[scikit-image] 回复：Re: building scikit-image plugin and tool set.

[imagepy]

Hi Stefan and Dongyao:I think the most difference between camera image, 
semiconductor industry and biology is the image format, and some specific 
algrism, As a plugin system, we just need to build general environment, 
supporting Numpy(uint8, int16, float32, float64), and some common mark(lookup 
table, scale ruler). about the difference, Developer in different fields can 
wrote their own reader plugins(such as pydicom).bwt:I do not appreciate 
integrate ui and plugins in scikit-image, scikit-image should be pure a 
processing library.
About the ui, wxPhoenix has support Py2, Py3, on Win, Mac ,Linux. You can 
find Linux whl here and will be avalible in pypi soon. (In fact I had tested 
ImagePy on win, mac, linux with py2/py3) I think QT and WX are both OK, but wx 
is more light weighted (just 10M on win), It is friendly for user to download.
I also agree with That web is the best choice. But I have no energy to do 
it myself, I am not good at web, js, I just see the image show and parameter 
adjust in Jupyter's demo (but the most difficult is to edit the roi line, 
curve, circle, and polygon, edit the node, sometimes with holes). I would be 
very happy If I can get contact with their developer!
BestYXDragon
- 原始邮件 -
发件人：Dongyao Li 
收件人："Mailing list for scikit-image (http://scikit-image.org)" 

主题：Re: [scikit-image] building scikit-image plugin and tool set.
日期：2017年07月01日 03点40分

Hi YXDragon and Stefan:
I am a process engineer in semiconductor industry. I wrote a SEM/STEM/TEM 
analysis software with UI based on scikit-image, pyqt, and others, using the 
concept of plugins. I agree with Stefan's point that there is a market for 
this. However my experience is that the images from scientific instruments like 
SEM/STEM/TEM/MRI are quite different with images from cameras. And people in 
semiconductor industry and people working on biology have very different needs. 
I feel like the focus right now is mostly on the biology community.
I am very happy to hear that we can possibly build a web-based UI for image 
analysis now. It will integrate the image analysis and further data analysis 
greatly, which is the our future direction. It would be great if scikit-image 
could include some demo of it in the future, just like the "viewer" package 
skimage has right now.
Best,Dongyao

On Fri, Jun 30, 2017 at 10:48 AM, Stefan van der Walt  
wrote:





Hi, YXDragon



On Fri, Jun 30, 2017, at 01:46, imag...@sina.com wrote:

 Now I think It is time to build a project named skimg-plgs. And I had 
wrote some presentative demo with friendly interact. these demo are all from 
the gallery, (interactive snake contours, interactive watershed...) I want to 
build a full plugin system and tool set covering scikit-image's every module. 
Then we can build a large user community like ImageJ, not only programers but 
also the doctors and biologists.



Given the immense success of projects such as ImageJ, and based on feedback 
I've received from practitioners in microscopy, there is certainly a market for 
a GUI built on top of scikit-image.



I don't personally have the time to contribute to such an effort at the moment 
(my focus is probably best spent keeping skimage on track!), but I am 
appreciative of the work you are doing, and encourage you to continue.



I may have mentioned this to you before, but I am not sure about the long-term 
viability of WXPython.  I heard that they have a Phoenix rewrite underway, but 
looking at the latest PyPI release 
(https://pypi.python.org/pypi/wxPython/4.0.0a1) they also only support Windows 
and MacOS.



With a Jupyter Lab release imminent, I would strongly consider using the web as 
UI, and building components that integrate with that project.  I can put you in 
contact with their developers, if you like.



Best regards

Stéfan






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Re: [scikit-image] building scikit-image plugin and tool set.

[Dongyao Li]

Hi YXDragon and Stefan:

I am a process engineer in semiconductor industry. I wrote a SEM/STEM/TEM
analysis software with UI based on scikit-image, pyqt, and others, using
the concept of plugins. I agree with Stefan's point that there is a market
for this. However my experience is that the images from scientific
instruments like SEM/STEM/TEM/MRI are quite different with images from
cameras. And people in semiconductor industry and people working on biology
have very different needs. I feel like the focus right now is mostly on the
biology community.

I am very happy to hear that we can possibly build a web-based UI for image
analysis now. It will integrate the image analysis and further data
analysis greatly, which is the our future direction. It would be great if
scikit-image could include some demo of it in the future, just like the
"viewer" package skimage has right now.

Best,
Dongyao


On Fri, Jun 30, 2017 at 10:48 AM, Stefan van der Walt 
wrote:

> Hi, YXDragon
>
> On Fri, Jun 30, 2017, at 01:46, imag...@sina.com wrote:
>
>  Now I think It is time to build a project named skimg-plgs
> . And I had wrote some
> presentative demo  with friendly
> interact. these demo are all from the gallery, (interactive snake contours,
> interactive watershed...) I want to build a full plugin system and tool set
> covering scikit-image's every module. Then we can build a large user
> community like ImageJ, not only programers but also the doctors and
> biologists.
>
>
> Given the immense success of projects such as ImageJ, and based on
> feedback I've received from practitioners in microscopy, there is certainly
> a market for a GUI built on top of scikit-image.
>
> I don't personally have the time to contribute to such an effort at the
> moment (my focus is probably best spent keeping skimage on track!), but I
> am appreciative of the work you are doing, and encourage you to continue.
>
> I may have mentioned this to you before, but I am not sure about the
> long-term viability of WXPython.  I heard that they have a Phoenix rewrite
> underway, but looking at the latest PyPI release (
> https://pypi.python.org/pypi/wxPython/4.0.0a1) they also only support
> Windows and MacOS.
>
> With a Jupyter Lab release imminent, I would strongly consider using the
> web as UI, and building components that integrate with that project.  I can
> put you in contact with their developers, if you like.
>
> Best regards
> Stéfan
>
>
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> scikit-image@python.org
> https://mail.python.org/mailman/listinfo/scikit-image
>
>
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Re: [scikit-image] building scikit-image plugin and tool set.

