Changes between Version 555 and Version 556 of ChangeLog

Timestamp:

Dec 16, 2025, 5:54:45 PM (28 hours ago)

Author:

Elaine Meng

Comment:

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ChangeLog

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 This log includes significant new features of interest to users. Smaller enhancements, minor feature additions, and minor bug fixes are usually not included. Dates are approximate.
 
-December 11, 2025: ** Find Cavities options ** - new [http://www.rbvi.ucsf.edu/chimerax/docs/user/tools/findcavities.html Find Cavities] search options to include non-biopolymer residues (such as cofactors) in the receptor surface, and to restrict the search to a box around a specific set of atoms (including optional padding). There are corresponding options to the `kvfinder` command (`includeAtoms`, `boxAtoms`, and `boxPad`).
+December 16, 2025: ** Boltz History ** - [http://www.rbvi.ucsf.edu/chimerax/docs/user/tools/boltz.html#history Boltz History] tool to list available calculation results and open structures, as well as to fetch server results that were not yet opened locally
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+December 16, 2025: ** Boltz server capabilities ** - [http://www.rbvi.ucsf.edu/chimerax/docs/user/commands/boltz.html#server boltz server] subcommands to start a server, list jobs, and fetch job results; corresponding options in [http://www.rbvi.ucsf.edu/chimerax/docs/user/commands/boltz.html#predict boltz predict] and [http://www.rbvi.ucsf.edu/chimerax/docs/user/tools/boltz.html#server Boltz] tool to use a server instead of running locally
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+December 11, 2025: ** Find Cavities options ** - new [http://www.rbvi.ucsf.edu/chimerax/docs/user/tools/findcavities.html Find Cavities] search options to include non-biopolymer residues (such as cofactors) in the receptor surface, and to restrict the search to a box around a specific set of atoms (including optional padding). There are corresponding options to the [http://www.rbvi.ucsf.edu/chimerax/docs/user/commands/kvfinder.html kvfinder] command (`includeAtoms`, `boxAtoms`, and `boxPad`).
 
 December 9, 2025: ** Alignment residue prevalence ** - changes in the residue-type prevalences of chosen sequences relative to the entire alignment can be shown with the [http://www.rbvi.ucsf.edu/chimerax/docs/user/tools/profilegrid.html Profile Grid] context menu: Chosen Cells→Change in Prevalence...