Phenix

• Command version of fit_loops
• Sent test case showing 4-processor version 5x slower than one processor
• Immediate to-dos:
  • Work up test case for fit_loops failing on 2gtk due to residue numbering
  • Document needs for JSON output from fit_loops
• Randy Read added full-map-only mode for voyager.emplace_local; need to update fit-in-map tool

ChimeraX completed

• Build Structure
  • Adjust Torsions (also in selection context menu)
  • Adjust Angles
• Handle Mol2 files that have GAFF types
• Charge computation falls back to more reliable method if faster method fails (courtesy Tristan)
• 'Info' commands can save to file
• Matchmaker
  • More reliably switch to 'sensible' similarity scoring matrix
  • 'reportMatrix' option
• Made hiding/closing of large numbers of models faster
  • Override Strucure 'display' attribute rather than use CLOSE_MODELS trigger
  • Batch updating of collections
• Fixed memory leaks
  • Metadata dict keys/values
  • Residues.unique_sequences list append
  • Drawing code holding references to pseudobond groups (not a leak per se)