Hello Tom,
Hope you are doing well.
I am creating a GUI, and I have some problems. At the right bottom DL Struct window, I want to click the browse button and select a file, but it holds this error. I wonder if you know what's the problem? (My goal is let users find or input the path of a file, and use this path to submit jobs)
Best regards, Yongcheng
[image: Screen Shot 2021-04-29 at 1.24.02 PM.png]
On Fri, Apr 23, 2021 at 7:20 PM Yongcheng MU ymu004@odu.edu wrote:
Hello Tom,
Thank you for the information. I will check these documents you have provided.
Best regards, Yongcheng
On Fri, Apr 23, 2021 at 7:01 PM Tom Goddard goddard@sonic.net wrote:
Hi Jing, Yongcheng,
ChimeraX requires all different code from Chimera so I suggest not looking at a Chimera example, that will only confuse you as none of it is right for ChimeraX. There are simple examples of Python scripts for ChimeraX at the ChimeraX recipes site
https://rbvi.github.io/chimerax-recipes/
For packaging up a plugin there are examples in the ChimeraX programming manual
https://www.rbvi.ucsf.edu/chimerax/docs/devel/index.html
And it can also the packaging for plugins using a bundle_info.xml is used by each of the tools in ChimeraX and you can look at any of those as examples at the ChimeraX GitHub code repository
https://github.com/RBVI/ChimeraX/tree/develop/src/bundles
Let me know if you run into trouble.
Tom
On Apr 23, 2021, at 2:53 PM, He, Jing jhe@cs.odu.edu wrote:
Hi Tom,
Yongcheng has been setting up the bundle of a PyTorch-based deep learning method to detect secondary structures from medium-resolution density maps. He is able to install the bundle on Mac and PC and it looks like working. He started to create a GUI. I passed him our previous code for a Chimera plugin. Below he shows a few snapshots for that code. We are wondering if ChimeraX has similar functions to be called. Previously our code uses Chimera's functions to do input, output, and any display of some calculated results. How do we do this in ChimeraX?
Jing
*From:* Yongcheng MU ymu004@odu.edu *Sent:* Friday, April 23, 2021 2:04 PM *To:* He, Jing jhe@cs.odu.edu *Subject:* ChimeraX-Deeplearning plugin
Dear Dr. He,
I am trying to create a GUI for the bundle. When I check the previous work, I find some codes were called such as chimera.extension. I wonder if ChimeraX needs this kind of code or package as well, and where I can search and find this useful information.
Best regards, Yongcheng
[image: Screen Shot 2021-04-23 at 1.55.24 PM.png] [image: Screen Shot 2021-04-23 at 1.55.40 PM.png] [image: Screen Shot 2021-04-23 at 1.56.01 PM.png]
