id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 4253 Permission denied saving image chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-8.1-6.3.9600 ChimeraX Version: 1.0 (2020-06-04 23:15:07 UTC) Description I cant save hidrophofic png image Log: UCSF ChimeraX version: 1.0 (2020-06-04) © 2016-2020 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""C:\Users\GUILLERMO\Documents\ALEX HP\DENGUE\SEQUENCE > ANALISYS\1okesinagua.pdb"" format pdb Summary of feedback from opening C:\Users\GUILLERMO\Documents\ALEX HP\DENGUE\SEQUENCE ANALISYS\1okesinagua.pdb --- warnings | Ignored bad PDB record found on line 1 REMARK Accelrys Discovery Studio PDB file Ignored bad PDB record found on line 2 REMARK Created: 2020-06-19T19:25:40Z Chain information for 1okesinagua.pdb #1 --- Chain | Description A B | No description available > close session No such database 'C' > open ""C:/Users/GUILLERMO/Documents/ALEX HP/DENGUE/PDB´s/1oke.pdb"" 1oke.pdb title: Crystal structure of the dengue 2 virus envelope protein In complex with N-octyl-β-D-glucoside [more info...] Chain information for 1oke.pdb #1 --- Chain | Description A B | dengue virus TYPE 2 major envelope protein E Non-standard residues in 1oke.pdb #1 --- BMA — β-D-mannopyranose BOG — octyl β-D-glucopyranoside FUL — β-L-fucopyranose (6-deoxy-β-L-galactose) NAG — 2-acetamido-2-deoxy-β-D-glucopyranose > select ::name=""BOG"" 40 atoms, 40 bonds, 1 model selected > color sel bychain > select clear > color bychain > select ::name=""BOG"" 40 atoms, 40 bonds, 1 model selected > cofr sel > view sel Drag select of 8 atoms, 24 residues, 6 bonds > mlp sel Map values for surface ""1oke.pdb_B SES surface"": minimum -32.54, mean -5.348, maximum 26.25 > hide sel surfaces > show (#!1 & sel) target ab > label (#!1 & sel) text ""/{0.chain_id} {0.name} {0.number}{0.insertion_code}"" > select clear Drag select of 150 atoms, 92 residues, 128 bonds > hide (#!1 & sel) target a > ~label (#!1 & sel) residues > select clear > select ::name=""BOG"" 40 atoms, 40 bonds, 1 model selected > select ::name=""BOG"" 40 atoms, 40 bonds, 1 model selected > show sel target ab > select clear > select clear > select ::name=""BOG"" 40 atoms, 40 bonds, 1 model selected > color sel orange > cofr sel > view sel > select clear > select /A 3145 atoms, 3165 bonds, 1 model selected > select /B 3183 atoms, 3165 bonds, 1 model selected > mlp sel Map values for surface ""1oke.pdb_B SES surface"": minimum -32.54, mean -5.348, maximum 26.25 > select /B:198@CD2 1 atom, 1 model selected > select clear > select ::name=""BOG"" 40 atoms, 40 bonds, 1 model selected > color sel orange red > color sel red > hbonds sel 10 hydrogen bonds found > ~hbonds > select /B:193@CE1 1 atom, 1 model selected > select clear > save ""C:/Users/GUILLERMO/Documents/región BOG.png"" width 1900 height 767 > supersample 3 Traceback (most recent call last): File ""C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\chimerax\ui\gui.py"", line 1541, in action.triggered.connect(lambda arg, cb = callback: cb()) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 102, in lambda *args, ses=session: show_save_file_dialog(ses), tool_tip=""Save output file"", File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 113, in show_save_file_dialog _dlg.display(session, **kw) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 48, in display run(session, cmd) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\core\commands\run.py"", line 31, in run results = command.run(text, log=log) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 66, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 79, in provider_save mgr).save(session, path, **provider_kw) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\image_formats\\__init__.py"", line 24, in save save_image(session, path, format_name, **kw) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\image_formats\save.py"", line 115, in save_image i.save(path, format_name, **metadata) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\PIL\Image.py"", line 2131, in save fp = builtins.open(filename, ""w+b"") PermissionError: [Errno 13] Permission denied: 'C:/Users/GUILLERMO/Documents/región BOG.png' PermissionError: [Errno 13] Permission denied: 'C:/Users/GUILLERMO/Documents/región BOG.png' File ""C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\PIL\Image.py"", line 2131, in save fp = builtins.open(filename, ""w+b"") See log for complete Python traceback. > set bgColor white > set bgColor black > hide cartoons > show cartoons > hide cartoons > save C:/Users/GUILLERMO/Documents/BOG.png width 1900 height 767 supersample > 3 Traceback (most recent call last): File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\toolbar\tool.py"", line 162, in callback bundle_info.run_provider(session, name, session.toolbar, display_name=display_name) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\core\toolshed\info.py"", line 363, in run_provider return api._api_caller.run_provider(api, session, name, mgr, **kw) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\core\toolshed\\__init__.py"", line 1607, in run_provider return cls._get_func(api, ""run_provider"")(session, name, mgr, **kw) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\toolbar\\__init__.py"", line 38, in run_provider providers.run_provider(session, name) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\toolbar\providers.py"", line 45, in run_provider what(session) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\toolbar\providers.py"", line 27, in _file_save show_save_file_dialog(session) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 113, in show_save_file_dialog _dlg.display(session, **kw) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 48, in display run(session, cmd) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\core\commands\run.py"", line 31, in run results = command.run(text, log=log) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 66, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 79, in provider_save mgr).save(session, path, **provider_kw) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\image_formats\\__init__.py"", line 24, in save save_image(session, path, format_name, **kw) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site- packages\chimerax\image_formats\save.py"", line 115, in save_image i.save(path, format_name, **metadata) File ""C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\PIL\Image.py"", line 2131, in save fp = builtins.open(filename, ""w+b"") PermissionError: [Errno 13] Permission denied: 'C:/Users/GUILLERMO/Documents/BOG.png' PermissionError: [Errno 13] Permission denied: 'C:/Users/GUILLERMO/Documents/BOG.png' File ""C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\PIL\Image.py"", line 2131, in save fp = builtins.open(filename, ""w+b"") See log for complete Python traceback. OpenGL version: 3.3.0 - Build 10.18.14.4029 OpenGL renderer: Intel(R) HD Graphics 5500 OpenGL vendor: Intel Manufacturer: Hewlett-Packard Model: HP ENVY x360 Convertible OS: Microsoft Windows 8.1 Single Language (Build 9600) Memory: 8,502,923,264 MaxProcessMemory: 137,438,953,344 CPU: 4 Intel(R) Core(TM) i5-5200U CPU @ 2.20GHz"" PyQt version: 5.12.3 Compiled Qt version: 5.12.4 Runtime Qt version: 5.12.8 }}} " defect closed normal Input/Output can't reproduce Eric Pettersen all ChimeraX