id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
443	mmaker error: KeyError: ('<', 'M')	Tom Goddard	Eric Pettersen	"open 3iko
del ~/C
open ScNup84_7-488_506-726_new.pdb
mmaker #1 to #2:7-436

produces traceback

Traceback (most recent call last):
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/cmd_line/gui.py"", line 146, in execute
cmd.run(cmd_text)
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/commands/cli.py"", line 2221, in run
_used_aliases=used_aliases))
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/commands/cli.py"", line 2597, in __call__
return self.cmd.run(text, _used_aliases=_used_aliases, log=log)
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/commands/cli.py"", line 2206, in run
results.append(ci.function(session, **kw_args))
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/match_maker/match.py"", line 596, in cmd_match
gap_open_other=ogap, compute_ss=compute_ss, verbose=verbose)
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/match_maker/match.py"", line 296, in match
matrix, alg, gap_open, gap_extend, dssp_cache, **align_kw)
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/match_maker/match.py"", line 56, in align
gap_open_other=-gap_open_other)
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/seqalign/align_algs/NeedlemanWunsch/__init__.py"", line 115, in nw
best = m[i1][i2] + evaluate(i1, i2)
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/seqalign/align_algs/NeedlemanWunsch/__init__.py"", line 81, in <lambda>
evaluate = lambda i1, i2: ss_fraction * ss_eval(i1, i2) + sim_fraction * prev_eval(i1, i2)
File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/seqalign/align_algs/NeedlemanWunsch/__init__.py"", line 46, in <lambda>
evaluate = lambda i1, i2: similarity_matrix[(s1[i1], s2[i2])]
KeyError: ('<', 'M')
"	defect	closed	major		Sequence		fixed						all	ChimeraX