SyntaxError in volume.py

[eric.larquet@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.22621
ChimeraX Version: 1.7rc202311300124 (2023-11-30 01:24:31 UTC)
Description
ERROR: Bundle 'ChimeraX-Map' custom initialization failed
ERROR: Bundle 'ChimeraX-Dicom' custom initialization failed

The same problem with the Linux Ubuntu 22.04 LTS version !!


Log:
Startup Errors  
---  
errors | Bundle 'ChimeraX-Map' custom initialization failed  
Bundle 'ChimeraX-Dicom' custom initialization failed  
warnings | Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 501, in get_module  
m = importlib.import_module(self.package_name)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\importlib\\__init__.py", line 126, in
import_module  
return _bootstrap._gcd_import(name[level:], package, level)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "<frozen importlib._bootstrap>", line 1206, in _gcd_import  
File "<frozen importlib._bootstrap>", line 1178, in _find_and_load  
File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked  
File "<frozen importlib._bootstrap>", line 690, in _load_unlocked  
File "<frozen importlib._bootstrap_external>", line 940, in exec_module  
File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\map\\__init__.py", line 29, in <module>  
from .volume import open_map, volume_from_grid_data  
File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\map\volume.py",
line 3441  
if allow_reseting_color_sequence and ynot any_volume_open(session):  
^^^^^^^^^^^^^^^  
SyntaxError: invalid syntax  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 375, in initialize  
api = self._get_api(session.logger)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 520, in _get_api  
m = self.get_module()  
^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 503, in get_module  
raise ToolshedError("Error importing bundle %s's module: %s" % (self.name,
str(e)))  
chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-Map's
module: invalid syntax (volume.py, line 3441)  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 501, in get_module  
m = importlib.import_module(self.package_name)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\importlib\\__init__.py", line 126, in
import_module  
return _bootstrap._gcd_import(name[level:], package, level)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "<frozen importlib._bootstrap>", line 1206, in _gcd_import  
File "<frozen importlib._bootstrap>", line 1178, in _find_and_load  
File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked  
File "<frozen importlib._bootstrap>", line 690, in _load_unlocked  
File "<frozen importlib._bootstrap_external>", line 940, in exec_module  
File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\dicom\\__init__.py", line 15, in <module>  
from chimerax.map import add_map_format  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\map\\__init__.py", line 29, in <module>  
from .volume import open_map, volume_from_grid_data  
File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\map\volume.py",
line 3441  
if allow_reseting_color_sequence and ynot any_volume_open(session):  
^^^^^^^^^^^^^^^  
SyntaxError: invalid syntax  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 375, in initialize  
api = self._get_api(session.logger)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 520, in _get_api  
m = self.get_module()  
^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 503, in get_module  
raise ToolshedError("Error importing bundle %s's module: %s" % (self.name,
str(e)))  
chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-Dicom's
module: invalid syntax (volume.py, line 3441)  
  
UCSF ChimeraX version: 1.7rc202311300124 (2023-11-30)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "C:\Users\larquete\Documents\Lombricus Terrestris\4v93.cif\4v93.cif"
> format mmcif

4v93.cif title:  
Fitted coordinates for Lumbricus terrestris hemoglobin cryo-EM complex
(EMD-2627) [more info...]  
  
