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Opened 6 months ago
Closed 6 months ago
#17789 closed defect (nonchimerax)
Bad PDB file
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Input/Output | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Windows-10-10.0.26100
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Replace this text with list of actions that caused this problem to occur
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open C:/Users/caojiahao/Downloads/3jc8.pdb
Summary of feedback from opening C:/Users/caojiahao/Downloads/3jc8.pdb
---
warnings | Ignored bad PDB record found on line 100003
ATOM 100000 O ALA ? 114 -237.680 152.089-147.677 1.00 0.00 O
Ignored bad PDB record found on line 100004
ATOM 100001 N ASN ? 115 -236.070 153.618-147.292 1.00 0.00 N
Ignored bad PDB record found on line 100005
ATOM 100002 CA ASN ? 115 -235.680 153.819-148.697 1.00 0.00 C
Ignored bad PDB record found on line 100006
ATOM 100003 C ASN ? 115 -235.320 152.568-149.478 1.00 0.00 C
Ignored bad PDB record found on line 100007
ATOM 100004 O ASN ? 115 -235.250 152.652-150.721 1.00 0.00 O
7637 messages similar to the above omitted
CONECT record from atom to itself: 10410
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\dialog.py", line 334, in _qt_safe
run(session, "open " + " ".join([FileNameArg.unparse(p) for p in paths]) + (""
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 132, in cmd_open
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 296, in provider_open
session.models.add(opened_models)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\models.py", line 782, in add
m.added_to_session(session)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 1286, in added_to_session
self._report_chain_descriptions(session)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 1553, in
_report_chain_descriptions
self._report_chain_summary(session, descripts, chain_text, False)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 1725, in _report_chain_summary
cids = ' '.join([chain_text(chain) for chain in chains])
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 1725, in <listcomp>
cids = ' '.join([chain_text(chain) for chain in chains])
^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 1552, in chain_text
chain_res_range(chain), (chain.chain_id if not chain.chain_id.isspace() else
'?'))
^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 1808, in chain_res_range
return range_string(first, last)
^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 1804, in range_string
return "%s-%s" % (first.string(residue_only=first_res_only, style="command"),
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x81 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x81 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
> open C:/Users/caojiahao/Downloads/3jc8.pdb
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\dialog.py", line 334, in _qt_safe
run(session, "open " + " ".join([FileNameArg.unparse(p) for p in paths]) + (""
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 132, in cmd_open
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 215, in provider_open
models, status = collated_open(session, None, [data], data_format,
_add_models,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 526, in collated_open
return remember_data_format()
^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 497, in remember_data_format
models, status = func(*func_args, **func_kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\pdb\\__init__.py", line 45, in open
return pdb.open_pdb(session, data, file_name, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\pdb\pdb.py", line 89, in open_pdb
pointers = _pdbio.read_pdb_file(stream, session.logger, not coordsets, atomic,
segid_chains,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "<frozen codecs>", line 322, in decode
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x80 in position 2450:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x80 in position 2450:
invalid start byte
File "", line 322, in decode
See log for complete Python traceback.
> open C:/Users/caojiahao/Downloads/3jc8.pdb
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\dialog.py", line 334, in _qt_safe
run(session, "open " + " ".join([FileNameArg.unparse(p) for p in paths]) + (""
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 132, in cmd_open
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 215, in provider_open
models, status = collated_open(session, None, [data], data_format,
_add_models,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 526, in collated_open
return remember_data_format()
^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 497, in remember_data_format
models, status = func(*func_args, **func_kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\pdb\\__init__.py", line 45, in open
return pdb.open_pdb(session, data, file_name, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\pdb\pdb.py", line 89, in open_pdb
pointers = _pdbio.read_pdb_file(stream, session.logger, not coordsets, atomic,
segid_chains,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "<frozen codecs>", line 322, in decode
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x80 in position 2450:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x80 in position 2450:
invalid start byte
File "", line 322, in decode
See log for complete Python traceback.
> open C:/Users/caojiahao/Downloads/3jc8.pdb
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\dialog.py", line 334, in _qt_safe
run(session, "open " + " ".join([FileNameArg.unparse(p) for p in paths]) + (""
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 132, in cmd_open
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 215, in provider_open
models, status = collated_open(session, None, [data], data_format,
_add_models,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 526, in collated_open
return remember_data_format()
^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\open_command\cmd.py", line 497, in remember_data_format
models, status = func(*func_args, **func_kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\pdb\\__init__.py", line 45, in open
return pdb.open_pdb(session, data, file_name, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\pdb\pdb.py", line 89, in open_pdb
pointers = _pdbio.read_pdb_file(stream, session.logger, not coordsets, atomic,
segid_chains,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "<frozen codecs>", line 322, in decode
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x80 in position 2450:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x80 in position 2450:
invalid start byte
File "", line 322, in decode
See log for complete Python traceback.
> opem 3jc8
Unknown command: opem 3jc8
> open 3jc8
Summary of feedback from opening 3jc8 fetched from pdb
---
notes | Fetching compressed mmCIF 3jc8 from http://files.rcsb.org/download/3jc8.cif
Fetching CCD MEA from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/A/MEA/MEA.cif
3jc8 title:
Architectural model of the type IVa pilus machine in a piliated state [more
info...]
