id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 3238 core version requirement jiwx@… Greg Couch "{{{ The following bug report has been submitted: Platform: Windows-8.1-6.3.9600 ChimeraX Version: 0.9 (2019-06-06) Description Just open ISOLDE(Describe the actions that caused this problem to occur here) Log: Startup Messages --- warning | 'clip' is a prefix of an existing command 'clipper' UCSF ChimeraX version: 0.9 (2019-06-06) © 2016-2019 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""C:\\\Users\\\Wenxin.Ji\\\Downloads\\\cryosparc_P20_J46_007_volume_map_sharp324.mrc"" Opened cryosparc_P20_J46_007_volume_map_sharp324.mrc, grid size 400,400,400, pixel 0.82, shown at level 0.0672, step 2, values float32 > open C:/Users/Wenxin.Ji/Downloads/BNP_20200507_remodeled_v12.pdb Chain information for BNP_20200507_remodeled_v12.pdb #2 --- Chain | Description E | No description available T | No description available Z | No description available > toolshed show ISOLDE Traceback (most recent call last): File ""H:\Download\ChimeraX\bin\lib\site- packages\chimerax\core\toolshed\info.py"", line 627, in start_tool ti = api._api_caller.start_tool(api, session, self, tool_info) File ""H:\Download\ChimeraX\bin\lib\site- packages\chimerax\core\toolshed\\__init__.py"", line 1435, in start_tool return cls._get_func(api, ""start_tool"")(session, ti.name) File ""C:\Users\Wenxin.Ji\AppData\Local\UCSF\ChimeraX\0.9\site- packages\chimerax\isolde\\__init__.py"", line 31, in start_tool return tools.get_singleton(session, ISOLDE_ToolUI, 'ISOLDE', create=True) File ""H:\Download\ChimeraX\bin\lib\site-packages\chimerax\core\tools.py"", line 214, in get_singleton tinst = tool_class(session, tool_name, **kw) File ""C:\Users\Wenxin.Ji\AppData\Local\UCSF\ChimeraX\0.9\site- packages\chimerax\isolde\tool.py"", line 167, in __init__ from . import isolde File ""C:\Users\Wenxin.Ji\AppData\Local\UCSF\ChimeraX\0.9\site- packages\chimerax\isolde\isolde.py"", line 35, in from chimerax import clipper File ""C:\Users\Wenxin.Ji\AppData\Local\UCSF\ChimeraX\0.9\site- packages\chimerax\clipper\\__init__.py"", line 26, in __version__ = _version() File ""C:\Users\Wenxin.Ji\AppData\Local\UCSF\ChimeraX\0.9\site- packages\chimerax\clipper\\__init__.py"", line 24, in _version return pkg_resources.require('ChimeraX-Clipper')[0].version File ""H:\Download\ChimeraX\bin\lib\site-packages\pkg_resources\\__init__.py"", line 900, in require needed = self.resolve(parse_requirements(requirements)) File ""H:\Download\ChimeraX\bin\lib\site-packages\pkg_resources\\__init__.py"", line 791, in resolve raise VersionConflict(dist, req).with_context(dependent_req) pkg_resources.ContextualVersionConflict: (ChimeraX-Core 0.9 (h:\download\chimerax\bin\lib\site-packages), Requirement.parse('ChimeraX- Core==0.93'), {'ChimeraX-Clipper'}) During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""H:\Download\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py"", line 1137, in run(ses, ""toolshed show %s"" % quote_if_necessary(tool_name))) File ""H:\Download\ChimeraX\bin\lib\site- packages\chimerax\core\commands\run.py"", line 31, in run results = command.run(text, log=log) File ""H:\Download\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2632, in run result = ci.function(session, **kw_args) File ""H:\Download\ChimeraX\bin\lib\site- packages\chimerax\core\commands\toolshed.py"", line 337, in toolshed_show bi.start_tool(session, tool_name) File ""H:\Download\ChimeraX\bin\lib\site- packages\chimerax\core\toolshed\info.py"", line 633, in start_tool ""start_tool() failed for tool %s in bundle %s:\n%s"" % (tool_name, self.name, str(e))) chimerax.core.toolshed.ToolshedError: start_tool() failed for tool ISOLDE in bundle ChimeraX-ISOLDE: (ChimeraX-Core 0.9 (h:\download\chimerax\bin\lib\site-packages), Requirement.parse('ChimeraX-Core==0.93'), {'ChimeraX-Clipper'}) chimerax.core.toolshed.ToolshedError: start_tool() failed for tool ISOLDE in bundle ChimeraX-ISOLDE: (ChimeraX-Core 0.9 (h:\download\chimerax\bin\lib\site-packages), Requirement.parse('ChimeraX-Core==0.93'), {'ChimeraX-Clipper'}) File ""H:\Download\ChimeraX\bin\lib\site- packages\chimerax\core\toolshed\info.py"", line 633, in start_tool ""start_tool() failed for tool %s in bundle %s:\n%s"" % (tool_name, self.name, str(e))) See log for complete Python traceback. OpenGL version: 3.3.0 NVIDIA 430.64 OpenGL renderer: Quadro K2200/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation }}} " defect assigned normal Tool Shed all ChimeraX