id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 998 Toolshed tool install gives long traceback when no permission to install for all users Tom Goddard Conrad Huang "Tried installing SignalViewer from Toolshed for All Users and it gives a long traceback. Should give a user friendly permission denied error. Better yet, it shouldn't give me the choice if I do not have permission to write in that directory. UCSF ChimeraX version: 0.5 (2018-01-09) OpenGL version: 3.3.0 NVIDIA 388.13 OpenGL renderer: GeForce GTX 1080/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation How to cite UCSF ChimeraX Downloading bundle ChimeraX_SignalViewer-1.0-py3-none-any.whl unloading module chimerax.signal_viewer Traceback (most recent call last): File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\chimerax\core\ui\widgets\htmlview.py"", line 313, in download_finished session=self.session) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\chimerax\core\toolshed\__init__.py"", line 500, in install_bundle results = self._pip_install(bundle, per_user=per_user, reinstall=reinstall) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\chimerax\core\toolshed\__init__.py"", line 695, in _pip_install results = self._run_pip(command) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\chimerax\core\toolshed\__init__.py"", line 718, in _run_pip raise RuntimeError(output + error) RuntimeError: Processing c:\users\goddard\downloads\chimerax_signalviewer-1.0-py3-none-any.whl Requirement not upgraded as not directly required: ChimeraX-Core>=0.1 in c:\program files\chimerax-jan-9-2018\bin\lib\site-packages (from ChimeraX-SignalViewer==1.0) Requirement not upgraded as not directly required: grako==3.16.5 in c:\program files\chimerax-jan-9-2018\bin\lib\site-packages (from ChimeraX-Core>=0.1->ChimeraX-SignalViewer==1.0) Requirement not upgraded as not directly required: msgpack-python>=0.5 in c:\program files\chimerax-jan-9-2018\bin\lib\site-packages (from ChimeraX-Core>=0.1->ChimeraX-SignalViewer==1.0) Requirement not upgraded as not directly required: suds-jurko==0.6 in c:\program files\chimerax-jan-9-2018\bin\lib\site-packages (from ChimeraX-Core>=0.1->ChimeraX-SignalViewer==1.0) Installing collected packages: ChimeraX-SignalViewer Found existing installation: ChimeraX-SignalViewer 1.0 Uninstalling ChimeraX-SignalViewer-1.0: Successfully uninstalled ChimeraX-SignalViewer-1.0 Rolling back uninstall of ChimeraX-SignalViewer Exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\basecommand.py"", line 215, in main status = self.run(options, args) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\commands\install.py"", line 342, in run prefix=options.prefix_path, File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\req\req_set.py"", line 784, in install **kwargs File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\req\req_install.py"", line 851, in install self.move_wheel_files(self.source_dir, root=root, prefix=prefix) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\req\req_install.py"", line 1064, in move_wheel_files isolated=self.isolated, File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\wheel.py"", line 345, in move_wheel_files clobber(source, lib_dir, True) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\wheel.py"", line 316, in clobber ensure_dir(destdir) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\utils\__init__.py"", line 83, in ensure_dir os.makedirs(path) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\os.py"", line 220, in makedirs mkdir(name, mode) PermissionError: [WinError 5] Access is denied: 'C:\\Program Files\\ChimeraX-Jan-9-2018\\bin\\Lib\\site-packages\\chimerax\\signal_viewer' RuntimeError: Processing c:\users\goddard\downloads\chimerax_signalviewer-1.0-py3-none-any.whl Requirement not upgraded as not directly required: ChimeraX-Core>=0.1 in c:\program files\chimerax-jan-9-2018\bin\lib\site-packages (from ChimeraX-SignalViewer==1.0) Requirement not upgraded as not directly required: grako==3.16.5 in c:\program files\chimerax-jan-9-2018\bin\lib\site-packages (from ChimeraX-Core>=0.1->ChimeraX-SignalViewer==1.0) Requirement not upgraded as not directly required: msgpack-python>=0.5 in c:\program files\chimerax-jan-9-2018\bin\lib\site-packages (from ChimeraX-Core>=0.1->ChimeraX-SignalViewer==1.0) Requirement not upgraded as not directly required: suds-jurko==0.6 in c:\program files\chimerax-jan-9-2018\bin\lib\site-packages (from ChimeraX-Core>=0.1->ChimeraX-SignalViewer==1.0) Installing collected packages: ChimeraX-SignalViewer Found existing installation: ChimeraX-SignalViewer 1.0 Uninstalling ChimeraX-SignalViewer-1.0: Successfully uninstalled ChimeraX-SignalViewer-1.0 Rolling back uninstall of ChimeraX-SignalViewer Exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\basecommand.py"", line 215, in main status = self.run(options, args) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\commands\install.py"", line 342, in run prefix=options.prefix_path, File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\req\req_set.py"", line 784, in install **kwargs File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\req\req_install.py"", line 851, in install self.move_wheel_files(self.source_dir, root=root, prefix=prefix) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\req\req_install.py"", line 1064, in move_wheel_files isolated=self.isolated, File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\wheel.py"", line 345, in move_wheel_files clobber(source, lib_dir, True) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\wheel.py"", line 316, in clobber ensure_dir(destdir) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\pip\utils\__init__.py"", line 83, in ensure_dir os.makedirs(path) File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\os.py"", line 220, in makedirs mkdir(name, mode) PermissionError: [WinError 5] Access is denied: 'C:\\Program Files\\ChimeraX-Jan-9-2018\\bin\\Lib\\site-packages\\chimerax\\signal_viewer' File ""C:\Program Files\ChimeraX-Jan-9-2018\bin\lib\site-packages\chimerax\core\toolshed\__init__.py"", line 718, in _run_pip raise RuntimeError(output + error) See log for complete Python traceback. If you wish to report this error, send mail to chimerax-bugs@cgl.ucsf.edu and describe what you were doing and include a copy of the contents of the log. Don't include any data you wish to remain private since a publicly viewable bug report will be created." defect closed moderate Tool Shed fixed all ChimeraX