![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 2 years ago
Closed 2 years ago
#10178 closed defect (duplicate)
ISOLDE: RuntimeError: Release Object
| Reported by: | Owned by: | Tristan Croll | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Third Party | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Linux-5.4.0-166-generic-x86_64-with-debian-bullseye-sid
ChimeraX Version: 1.1 (2020-09-09 22:22:27 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.1 (2020-09-09)
© 2016-2020 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/J103_D9_reconstruction.mrc
> format mrc
Opened J103_D9_reconstruction.mrc, grid size 300,300,300, pixel 1.08, shown at
level 8.16, step 2, values float32
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r2-coot-2.pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r2-coot-2.pdb
---
warnings | Ignored bad PDB record found on line 59
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 60
MOLPROBITY STATISTICS.
Chain information for isolde_r2-coot-2.pdb #2
---
Chain | Description
J | No description available
> ui tool show ISOLDE
> set selectionWidth 4
Chain information for isolde_r2-coot-2.pdb
---
Chain | Description
2.2/J | No description available
Done loading forcefield
Loading residue template for ADP from internal database
> addh
Summary of feedback from adding hydrogens to isolde_r2-coot-2.pdb #2.2
---
notes | No usable SEQRES records for isolde_r2-coot-2.pdb (#2.2) chain J;
guessing termini instead
Chain-initial residues that are actual N termini: /J GLU 10
Chain-initial residues that are not actual N termini:
Chain-final residues that are actual C termini:
Chain-final residues that are not actual C termini: /J GLU 519
477 hydrogen bonds
/J GLU 519 is not terminus, removing H atom from 'C'
3980 hydrogens added
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax/lib/python3.7/site-
packages/chimerax/core/triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/isolde.py", line 2859, in _sim_end_cb
self._update_menu_after_sim()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/isolde.py", line 1599, in _update_menu_after_sim
self.iw._master_model_combo_box.setEnabled(True)
RuntimeError: wrapped C/C++ object of type QComboBox has been deleted
Error processing trigger "sim terminated":
RuntimeError: wrapped C/C++ object of type QComboBox has been deleted
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/isolde.py", line 1599, in _update_menu_after_sim
self.iw._master_model_combo_box.setEnabled(True)
See log for complete Python traceback.
> volume #2.1.1.1 level 6.536
> ui tool show ISOLDE
> set selectionWidth 4
Done loading forcefield
> set bgColor white
> view
Loading residue template for ADP from internal database
> select H
3981 atoms, 511 residues, 1 model selected
> hide (#!2.2 & sel) target a
> select clear
> show cartoons
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/J103_D9_reconstruction.mrc
> format mrc
Opened J103_D9_reconstruction.mrc, grid size 300,300,300, pixel 1.08, shown at
level 8.16, step 2, values float32
> volume #1 step 1
> transparency 50
> volume #1 level 7.614
> volume #1 level 6.881
> volume #1 level 6.515
> hide sel atoms
> show sel atoms
> select clear
> hide atoms
> volume #1 level 8.53
> transparency 0
> transparency 50
> show atoms
> volume #1 level 6.79
> select #1
4 models selected
> ~select #1
Nothing selected
> hide #!1 models
> select #1
4 models selected
> ~select #1
Nothing selected
> select #2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 19 models selected
> select #2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 19 models selected
> ~select #2.3
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 18 models selected
> ~select #2.1
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 13 models selected
> select #2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 19 models selected
> select #2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 19 models selected
> select #2.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
> select #2.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
> select #2.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
> hide #!2.2 models
> show #!2.2 models
> select #2.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
> select #2.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
> save
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r3.pdb
> relModel #2.2
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r3.pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r3.pdb
---
warnings | Ignored bad PDB record found on line 59
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 60
MOLPROBITY STATISTICS.
Chain information for isolde_r3.pdb #3
---
Chain | Description
J | No description available
Chain information for isolde_r3.pdb
---
Chain | Description
3.2/J | No description available
No rotamer preview selected! Ignoring command.
> hide #!3.2 models
> show #!3.2 models
> hide #!2.2 models
> select #3.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
No model chosen to save relative to
> select #3
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 19 models selected
> ~select #3.3
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 18 models selected
> ~select #3.2.2
7839 atoms, 7861 bonds, 513 residues, 17 models selected
> select #3.2.2
1 pseudobond, 1 model selected
> ~select #3.2.2
Nothing selected
> select #3.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
> save
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r4.pdb
> models #3 selectedOnly true relModel #2.1.1.1
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r4.pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r4.pdb
---
warnings | Ignored bad PDB record found on line 59
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 60
MOLPROBITY STATISTICS.
