id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 959 Unknown C++ exception deleting atoms Tom Goddard Eric Pettersen "On Windows 10 with current daily build deleting atoms causes a C++ exception open 4v7s del /ca-dz This is reproducible on Windows (tried 3 times), but no error occurs on Mac. UCSF ChimeraX version: 0.1 (2017-12-14) OpenGL version: 3.3.0 NVIDIA 388.13 OpenGL renderer: GeForce GTX 1080/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation open 4v7s Summary of feedback from opening 4v7s fetched from pdb notes Used PDBx fixed column width tables to speed up reading mmCIF file Used PDBx keywords to speed up reading mmCIF file Chain information for 4v7s #1 Chain Description AA 16S rRNA AB CB 30S ribosomal protein S2 AC CC 30S ribosomal protein S3 AD CD 30S ribosomal protein S4 AE CE 30S ribosomal protein S5 AF CF 30S ribosomal protein S6 AG 30S ribosomal protein S7 AH CH 30S ribosomal protein S8 AI CI 30S ribosomal protein S9 AJ CJ 30S ribosomal protein S10 AK CK 30S ribosomal protein S11 AL CL 30S ribosomal protein S12 AM 30S ribosomal protein S13 AN CN 30S ribosomal protein S14 AO CO 30S ribosomal protein S15 AP 30S ribosomal protein S16 AQ CQ 30S ribosomal protein S17 AR CR 30S ribosomal protein S18 AS CS 30S ribosomal protein S19 AT CT 30S ribosomal protein S20 AU CU 30S ribosomal protein S21 B0 D0 50S ribosomal protein L32 B1 D1 50S ribosomal protein L33 B2 D2 50S ribosomal protein L34 B3 D3 50S ribosomal protein L35 B4 D4 50S ribosomal protein L36 BA DA 23S rRNA BB 5S rRNA BC DC 50S ribosomal protein L2 BD DD 50S ribosomal protein L3 BE DE 50S ribosomal protein L4 BF 50S ribosomal protein L5 BG DG 50S ribosomal protein L6 BH DH 50S ribosomal protein L9 BI DI 50S ribosomal protein L11 BJ DJ 50S ribosomal protein L13 BK DK 50S ribosomal protein L14 BL DL 50S ribosomal protein L15 BM DM 50S ribosomal protein L16 BN DN 50S ribosomal protein L17 BO DO 50S ribosomal protein L18 BP DP 50S ribosomal protein L19 BQ DQ 50S ribosomal protein L20 BR DR 50S ribosomal protein L21 BS DS 50S ribosomal protein L22 BT DT 50S ribosomal protein L23 BU DU 50S ribosomal protein L24 BV DV 50S ribosomal protein L25 BW DW 50S ribosomal protein L27 BX DX 50S ribosomal protein L28 BY DY 50S ribosomal protein L29 BZ DZ 50S ribosomal protein L30 CA 16S rRNA CG 30S ribosomal protein S7 CM 30S ribosomal protein S13 CP 30S ribosomal protein S16 DB 5S rRNA DF 50S ribosomal protein L5 4v7s mmCIF Assemblies 1 author_defined_assembly 2 author_defined_assembly Opened mmCIF data containing 284525 atoms and 306836 bonds delete /ca-dz Traceback (most recent call last): File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\cmd_line\tool.py"", line 201, in execute cmd.run(cmd_text) File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\commands\cli.py"", line 2557, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\commands\delete.py"", line 22, in delete atoms.delete() File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\atomic\molarray.py"", line 584, in delete args = [ctypes.c_void_p, ctypes.c_size_t])(self._c_pointers, len(self)) RuntimeError: Unknown exception RuntimeError: Unknown exception File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\atomic\molarray.py"", line 584, in delete args = [ctypes.c_void_p, ctypes.c_size_t])(self._c_pointers, len(self)) 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. Error processing trigger ""graphics update"" Traceback (most recent call last): File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\triggerset.py"", line 126, in invoke return self._func(self._name, data) File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\atomic\structure.py"", line 2415, in _update_graphics_if_needed s[i]._update_graphics_if_needed() File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\atomic\structure.py"", line 340, in _update_graphics_if_needed self._update_graphics(gc) File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\atomic\structure.py"", line 356, in _update_graphics pbg._update_graphics(changes) File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\atomic\pbgroup.py"", line 191, in _update_graphics vpb = self._shown_pbonds(self.pseudobonds) File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\atomic\pbgroup.py"", line 220, in _shown_pbonds dpb = pbonds.showns File ""C:\Program Files\ChimeraX-Dec-14-2017\bin\lib\site-packages\chimerax\core\atomic\molc.py"", line 171, in get_prop cget(self._c_pointers, n, pointer(values)) RuntimeError: Unknown exception" defect closed major 0.5 Core fixed all ChimeraX