Attendees

Agenda

• New prioritized list (see our last list below)
• Target date
• Blobs or no?

Goals for next snapshot

Infrastructure

• Bug report dialog
• Nightly builds
• Preferences
• Triggers
• File history (like rapid access) [Conrad]
• Sessions
  • Maybe just implement a command history rather than a full session
• Scenes
• Reliable operation on Linux
• Windows app
• Application icon

Molecules

• Python wrapping
• Molecular data in session files
• Ribbons
  • Discussion needed (include pipes & planks, nucleotide repr)
• Tubes [TomG]
• Atom / bond display, half-bond, stick-scale, bond-scale, never/always/smart bonds

Graphics

• Mouse selection [TomG]
• Image saving
• Clip planes
• Surface capping
• Orthographic camera mode
• Stereo camera mode(s)
• What camera parameters should be adjustable?

Commands

• Essential commands
• Command documentation
• Full atomspecs [Conrad]
• Predefined selections names: ligand, solvent, ...
• Command history
  • Both this and file history need preferences to work

Graphical user interface

• Links in reply log, e.g. command name linked to docs. [Eric]
• Model panel. [Eric]
• Side view clip planes. [Greg]
• GUI for existing lighting and effects functionality. [TomG]
• Improved Tool Shed gui.

Density maps

• Clean up map APIs
• Map display state in sessions
• Add map fitting

Sequences

• Sequences in one form or another. [Eric]
  • Needs selections and triggers in order to have any real value

Web

• Web services. [Conrad]
  • Threaded task manager implemented. nogui is now threaded.
  • BLAST PDB
• Remote databases. [Conrad]

March 2 goals

• Full atomspecs [Conrad]
  • Need to add blob masking, intersection and union [Eric]
  • Extended cli API to accommodate better error reporting by atomspec parser. [Greg]
• Colors in cli [Greg]
  • Use CSS4 color names.
  • Use 'grako' (same as atomspec) for parsing ColorArg.
• Volume series tool. HTML vs wx GUI? [TomG]
  • 'vseries' command is implemented and can open and display map series. GUI on the way.
• Performance with large molecule (opening, rotating).
  • Memory footprint [Eric]
    • Save space by using different C++ data types
    • Converting 'std::string' members to custom class with fixed length array - expect 5-10% savings
    • Converting 'std::unordered_map' to plain 'std::map' - 10% savings.
  • Graphics performance [TomG]
    • No longer display bonds in sphere mode. Saves both space and time.
    • Faster computation for center of rotation and bounding box.
    • Will investigate why radii blob is so slow. Possibly switch to element-based radii for now. [Eric]
  • Level of detail [TomG]
    • Fewer triangles for spheres for large structures.
  • Reading mmcif file [postpone assignment until analysis of the other performance issues]
• Web services. [Conrad]
  • Threaded task manager implemented. nogui is now threaded.
  • BLAST PDB
• Better logging. Reply log and status line. [Eric]
  • Nice feature would be to show an embedded thumbnail of your current scene
• Feature advertisement (present and future). [Elaine]
  • HTML ​with and ​without further discussion topics (ECM: I consider it done for now, until we decide to list more things)
  • High priority
  • Features: high performance, new lighting, new user interface, MMCIF, toolshed, new surface algorithm
• Side view. [Greg]
• Oculus Rift [TomG]
• Space Navigator, for use with Oculus. [TomG]
• Links in reply log, e.g. command name linked to docs. [Eric]
• Sequences in one form or another. [Eric]
• Remote databases. [Conrad]
• Command documentation. [Elaine]
• "help" command. [Greg]
  • Implemented.
• Model panel. [Eric]
• GUI for existing lighting and effects functionality. [TomG]
• Picking? What resolution? [TomG]
• Tubes [TomG]
• File history (like rapid access) [Conrad]
• Scenes and sessions. Low priority?
  • Molecular data only?
  • Maybe just implement a command history rather than a full session
• Ribbons
  • Lots of discussion needs to happen