Thank you. I will try it. Best wishes J ________________________________ 寄件者: Elaine Meng <meng@cgl.ucsf.edu> 寄件日期: 2024年4月29日 下午 01:14 收件者: Chang, Jufang <jchang24@wustl.edu> 副本: ChimeraX Users Help <chimerax-users@cgl.ucsf.edu> 主旨: Re: [chimerax-users] 回覆: running AlphaFold predictions in ChimeraX * External Email - Caution * Exactly what the message says: you need a daily build from March 19, 2024 or later. Your version 1.7.1 is from January 2024, even though it is the latest "production release" it is too old. Go to the download page and choose the newer "daily build" instead. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On Apr 29, 2024, at 11:09 AM, Chang, Jufang via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear Sir,
When I tried to use alphafold prediction with ChimeraX, I got this error message. I alreday download the latest version 1.7.1 (2024-01-23). But I still got the same error message. Could you please suggest me what to do the next to fix this? Thank you
Ju-Fang
AlphaFold Prediction Requires Newer ChimeraX
Alphafold prediction requires a ChimeraX daily build from March 19, 2024 or later.
The ChimeraX AlphaFold prediction service was broken by an update on Google Colab on March 14, 2024.
寄件者: Elaine Meng <meng@cgl.ucsf.edu> 寄件日期: 2024年4月29日 下午 01:00 收件者: Chang, Jufang <jchang24@wustl.edu> 副本: ChimeraX Users Help <chimerax-users@cgl.ucsf.edu> 主旨: running AlphaFold predictions in ChimeraX
* External Email - Caution *
On Apr 29, 2024, at 9:31 AM, Chang, Jufang via Chimera-users <chimera-users@cgl.ucsf.edu> wrote:
Dear Greg
Recently I can not use the ChimerX to do the alphafold prediction. The error message is some connection to the colab is broken sine March 2024. I am wondering when this feature of ChimeraX will come back?
Thank you
Ju-Fang
Hello Ju-Fang, As Greg said, you should use the address chimerax-users@cgl.ucsf.edu for ChimeraX questions, not chimera-users@cgl.ucsf.edu which is for Chimera, and put some description of the current issue in the email subject line.
If you get an error running the AlphaFold prediction in ChimeraX and you think it is a bug, please use ChimeraX menu Help... Report a Bug and include a description and your email address. As far as I knew it was working, so we wouldn't know what the problem is for you without more information.
Also here are some common issues and limitations of running these predictions: <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Frbvi.ucsf.edu%2Fchimerax%2Fdocs%2Fuser%2Ftools%2Falphafold.html%23caveats&data=05%7C02%7Cjchang24%40wustl.edu%7C2e20f2f4ae844ba0155608dc68784fad%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C638500113158558183%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=y%2Ft8XEzZnd7h7Bw1%2BuLTJoP0ewMFP4v4U2eWQUe7qdk%3D&reserved=0<https://rbvi.ucsf.edu/chimerax/docs/user/tools/alphafold.html#caveats>>
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
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