Chain information for isolde_r4.pdb #1
---
Chain | Description
J | No description available
> hide #!3 models
> close #2
> close #3
Chain information for isolde_r4.pdb
---
Chain | Description
1.2/J | No description available
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/J103_D9_reconstruction.mrc
> format mrc
Opened J103_D9_reconstruction.mrc, grid size 300,300,300, pixel 1.08, shown at
level 8.16, step 2, values float32
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r1.pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r1.pdb
---
warnings | Ignored bad PDB record found on line 58
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 59
MOLPROBITY STATISTICS.
Chain information for isolde_r1.pdb #3
---
Chain | Description
J | No description available
> volume #2 level 6.199
> volume #2 step 1
> transparency 50
> hide #3 models
> hide #!2 models
> show #3 models
> show #!2 models
> hide #!1.2 models
> hide #3 models
> show #!1.2 models
> show #3 models
> hide #3 models
> show #3 models
> hide #3 models
> show #3 models
> hide #3 models
> volume #1.1.1.1 level 7.029
> show #3 models
> volume #1.1.1.1 level 6.171
> volume style mesh
> volume style mesh
> volume style mesh
> volume style mesh
> volume style mesh
> volume style mesh
> volume style surface
> transparency 50
> hide #3 models
> hide #!1 models
> show #!1 models
> hide #!1.1 models
> show #!1.1 models
> view
> volume #1.1.1.1 level 6.115
> ui tool show "Side View"
> close #3
> close #1.2
Deleting atomic symmetry model...
Deleting atomic symmetry model...
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r4.pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r4.pdb
---
warnings | Ignored bad PDB record found on line 59
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 60
MOLPROBITY STATISTICS.
Chain information for isolde_r4.pdb #2
---
Chain | Description
J | No description available
Deleting atomic symmetry model...
Chain information for isolde_r4.pdb
---
Chain | Description
2.2/J | No description available
> volume #1.1.1.1 level 6.841
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r3.pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r3.pdb
---
warnings | Ignored bad PDB record found on line 59
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 60
MOLPROBITY STATISTICS.
Chain information for isolde_r3.pdb #3
---
Chain | Description
J | No description available
Deleting atomic symmetry model...
Chain information for isolde_r3.pdb
---
Chain | Description
3.2/J | No description available
> close #2.2
Deleting atomic symmetry model...
Deleting atomic symmetry model...
Deleting atomic symmetry model...
Deleting atomic symmetry model...
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> close #2
Deleting atomic symmetry model...
Deleting atomic symmetry model...
> close
Deleting atomic symmetry model...
> close #
Expected a models specifier or a keyword
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/J103_D9_reconstruction.mrc
> format mrc
Opened J103_D9_reconstruction.mrc, grid size 300,300,300, pixel 1.08, shown at
level 8.16, step 2, values float32
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r3.pdb
> format pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r3.pdb
---
warnings | Ignored bad PDB record found on line 59
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 60
MOLPROBITY STATISTICS.
Chain information for isolde_r3.pdb #2
---
Chain | Description
J | No description available
Chain information for isolde_r3.pdb
---
Chain | Description
2.2/J | No description available
> volume #2.1.1.1 level 7.226
> volume #2.1.1.1 level 6.676
> show sel cartoons
> show sel cartoons
> show sel cartoons
> show sel cartoons
> show sel cartoons
> show sel cartoons
> show sel cartoons
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r1.pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r1.pdb
---
warnings | Ignored bad PDB record found on line 58
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 59
MOLPROBITY STATISTICS.
Chain information for isolde_r1.pdb #1
---
Chain | Description
J | No description available
> show sel atoms
> hide #1 models
Tugging of non-polar hydrogens is not enabled. Applying tug to the nearest
bonded heavy atom.
> volume #2.1.1.1 level 5.852
> volume #2.1.1.1 level 7.043
Tugging of non-polar hydrogens is not enabled. Applying tug to the nearest
bonded heavy atom.
Tugging of non-polar hydrogens is not enabled. Applying tug to the nearest
bonded heavy atom.