Chain information for 4v93.cif #1  
---  
Chain | Description | UniProt  
A0 A5 AC AH AM AR AW Ab Ag Al Aq Av | EXTRACELLULAR GLOBIN-3 | GLB3_LUMTE
3-151  
A1 A6 AD AI AN AS AX Ac Ah Am Ar Aw | HEMOGLOBIN CHAIN D1 | O61233_LUMTE 8-147  
A2 A3 A7 AA AE AF AJ AK AO AP AT AU AY AZ Ad Ae Ai Aj An Ao As At Ax Ay |
EXTRACELLULAR GLOBIN-4 | GLB4_LUMTE 5-151  
A4 AB AG AL AQ AV Aa Af Ak Ap Au Az B2 B3 B7 BA BE BF BJ BK BO BP BT BU BY BZ
Bd Be Bi Bj Bn Bo Bs Bt Bx By | EXTRACELLULAR GLOBIN-2 | GLB2_LUMTE 1-145  
B0 B5 BC BH BM BR BW Bb Bg Bl Bq Bv C4 CB CG CL CQ CV Ca Cf Ck Cp Cu Cz |
HEMOGLOBIN CHAIN D1 | O61233_LUMTE -10-147  
B1 B6 BD BI BN BS BX Bc Bh Bm Br Bw | EXTRACELLULAR GLOBIN-4 | GLB4_LUMTE
1-151  
B4 BB BG BL BQ BV Ba Bf Bk Bp Bu Bz C3 CA CF CK CP CU CZ Ce Cj Co Ct Cy |
EXTRACELLULAR GLOBIN-3 | GLB3_LUMTE -16-153  
C0 C5 CC CH CM CR CW Cb Cg Cl Cq Cv | HEMOGLOBIN LINKER CHAIN L1 |
Q9GV76_LUMTE -14-225  
C1 C6 CD CI CN CS CX Cc Ch Cm Cr Cw | EXTRACELLULAR HEMOGLOBIN LINKER L2
SUBUNIT | Q2I743_LUMTE -36-251  
C2 C7 CE CJ CO CT CY Cd Ci Cn Cs Cx | EXTRACELLULAR HEMOGLOBIN LINKER L3
SUBUNIT | Q2I742_LUMTE -17-222  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\toolbar\tool.py", line 165, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 397, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 1302, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\shortcuts\\__init__.py", line 66, in run_provider  
shortcuts.run_provider(session, name)  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\shortcuts\shortcuts.py", line 1376, in run_provider  
keyboard_shortcuts(session).try_shortcut(name)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\shortcuts\shortcuts.py", line 1341, in keyboard_shortcuts  
register_shortcuts(ks)  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\shortcuts\shortcuts.py", line 29, in register_shortcuts  
scuts, catcols = standard_shortcuts(ks.session)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\shortcuts\shortcuts.py", line 124, in standard_shortcuts  
('sM', run_on_maps('volume %s show', visible_only=False), 'Show map', mapcat,
sesarg, mmenu),  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\shortcuts\shortcuts.py", line 532, in run_on_maps  
from chimerax.map import Volume  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\map\\__init__.py", line 29, in <module>  
from .volume import open_map, volume_from_grid_data  
File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\map\volume.py",
line 3441  
if allow_reseting_color_sequence and ynot any_volume_open(session):  
^^^^^^^^^^^^^^^  
SyntaxError: invalid syntax  
  
File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\map\volume.py",
line 3441  
if allow_reseting_color_sequence and ynot any_volume_open(session):  
^^^^^^^^^^^^^^^  
SyntaxError: invalid syntax  
  
File "C:\Program Files\ChimeraX\bin\Lib\site-
packages\chimerax\map\\__init__.py", line 29, in  
from .volume import open_map, volume_from_grid_data  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 546.01
OpenGL renderer: NVIDIA GeForce RTX 4090 Laptop GPU/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.11.2
Locale: fr_FR.cp1252
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: windows

Manufacturer: Dell Inc.
Model: Precision 7680
OS: Microsoft Windows 11 Professionnel (Build 22621)
Memory: 68,388,900,864
MaxProcessMemory: 137,438,953,344
CPU: 32 13th Gen Intel(R) Core(TM) i9-13950HX
OSLanguage: fr-FR

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    appdirs: 1.4.4
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    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.2
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
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    ChimeraX-IMOD: 1.0
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    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
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    ChimeraX-Positions: 1.0
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    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.2
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
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    ChimeraX-SwapAA: 2.0.1
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    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.9
    WMI: 1.5.1

[Tom Goddard]

Duplicate of #10262.