id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 2335 Segfault in AtomicStructure.reorder_residues Tristan Croll Eric Pettersen "Happens whether the `new_order` residues are from the same model or an identical copy. If `m` is the model: {{{ from chimerax.atomic import Residues new_order = Residues(sorted(m.residues, key=lambda r: (r.chain_id, r.number))) m.reorder_residues(new_order) # segfault Program received signal SIGSEGV, Segmentation fault. 0x00007fffb954e240 in atomstruct::Structure::reorder_residues(std::vector > const&) () from /opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/lib/libatomstruct.so Missing separate debuginfos, use: debuginfo-install ucsf-chimerax-daily-2019.08.15-1.el7.x86_64 (gdb) bt #0 0x00007fffb954e240 in atomstruct::Structure::reorder_residues(std::vector > const&) () at /opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/lib/libatomstruct.so #1 0x00007fffc003b715 in structure_reorder_residues () at /opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/libmolc.so #2 0x00007fffe767ddcc in ffi_call_unix64 () at /lib64/libffi.so.6 #3 0x00007fffe767d6f5 in ffi_call () at /lib64/libffi.so.6 #4 0x00007fffe78921ca in _ctypes_callproc (argcount=2, resmem=0x7fffffff7f40, restype=, atypes=, avalues=0x7fffffff7f20, pProc=0x7fffc003b640 , flags=4357) at ./tmp/Python-3.7.4/Modules/_ctypes/callproc.c:827 #5 0x00007fffe78921ca in _ctypes_callproc (pProc=pProc@entry=0x7fffc003b640 , argtuple=argtuple@entry=0x7fff2c540a50, flags=4357, argtypes=argtypes@entry=0x7fff2c5ebbe0, restype=restype@entry=0xa14400, checker=0x0) at ./tmp/Python-3.7.4/Modules/_ctypes/callproc.c:1184 }}}" defect closed moderate Structure Editing fixed all ChimeraX