[Stefan van der Walt]

Hi, YXDragon

On Fri, Jun 30, 2017, at 01:46, imag...@sina.com wrote:
>  Now I think It is time to build a project named skimg-plgs[1].
>  And I had wrote some presentative demo[2] with friendly interact.
>  these demo are all from the gallery, (interactive snake contours,
>  interactive watershed...) I want to build a full plugin system
>  and tool set covering scikit-image's every module. Then we can
>  build a large user community like ImageJ, not only programers but
>  also the doctors and biologists.
Given the immense success of projects such as ImageJ, and based on
feedback I've received from practitioners in microscopy, there is
certainly a market for a GUI built on top of scikit-image.
I don't personally have the time to contribute to such an effort at
the moment (my focus is probably best spent keeping skimage on
track!), but I am appreciative of the work you are doing, and
encourage you to continue.
I may have mentioned this to you before, but I am not sure about the long-
term viability of WXPython.  I heard that they have a Phoenix rewrite
underway, but looking at the latest PyPI release
(https://pypi.python.org/pypi/wxPython/4.0.0a1) they also only support
Windows and MacOS.
With a Jupyter Lab release imminent, I would strongly consider using the
web as UI, and building components that integrate with that project.  I
can put you in contact with their developers, if you like.
Best regards
Stéfan


Links:

  1. https://github.com/Image-Py/skimg-plgs
  2. https://github.com/Image-Py/skimg-plgs
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Re: [scikit-image] Techniques for Aligning images to GIS data

[K.-Michael Aye]

I don’t know your status of knowledge, so I apologize if I state the obvious.

Your issue is that of the co-registration of images.

You have to always decide what your “prime” or “truth” is. How was your “GIS” 
data precisely located? How do you know it’s not that which is off? (Even so, 
if you have “ground truth” measurements, they are usually more precisely 
located than remote sensing data.

Are the satellite images “map-projected” ? If so, against what ground truth was 
that projection performed? What geographical coordinate system of Earth was 
used for the map projection?

This stackexchange might help.

There are a bazillion books out there for that, don’t really have a 
recommendation, mostly learned my stuff by internet searches. ;)

HTH,
Michael


> On Jun 30, 2017, at 09:49, Vighnesh Birodkar  
> wrote:
> 
> Hello
> 
> Has anyone here worked with satellite images before ?  I am dealing with the 
> problem of aligning satellite images to GIS data which can be off by upto 
> 15pixels. Could someone point me to good literature to read on the topic ?
> 
> Thanks
> Vighnesh
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Re: [scikit-image] Techniques for Aligning images to GIS data

[K.-Michael Aye]

Errm, forgot the link:

https://gis.stackexchange.com/questions/664/whats-the-difference-between-a-projection-and-a-datum
 



> On Jun 30, 2017, at 10:03, K.-Michael Aye  wrote:
> 
> I don’t know your status of knowledge, so I apologize if I state the obvious.
> 
> Your issue is that of the co-registration of images.
> 
> You have to always decide what your “prime” or “truth” is. How was your “GIS” 
> data precisely located? How do you know it’s not that which is off? (Even so, 
> if you have “ground truth” measurements, they are usually more precisely 
> located than remote sensing data.
> 
> Are the satellite images “map-projected” ? If so, against what ground truth 
> was that projection performed? What geographical coordinate system of Earth 
> was used for the map projection?
> 
> This stackexchange might help.
> 
> There are a bazillion books out there for that, don’t really have a 
> recommendation, mostly learned my stuff by internet searches. ;)
> 
> HTH,
> Michael
> 
> 
>> On Jun 30, 2017, at 09:49, Vighnesh Birodkar  
>> wrote:
>> 
>> Hello
>> 
>> Has anyone here worked with satellite images before ?  I am dealing with the 
>> problem of aligning satellite images to GIS data which can be off by upto 
>> 15pixels. Could someone point me to good literature to read on the topic ?
>> 
>> Thanks
>> Vighnesh
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> 

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Re: [scikit-image] Techniques for Aligning images to GIS data

[Ömer Özak]

Hi Vigresh,

Not sure what you're proven is exactly but you can try Geoandas and Georasters 
which are socialized packages for GIS.

Best,

Ömer

Sent from my mobile
Please excuse any typos

> On Jun 30, 2017, at 10:49 AM, Vighnesh Birodkar  
> wrote:
> 
> Hello
> 
> Has anyone here worked with satellite images before ?  I am dealing with the 
> problem of aligning satellite images to GIS data which can be off by upto 
> 15pixels. Could someone point me to good literature to read on the topic ?
> 
> Thanks
> Vighnesh
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