id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 9032 [ChimeraX 1.6.1] The log class seems to be not functioning, in the generic linux 64-bit 9 May 2023 release. Chung-Han.Tsai@… Tom Goddard "{{{ Hi Dear ChimeraX team, I would like to report a bug that shows in my terminal when opening up the latest production release of ChimeraX 1.6.1 (Generic Linux 64-bit 9 May 2023) Could you kindly help me look into this? The Log class seems to be not functioning. It wouldn't allow me to report bug from ChimeraX directly as well. The log windows is not showing. Thank you so much. Regards, Chung-Han. - The terminal log is as the following, relating to the Log class: [ct0651@gadi-analysis-01 chimerax-1.6.1]$ ls ChimeraX bin chimerax etc include lib share [ct0651@gadi-analysis-01 chimerax-1.6.1]$ ./chimerax NOTE: available bundle cache has not been initialized yet NOTE: Traceback (most recent call last): File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/core/toolshed/info.py"", line 560, in start_tool ti = api._api_caller.start_tool(api, session, self, tool_info) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/core/toolshed/__init__.py"", line 1269, in start_tool return cls._get_func(api, ""start_tool"")(session, ti.name) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/log/__init__.py"", line 39, in start_tool return cmd.get_singleton(session, create=True) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/log/cmd.py"", line 19, in get_singleton return tools.get_singleton(session, Log, 'Log', create=create) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/core/tools.py"", line 193, in get_singleton tinst = tool_class(session, tool_name, **kw) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/log/tool.py"", line 161, in __init__ from chimerax.ui.widgets import ChimeraXHtmlView ImportError: cannot import name 'ChimeraXHtmlView' from 'chimerax.ui.widgets' (/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/ui/widgets/__init__.py) During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/core/tools.py"", line 394, in start_tools bi.start_tool(session, tool_name) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/core/toolshed/info.py"", line 567, in start_tool raise ToolshedError( chimerax.core.toolshed.ToolshedError: start_tool() failed for tool Log in bundle ChimeraX-Log: cannot import name 'ChimeraXHtmlView' from 'chimerax.ui.widgets' (/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/ui/widgets/__init__.py) BUG: Tool ""Log"" failed to start: chimerax.core.toolshed.ToolshedError: start_tool() failed for tool Log in bundle ChimeraX-Log: cannot import name 'ChimeraXHtmlView' from 'chimerax.ui.widgets' (/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/ui/widgets/__init__.py) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/core/toolshed/info.py"", line 567, in start_tool raise ToolshedError( _See log for complete Python traceback._ NOTE: UCSF ChimeraX version: 1.6.1 (2023-05-09) NOTE: © 2016-2023 Regents of the University of California. All rights reserved. NOTE: [How to cite UCSF ChimeraX](cxcmd:help help:credits.html) NOTE: Traceback (most recent call last): File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/bug_reporter/crash_report.py"", line 127, in _delayed_register_log_recorder _register_log_recorder(session) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/bug_reporter/crash_report.py"", line 161, in _register_log_recorder log.record_to_file(log_file) File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/log/tool.py"", line 397, in record_to_file self._log_to_file(self.page_source) AttributeError: 'Log' object has no attribute 'page_source' BUG: Error processing trigger ""new frame"": AttributeError: 'Log' object has no attribute 'page_source' File ""/g/data/yt35/applications/viz/chimerax-1.6.1/lib/python3.9/site- packages/chimerax/log/tool.py"", line 397, in record_to_file self._log_to_file(self.page_source) _See log for complete Python traceback._ NOTE: Updating list of available bundles failed: Internal Server Error NOTE: [toolshed cache](help:user/commands/toolshed.html#cache) [toolshed cache](cxcmd:toolshed cache) Toolshed cache: /jobfs/84242512.gadi-pbs/.cache/ChimeraX/1.6/toolshed NOTE: [ui tool show](help:user/commands/ui.html#tool-show) Log [ui tool show Log](cxcmd:ui tool show Log) Chung-Han Tsai Data Analytics Engineer Centre for Advanced Microscopy The Australian National University | Microscopy Australia The Australian National University 131 Garran Road, Acton ACT 2601, AUSTRALIA T: + 61 2 6125 8917 chung-han.tsai@anu.edu.au https://microscopy.anu.edu.au/ [cid:e52821a9-0385-4a67-aad1-9da0f699944c][cid:1b5fa1d9-c12f-49bb-b468-8de927a05a27] }}} [[Image(Outlook-mj220iu5.jpg)]] [[Image(Outlook-1xk3hwt3.jpg)]] [attachment:""ChimeraX_error_self.page_source.png""] " defect assigned normal UI Greg Couch Zach Pearson all ChimeraX