= ChimeraX Developer Meeting =

Attendance: Zach, Eric, Tom, Greg

March 23, 2026

= Agenda =

* !PySide, any new bugs?
* Toolshed reduce query result size.
* Chimera not working with macOS 26, graphics pane positioned over command-line.
* Work in progress reports
* Inside ribbon color?
* Make Chimera end-of-life bug report and registration changes.

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= Discussion =

* Plato admin
 - Greg considering moving password expiration script from wynton back to plato.
 - Announcement that wynton passwords expired was a mistake, was using old kerberos database.  Greg will send out a correction.

* PDB database updates
 - Eric did not receive email last weekend about PDB database on plato updating.
 - Will wait to see if update works next weekend.

* PySide bugs
 - There are two frequently reported PySide crashes.  If we release with these in June we could get a large number of crash reports.
 - We will try PySide 6.10.3 when it comes out in the next week.
 - PySide 6.11 is out today, but too late in our release cycle to update to that.
 - Crash during garbage collection deleting a QDockWidget, often from DockPrep.
 - Crash in Qt setParentChanged() where it appears ChimeraX is exiting normally in Py_FinalizeEx() and atexit_callfuncs().  But Elaine hit this crash and she was not quitting, was changing Mac scrollbar auto display setting.

* OpenFold and AlphaFold
 - Tom trying latest OpenFold preview 2 released a week ago.  Reran antiviral ligand geometry tests.  Small improvement.
 - Running AlphaFold 3 latest github code to try 7000 amino acid pooled predictions for Horia Todor on RunPod.
 - Latest AlphaFold 3 did not improve ligand geometry problems versus original Nov 2024 AlphaFold 3.

* Jane Richardson Phenix talk
 - Jane talked about two projects she will continue work on after June retirement.
 - Figuring out RNA base geometry at low resolutions.
 - Combining phi/psi ramachandran backbone angles with sidechain rotamers in determining favored geometries.

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= Action Items =