Phenix

• Decided on implementing Randy Read's fit-in-map tool.
• Implemented command version
  • It has syntax issues

ChimeraX completed

• Dump sqm.out on antechamber failure
• Fixed Matchmaker not being completely disposed of by "OK"
• Minimal Render By Attribute tool
• Realignment in same window
• Mutation updates sequence window
• MatchMaker automatically used nucleic matrix if appropriate