Attendees

• Conrad, Elaine, Eric, TomG, Greg

Agenda

• Review action items from 8/26 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
• Next meeting
  • ​Glycosylation depiction
  • Who will develop mmCIF writer? ​ticket
  • ChimeraX on Github
  • Rotamer library license

Discussion

• Chimera 1.12 waiting on:
  • turning off virus-checking does not solve "cannot rename file" issue, still waiting for info on turning off Windows indexing
  • openssl on Linux, use ChimeraX approach of adding root certificate file from known system locations
  • splash screen problem with PIL fixed
  • Put candidate release up now (Greg will handle branching and release notes migration, Conrad will go through svn logs for notable bug fixes)
• Chimera issues
  • RCSB wants us to use https to wwpdb.org to fetch files
• Alpha 3
  • Sessions: msgpack vs pickle
    • Use different extension mechanism to handle tuples/lists instead of overloading map serialization and checking for special __type__ key
    • Other custom types, e.g., DateTime, will use new extension mechanism as well
    • Python version is done but very slow
    • Working on C version for speed
• Alpha 4
  • Undo manager
    • Conrad
    • getting closer
  • 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
  • Rescan tickets, in particular, findclash
• Beta release topics
  • 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

• 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