id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 2731 Error in Basic Actions restoring session: invalid atom specifier daniel.palma.i@… Conrad Huang "{{{ The following bug report has been submitted: Platform: Linux-5.4.6-2-MANJARO-x86_64-with-arch-Manjaro-Linux ChimeraX Version: 0.91 (2019-12-23) Description Trying to open a ChimeraX Session. This session had multiple named selections, this apparently is related to the bug. Log: UCSF ChimeraX version: 0.91 (2019-12-23) © 2016-2019 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX Thank you for registering your copy of ChimeraX. By providing the information requested you will be helping us document the impact this software is having in the scientific community. The information you supplied will only be used for reporting summary usage statistics; no individual data will be released. daniel.palma.i@ug.uchile.cl is subscribed to the ChimeraX announcements list > open /home/danpal/Unidad/08_nudos_genomica_test/images/1oy5A_3ky7A_bak.cxs Unable to restore session, resetting. Traceback (most recent call last): File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/chimerax/core/commands/atomspec.py"", line 153, in _parse_unquoted ast = parser.parse(text, ""atom_specifier"", semantics=semantics) File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/grako/contexts.py"", line 206, in parse result = rule() File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/grako/contexts.py"", line 59, in wrapper return self._call(rule, name, params, kwparams) File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/grako/contexts.py"", line 458, in _call node, newpos, newstate = self._invoke_rule(rule, name, params, kwparams) File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/grako/contexts.py"", line 497, in _invoke_rule rule(self) File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/chimerax/core/commands/_atomspec.py"", line 105, in _atom_specifier_ self._error('no available options') File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/grako/contexts.py"", line 433, in _error item grako.exceptions.FailedParse: (1:1) no available options : loop2a|loop2b ^ atom_specifier During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/chimerax/basic_actions/cmd.py"", line 24, in name ast, used, unused = AtomSpecArg.parse(text, session) File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/chimerax/core/commands/atomspec.py"", line 97, in parse return cls._parse_unquoted(text, session) File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/chimerax/core/commands/atomspec.py"", line 162, in _parse_unquoted raise AnnotationError(message, offset=e.pos) chimerax.core.commands.cli.AnnotationError: invalid atom specifier During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/chimerax/core/session.py"", line 653, in restore obj = sm.restore_snapshot(self, data) File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/chimerax/basic_actions/statemgr.py"", line 63, in restore_snapshot cmd.name(session, name, value) File ""/home/danpal/programs/chimerax-0.91/lib/python3.7/site- packages/chimerax/basic_actions/cmd.py"", line 28, in name raise UserError(""\""%s\"": %s"" % (text, str(e))) chimerax.core.errors.UserError: ""loop2a|loop2b"": invalid atom specifier opened ChimeraX session OpenGL version: 4.5 (Core Profile) Mesa 19.3.1 OpenGL renderer: AMD RAVEN (DRM 3.35.0, 5.4.6-2-MANJARO, LLVM 9.0.0) OpenGL vendor: X.Org }}} " defect closed normal Sessions fixed Greg Couch all ChimeraX