id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
1103	AddH fails after deleting atoms	Tristan Croll	Eric Pettersen	"delete H
addh hbond false

leads to the below traceback:

{{{
No usable SEQRES records for for_isolde.updated.pdb (#1) chain C; guessing termini instead
No usable SEQRES records for for_isolde.updated.pdb (#1) chain D; guessing termini instead
No usable SEQRES records for for_isolde.updated.pdb (#1) chain B; guessing termini instead
No usable SEQRES records for for_isolde.updated.pdb (#1) chain A; guessing termini instead
Chain-initial residues that are actual N termini: /C ALA 2, /D ALA 2, /B ILE 28, /A ILE 28
Chain-initial residues that are not actual N termini: /B ALA 257, /B ILE 389, /B ASN 598, /A ALA 257, /A ILE 389, /A ASN 598
Chain-final residues that are actual C termini: 
Chain-final residues that are not actual C termini: /C SER 148, /D SER 148, /B ARG 626, /B LYS 236, /B ASP 378, /B ASP 574, /A ARG 626, /A LYS 236, /A ASP 378, /A ASP 574
Traceback (most recent call last):
  File ""/home/tic20/apps/chimerax/lib/python3.6/site-packages/chimerax/cmd_line/tool.py"", line 205, in execute
    cmd.run(cmd_text)
  File ""/home/tic20/apps/chimerax/lib/python3.6/site-packages/chimerax/core/commands/cli.py"", line 2622, in run
    result = ci.function(session, **kw_args)
  File ""/home/tic20/apps/chimerax/lib/python3.6/site-packages/chimerax/add_h/cmd.py"", line 55, in cmd_addh
    add_h_func(session, structures, in_isolation=in_isolation, **prot_schemes)
  File ""/home/tic20/apps/chimerax/lib/python3.6/site-packages/chimerax/add_h/cmd.py"", line 130, in simple_add_hydrogens
    idatm_type, invert, coordinations.get(atom, []))
  File ""/home/tic20/apps/chimerax/lib/python3.6/site-packages/chimerax/add_h/simple.py"", line 34, in add_hydrogens
    _alt_loc_add_hydrogens(atom, alt_loc_atom, *args, **kw)
  File ""/home/tic20/apps/chimerax/lib/python3.6/site-packages/chimerax/add_h/simple.py"", line 77, in _alt_loc_add_hydrogens
    idatm_type[atom], atom, (list(atom.neighbors)+coordinations)[0], 3.5)
  File ""/home/tic20/apps/chimerax/lib/python3.6/site-packages/chimerax/add_h/cmd.py"", line 667, in find_rotamer_nearest
    c_pos = candidate._addh_coord
AttributeError: 'Atom' object has no attribute '_addh_coord'

AttributeError: 'Atom' object has no attribute '_addh_coord'

File ""/home/tic20/apps/chimerax/lib/python3.6/site-packages/chimerax/add_h/cmd.py"", line 667, in find_rotamer_nearest
c_pos = candidate._addh_coord
}}}"	defect	closed	major		Structure Editing	0.6	fixed		Tom Goddard				all	ChimeraX