= Phenix = * Incorporated Billy's changes for finding/using Phenix on Windows * Improved feedback when installation not found === Fit Loops === * Alert user that UNK gaps can't be modeled * Revamped interface for remodeling one section at a time * Need to determine if phenix.fit_loops can "handle" //just// gaps === Emplace Local === * Randy Read paper * Wrote section on tool (why ChimeraX; how plugins work; plugin details) * Mocked up control for placing symmetry copies = ChimeraX completed = * Made tables more compact * Don't send blank residue names to Antechamber * idatm_failed boolean for SPICE processing * File→Fetch by ID * Glycosylation support in Change Chain IDs and command * Specify model number in 'open' * Size atoms by attribute value * Don't output SEQRES for manually joined chains * pbond command * Modified sequence-header code to work in library distribution * 'measure rotation' can now make true axis objects * Don't send truncated HIS to Antechamber * Modeller: handle target deletion relative to template * Preliminary scene support