= ChimeraX Developer Meeting =

Attendance: Tom, Zach, Eric, Greg

July 6, 2026

= Agenda =


* Use prebuilt Astral Python
* Update to numpy 2.
* Update to Python 3.14 (blocked by #20335 and #16848)
* Update to PySide 6.11.1
* Make Chimera 1.20 release with Mac fix.
* Inside ribbon color?
* Toolshed reduce query result size.
* Work in progress reports
* Make Chimera end-of-life bug report and registration changes.


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= Discussion =

* Use prebuilt Astral Python
 - Zach will switch to prebuilt Astral Python for ChimeraX daily build on Mac and Windows.
 - We will still compile Python on Linux to use system OpenSSL.

* Update to numpy 2
 - Tom will update daily build to use numpy 2 today.
 - Tom tested all major ChimeraX numpy code with numpy 2.
 - Fixed 20 file readers, 5 file writers.
 - Most problems were removed numpy function fromstring, tostring.
 - Some casting problems (16-bit integer overflows), long long default integer arrays on Windows.

* Update to Python 3.14 (blocked by #20335 and #16848)
 - Boltz does not work with Python 3.14.
 - Tom will either make it work with Python 3.14 or make it use its own Python installation.
 - After Boltz fix we can try updating daily build to Python 3.14.

* Update to PySide 6.11.1
 - Zach switched daily build from PyQt to PySide last week in daily build to work around main window resize bug with floating tools.
 - So far no PySide specific bugs reported.

* Make Chimera 1.20 release with Mac fix.
 - Greg made Chimera 1.20 release with new Tcl/Tk/Tix that fixed Mac graphics window layout bug.

* Nightly build email
 - Last few days nightly build email says all builds failed, but clicking github links says they worked.
 - Zach will look at what is going on.

* Mac Chimera nightly build failed
 - Apple updated terms of service.
 - Eric notified UCSF Apple signing certificate people who agreed to new terms.
 - Mac signing should be back to working now.

* Recent toolshed submissions
 - Tom reviewed Kurwenal toolshed submission, utilities for AI Model Angelo models built in cryoEM maps. Asked that they use normal model specs and keywords in commands.
 - Tom reviewing toolshed CryoZeta AI model building in cryoEM map, ChimeraX interface to server.
 - Zach will review carbvis toolshed submission from last week on carbohydrate depictions.

* Dockerhub ChimeraX Linux build image
 - Greg suggests putting a ChimeraX Linux build environment image on Dockerhub.
 - Tristan can use this to make a singularity image for his ISOLDE builds.

* Trajectory RMSD maps
 - Eric working on all-by-all trajectory RMSD plot tool.

* Proofpoint spamming Trac bug reports
 - Eric filed bug report about ProofPoint sending blocked email digests to Trac.
 - Frequent digests create spurious bug reports.
 - Greg notes that email2trac has a blocklist file.  Made file writable by chimdev group so Eric can filter out proofpoint digests.

* Trac migration off CGL email server
 - Greg has explored how to run Trac bug reporting email2trac using rbvi.org instead of cgl.ucsf.edu.

* Group meeting topic
 - Greg presenting group meeting on Thursday.
 - Possible topic is new features in Python 3.14.

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= Action Items =