Opened 6 years ago

Closed 6 years ago

#2269 closed defect (duplicate)

Attempting to run AddH on 6nph crashes ChimeraX

Reported by: Tristan Croll Owned by: pett
Priority: major Milestone:
Component: Structure Editing Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description

traceback:

terminate called after throwing an instance of 'std::invalid_argument'
  what():  Atom Name "H3110" too long, maximum 4 characters.
Fatal Python error: Aborted

Thread 0x00007f6a619dc700 (most recent call first):
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/threading.py", line 300 in wait
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/threading.py", line 552 in wait
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/threading.py", line 1176 in run
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/threading.py", line 926 in _bootstrap_inner
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/threading.py", line 890 in _bootstrap

Current thread 0x00007f6b1bc59740 (most recent call first):
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/addh/cmd.py", line 938 in _h_name
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/addh/cmd.py", line 838 in new_hydrogen
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/addh/cmd.py", line 812 in add_altloc_hyds
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/addh/hbond.py", line 892 in _attach_hydrogens
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/addh/hbond.py", line 212 in add_hydrogens
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/addh/cmd.py", line 166 in hbond_add_hydrogens
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/atomic/addh/cmd.py", line 58 in cmd_addh
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/core/commands/cli.py", line 2655 in run
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/cmd_line/tool.py", line 254 in execute
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/cmd_line/tool.py", line 108 in keyPressEvent
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/ui/gui.py", line 254 in event_loop
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/ChimeraX_main.py", line 747 in init
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/ChimeraX_main.py", line 871 in <module>
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/runpy.py", line 85 in _run_code
  File "/opt/UCSF/ChimeraX-daily/lib/python3.7/runpy.py", line 193 in _run_module_as_main

Change History (2)

comment:1 by pett, 6 years ago

Status: assigned → accepted

comment:2 by pett, 6 years ago

Resolution: → duplicate
Status: accepted → closed

Duplicate of #2141; adding Tristan to recipient list for that ticket

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