= Attendees =

* Conrad, Elaine, Eric, TomG, Greg, TomF

= Agenda =
* Review action items from 9/7 meeting
* Chimera 1.12
* Alpha 3
  - Yet another new bundle building change
  - Sessions: msgpack vs pickle
* Alpha 4
  - Undo manager
  - Preferences GUI
* Beta release topics
* Make ChimeraX tickets viewable publicly
* Custom Qt for ChimeraX
* Next meeting
 - [http://plato.cgl.ucsf.edu/pipermail/chimera-users/2017-August/013830.html Glycosylation depiction]
 - Who will develop mmCIF writer? [https://plato.cgl.ucsf.edu/trac/ChimeraX/ticket/752#comment:3 ticket]
 - ChimeraX on Github
 - Rotamer library license

= Discussion =
* Chimera 1.12 candidate is up for download
  - Wait for a couple weeks for bug reports
  - Eric will poke "turn off indexer" victim
* Alpha 3
  - Sessions: msgpack vs pickle
    - Make v3 (Cython version) the default session format
    - Report error if trying to read v2 file
  - Undo manager
    * infrastructure in place
    * show, hide, style, cartoon, color are implemented except for surfaces
* Alpha 4
  - Preferences GUI
    * Eric
    * Core preferences + 1 example bundle preferences
    * Ensure fetching URL is settable via preferences
  - Zone atomspec
    * Conrad
    * chains still need work, only selects polymer
  - Named targets/selections
    * Eric will create ticket
    * Conrad
    * UI is the focus
  - Rescan tickets, in particular, findclash
* Need to investigate
  - Replace ctypes in atomic with Cython
* Make ChimeraX tickets viewable publicly
  - ~~Private tickets need to start private
  - ~~Alternative, make all tickets public and make UI say "don't send private data"
  - Make tickets public now and add warning later when needed
* Custom Qt for ChimeraX
  a. Ignore the problems
    - tool windows always on top of app (on Mac, ALL apps)
    - tool windows disappear when focus goes to another app (on Mac and Windows)
  b. Fix it for easy platform (Mac)
    - Can recompile Qt and drop in libraries after !PyQt installation
  c. ~~Fix it for all platforms
  d. Submit pull request to Qt maintainers
  - b and c requires compiling Qt and rebuilding !PyQt
  - d depends on !Qt/PyQt maintainers to accept and incorporate pull request
  - Eric will (Mac only) compile Qt, build !PyQt wheel, put back on plato
  - Eric will submit pull request to Qt with full changes eventually
* Beta release topics
  - Meeting on Monday
  - Why do we need a beta so soon?  Why not leave it as alpha?
  - Is December a realistic target?
  - Will bundles move out from core, e.g., atomic?
  - What are the beta APIs?  Toolshed.  Atomic.  Command...
  - How much "firming up" API is needed?
  - What consists of "the API"?  Public methods, even those without Sphinx documentation?
  - Release protocol for "core" bundles?

= Action Items =
* Greg will make session file format changes
* Elaine will add "no private data" to contacts.html
* Eric will add "no private data" to traceback printout in log
* Conrad will make tickets publicly readable
* Conrad will continue working on ribbon tickets
* Conrad will investigate implementing the "like" operator
 - e.g., to specify polymer in atomspec
* ~~Scooter will investigate making tickets public (possibly marking some tickets private)
* Conrad will send mail to RCSB about bad pdb.org certificate
* ~~Greg will handle Chimera 1.12 branching and release notes migration
* ~~Conrad will go through Chimera 1.12 svn logs for notable bug fixes