hugin.sourceforge.net/tutorials/Mosaic-mode/en.shtml> but I 
> question if your microscopy needs also require deconvolution microscopy. I 
> suppose the deconvolution process needs to occur prior to Hugin stitching. 
> The stitching results at the image boundaries may not be suitable for your 
> needs without doing some tight masking. It would be interesting to see the 
> results you come up with. 
>
> On Mar 30, 2020, at 3:37 AM, Quantrix <[email protected] <javascript:>> 
> wrote:
>
> Hi there,
> I am looking to solve a similar problem using microscopy images. I was 
> wondering if anyone had any inputs, insights and guidance regarding this 
> issue?
> Thanks
> Quantrix
>
> On Friday, 13 March 2020 00:13:30 UTC-6, Ahron wrote:
>>
>> Hi,
>>
>> I have a macro scanner made out of basically smooshing a USB microscope 
>> into the extruder hole of a 3D printer. Said USB microscope captures 
>> 480x720 images in a regular grid of equal overlaps of ~20-50%. The 
>> mechanical repeatability of the system is good to better than or no more 
>> than a few pixels, depending on magnification. Is there a set of settings 
>> for this scenario with Hugin? I feel like it should be almost "easy mode", 
>> but in my current state of things (mostly running the auto and fumbling 
>> with controls) I can't seem to get a good picture with anything! 
>>
>> I currently use microsoft ICE since it usually does a fantastic job with 
>> no muss or fuss, but have recently been looking for an alternative for 
>> reasons involving lack of API and formation of artifacts. I am sure you 
>> have heard this story somewhere before, but right now to do batching we 
>> have an open loop VBS script that runs through the menus with physical 
>> keypresses!
>>
>> Beyond the actual stitching them together, I am sure there is plenty to 
>> deal with blending, dealing with exposure changes, etc... my hope is that 
>> by controlling many variables though I will be able to automate the process 
>> to minimal human input most of the time. Does anyone in the community have 
>> faith that this is possible? it would mean a great deal to me, as my 
>> project means a great deal to me.
>>
>> Thank you so much for any possible assistance!
>>
>
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