Hi Jacek, ChimeraX 1.10.1 uses Boltz 1 the same as ChimeraX 1.10. If you used a ChimeraX daily build before 1.10 came out (e.g April 2025) those older ChimeraX versions installed Boltz 0.4.1. If you have the older Boltz 0.4.1 installed by ChimeraX in ~/boltz I'd suggest you delete the ~/boltz directory and have ChimeraX 1.10.1 install Boltz 1.0 for you in ~/boltz. ChimeraX daily builds use Boltz 2.1 and the daily build will install Boltz in ~/boltz2 so it does not conflict with Boltz 1.0 in ~/boltz. That allows you to use both ChimeraX 1.10 with Boltz 1.0 and ChimeraX daily builds with Boltz 2. The main advantage of Boltz 2 in ChimeraX is that it can predicting ligand binding affinity. In a week or two I plan to update the ChimeraX daily builds to use Boltz 2.2 and include a new capability to predict batches of ligands docked to a molecular assembly. I think when I make that update I will have ChimeraX install the new Boltz 2.2 in ~/boltz22 so it does not conflict with other versions of Boltz that you may use with other ChimeraX versions. Tom

On Aug 11, 2025, at 10:07 AM, Jacek Jagodzinski via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

Do I need to manually/separately update Boltz to ver2 from ver1 after updating to current ChimeraX 1.10.1 or is this handled while update is installed?

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