Chain information for 3jc8 #2
---
Chain | Description | UniProt
A1 A2 A3 A4 A5 A6 A7 A8 A9 Aa Ab Ac Ad Ae Af Ag Ah Ai Aj Ak Al Am An Ao Ap Aq Ar As At Au Av Aw Ax Ay Az | PilA |
Ba Bb Bc Bd Be Bf | Type IV-A pilus assembly ATPase PilB | Q1D098_MYXXD 1-566
Ca Cb | Type 4 fimbrial assembly protein PilC | Q1D0A0_MYXXD 1-417
Ma Mb Mc Md Me Mf Mg Mh Mi Mj Mk Ml | Type IV pilus biogenesis protein PilM | Q1D0B0_MYXXD 1-395
Na Nb Nc Nd Ne Nf Ng Nh Ni Nj Nk Nl | PilN | Q306N5_MYXXD 1-225
Oa Ob Oc Od Oe Of Og Oh Oi Oj Ok Ol | PilO | Q306N4_MYXXD 1-205
Pa Pb Pc Pd Pe Pf Pg Ph Pi Pj Pk Pl | PilP | Q306N3_MYXXD 1-172
Qa Qb Qc Qd Qe Qf Qg Qh Qi Qj Qk Ql | PilQ | Q9ZFG1_MYXXD 1-901
Ta Tb Tc Td Te Tf Tg Th Ti Tj Tk Tl | LysM domain protein | Q1D813_MYXXD 1-411
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa5 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa5 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa0 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa0 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa2 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2159, in description
return str(self.atom)
^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 100, in
chimerax.atomic.cymol.CyAtom.__str__
File "atomic_cpp\\\cymol.pyx", line 790, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1757, in
chimerax.atomic.cymol.CyResidue.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa1 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa1 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2339, in description
return str(self.pbond) + " " + dist_fmt % self.pbond.length
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\molobject.py", line 130, in __str__
return self.string()
^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\molobject.py", line 239, in string
return a1.string(style=style, minimal=minimal) + bond_sep +
a2.string(style=style, relative_to=a1)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 751, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x92 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x92 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2339, in description
return str(self.pbond) + " " + dist_fmt % self.pbond.length
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\molobject.py", line 130, in __str__
return self.string()
^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\molobject.py", line 239, in string
return a1.string(style=style, minimal=minimal) + bond_sep +
a2.string(style=style, relative_to=a1)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 751, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x92 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x92 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2339, in description
return str(self.pbond) + " " + dist_fmt % self.pbond.length
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\molobject.py", line 130, in __str__
return self.string()
^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\molobject.py", line 239, in string
return a1.string(style=style, minimal=minimal) + bond_sep +
a2.string(style=style, relative_to=a1)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 751, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x92 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x92 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\core\updateloop.py", line 151, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 504, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 645, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 808, in pause
pu.show_text(p.description(), (x+10,y))
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\structure.py", line 2339, in description
return str(self.pbond) + " " + dist_fmt % self.pbond.length
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\molobject.py", line 130, in __str__
return self.string()
^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\atomic\molobject.py", line 239, in string
return a1.string(style=style, minimal=minimal) + bond_sep +
a2.string(style=style, relative_to=a1)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "atomic_cpp\\\cymol.pyx", line 751, in
chimerax.atomic.cymol.CyAtom.string
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x92 in position 0:
invalid start byte
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x92 in position 0:
invalid start byte
File "atomic_cpp\\\cymol.pyx", line 1059, in
chimerax.atomic.cymol.CyResidue.chain_id.__get__
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 566.26
OpenGL renderer: NVIDIA GeForce RTX 4060 Laptop GPU/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Python: 3.11.4
Locale: zh_CN.cp936
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: windows
Manufacturer: ASUSTeK COMPUTER INC.
Model: ASUS TUF Gaming A15 FA507NV_FA507NV
OS: Microsoft Windows 11 家庭中文版 (Build 26100)
Memory: 16,369,221,632
MaxProcessMemory: 137,438,953,344
CPU: 16 AMD Ryzen 7 7735H with Radeon Graphics
OSLanguage: zh-CN
Installed Packages:
alabaster: 1.0.0
anyio: 4.7.0
appdirs: 1.4.4
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
build: 1.2.1
certifi: 2024.8.30
cftime: 1.6.4.post1
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.4.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.9
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.6
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.2.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.1.6
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
ChimeraX-ModelPanel: 1.5
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.14
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.6
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.18.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.41
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
comtypes: 1.4.5
contourpy: 1.3.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.9
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.3
funcparserlib: 2.0.0a0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
ihm: 1.3
imagecodecs: 2024.6.1
imagesize: 1.4.1
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.7
line_profiler: 4.1.3
lxml: 5.2.2
lz4: 4.3.3
MarkupSafe: 3.0.2
matplotlib: 3.9.2
matplotlib-inline: 0.1.7
msgpack: 1.0.8
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pillow: 10.4.0
pip: 24.2
pkginfo: 1.11.1
platformdirs: 4.3.6
prompt_toolkit: 3.0.48
psutil: 6.0.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.18.0
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-Qt6: 6.7.3
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.2
pywin32: 306
pyzmq: 26.2.0
qtconsole: 5.5.2
QtPy: 2.4.2
qtshim: 1.0
RandomWords: 0.4.0
requests: 2.32.3
scipy: 1.14.0
setuptools: 72.1.0
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.6
Sphinx: 8.0.2
sphinx-autodoc-typehints: 2.2.3
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.10.1
tcia_utils: 1.5.1
tifffile: 2024.7.24
tinyarray: 1.2.4
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.12.2
tzdata: 2024.2
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.13
WMI: 1.5.1
Change History (2)
comment:1 by , 6 months ago
| Component: | Unassigned → Input/Output |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Bad PDB file |
comment:2 by , 6 months ago
| Resolution: | → nonchimerax |
|---|---|
| Status: | accepted → closed |
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