Changes between Version 1 and Version 2 of Dev2024-2-12


Ignore:
Timestamp:
Feb 12, 2024, 4:34:29 PM (21 months ago)
Author:
Tom Goddard
Comment:

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  • Dev2024-2-12

    v1 v2  
    77= Agenda =
    88
     9* Work in progress reports
    910* Update Cython and other prereqs.
    1011* What ChimeraX 1.8 work/tickets should we prioritize for January?
    … …  
    1920= Discussion =
    2021
     22* Update ChimeraX dependencies
     23  - Reviewed weekly email of PyPi dependencies that have newer versions.
     24  - 2/3 have already been update to latest versions.
     25  - Assigned who will update remaining ones.
     26  - Still waiting for Qt 6.6.2 to be released (was supposed to happen last week).  Then we update qt 6.3 to 6.6.2.
     27
     28* ChimeraX PyPi package updates
     29  - Decided we could do ChimeraX PyPi package update for each production release.
     30  - Decided PyPi package does not need to be built every night.
     31  - Next step is to provide Linux and Windows versions of PyPi package.
     32  - Use ChimeraX 1.7.1 code.
     33  - Also update Mac package which is from Oct 2023.
     34
     35* Tom work in progress
     36  - Did alphafold batch protein-protein interaction group meeting last week.
     37  - Working on whether AlphaFold / ColabFold can run fast enough on Mac CPU.
     38  - Trying to understand simple ColabFold optimizations that got 5x speed-up.
     39
     40* Eric work in progress
     41  - Debugging garbage collection crash.  Have reproducible test case, but still no clear way to find cause.
     42  - Adding build structure gui for joining with non-peptide bonds, choosing dihedral atoms to use.
     43  - Looking at suboptimal idatm types for ring systems, double vs single bonds, for SPICE database molecules.
     44
     45* Greg work in progress
     46  - Getting flatpak nightly build going.  Added flatpak support to current linux build configuration files.
     47  - Looking at reading binary mmcif.  PDB is dropping mmtf.  Binary mmcif uses msgpack and does table column-wise compression.  Used mostly for fast network transmission to molstar javascript in browser.  May benefit ChimeraX speed if RCSB drops stylized mmcif which we rely on for speed.
     48
     49* Zach work in progress
     50  - Exploring speech input for chimerax vr.
     51  - Sensitive to having a high quality microphone.
     52  - Want to demonstrate speech next week during NIH visit.  Simple demo with flaws is fine for NIAID collaborators.
    2153
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