> volume #2.1.1.1 level 7.226
> select #1
7927 atoms, 7951 bonds, 519 residues, 1 model selected
> ~select #1
Nothing selected
> select #1
7927 atoms, 7951 bonds, 519 residues, 1 model selected
> ~select #1
Nothing selected
> show #1 models
> volume #2.1.1.1 level 5.394
> volume #2.1.1.1 level 6.768
> hide #1 models
> close #1
> select #2.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax/lib/python3.7/site-
packages/chimerax/core/triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/delayed_reaction.py", line 80, in callback
self.ff(*self.ff_args)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1673, in
_update_coordinates_and_repeat
self.atoms.coords = th.coords
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 305, in coords
f(self._c_pointer, n, pointer(coords))
RuntimeError: Release Object
Error processing trigger "new frame":
RuntimeError: Release Object
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 305, in coords
f(self._c_pointer, n, pointer(coords))
See log for complete Python traceback.
Traceback (most recent call last):
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/isolde.py", line 2709, in _start_sim_or_toggle_pause
self.pause_sim_toggle()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/isolde.py", line 2955, in pause_sim_toggle
self.sim_manager.toggle_pause()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 720, in
toggle_pause
self.pause = not self.pause
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 699, in pause
self.sim_handler.pause = flag
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1771, in pause
self._resume()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1663, in _resume
self._repeat_step()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1654, in
_repeat_step
th.thread_finished, self._update_coordinates_and_repeat, final_args)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/delayed_reaction.py", line 71, in delayed_reaction
initiator_func(*initiator_args)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 165, in step
f(self._c_pointer, steps, self._smoothing)
RuntimeError: Release Object
RuntimeError: Release Object
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 165, in step
f(self._c_pointer, steps, self._smoothing)
See log for complete Python traceback.
reverting to start
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax/lib/python3.7/site-
packages/chimerax/core/triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/delayed_reaction.py", line 80, in callback
self.ff(*self.ff_args)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1673, in
_update_coordinates_and_repeat
self.atoms.coords = th.coords
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 305, in coords
f(self._c_pointer, n, pointer(coords))
RuntimeError: Release Object
Error processing trigger "new frame":
RuntimeError: Release Object
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 305, in coords
f(self._c_pointer, n, pointer(coords))
See log for complete Python traceback.
Traceback (most recent call last):
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/isolde.py", line 2709, in _start_sim_or_toggle_pause
self.pause_sim_toggle()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/isolde.py", line 2955, in pause_sim_toggle
self.sim_manager.toggle_pause()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 720, in
toggle_pause
self.pause = not self.pause
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 699, in pause
self.sim_handler.pause = flag
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1771, in pause
self._resume()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1663, in _resume
self._repeat_step()
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1654, in
_repeat_step
th.thread_finished, self._update_coordinates_and_repeat, final_args)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/delayed_reaction.py", line 71, in delayed_reaction
initiator_func(*initiator_args)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 165, in step
f(self._c_pointer, steps, self._smoothing)
RuntimeError: Release Object
RuntimeError: Release Object
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 165, in step
f(self._c_pointer, steps, self._smoothing)
See log for complete Python traceback.
> select #2.3
1 model selected
> ~select #2.3
Nothing selected
> select #2.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
> volume #2.1.1.1 level 5.76
> volume #2.1.1.1 level 6.859
> select #2.3
1 model selected
> ~select #2.3
Nothing selected
> select #2.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 12 models selected
> save
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r4.pdb
> relModel #2.2
> close #2.2
Deleting atomic symmetry model...
Deleting atomic symmetry model...
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r4.pdb
Summary of feedback from opening
/media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/isolde_r4.pdb
---
warnings | Ignored bad PDB record found on line 59
DEVIATIONS FROM IDEAL VALUES.
Ignored bad PDB record found on line 60
MOLPROBITY STATISTICS.
Chain information for isolde_r4.pdb #1
---
Chain | Description
J | No description available
Deleting atomic symmetry model...
Chain information for isolde_r4.pdb
---
Chain | Description
1.2/J | No description available
> select #1.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 6 models selected
> hide #!2 models
> show #!2 models
> select #2
6 models selected
> close #2.1
Deleting atomic symmetry model...
> close #2
Deleting atomic symmetry model...
> open
> /media/yanyan/tricp53open/mmcpn_atp_AlFx_model_refinement/D9_reconstruction/J103_D9_reconstruction.mrc
> format mrc
Opened J103_D9_reconstruction.mrc, grid size 300,300,300, pixel 1.08, shown at
level 8.16, step 2, values float32
> select #1.2
7839 atoms, 7861 bonds, 1 pseudobond, 513 residues, 6 models selected
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax/lib/python3.7/site-
packages/chimerax/core/triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/delayed_reaction.py", line 80, in callback
self.ff(*self.ff_args)
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 1673, in
_update_coordinates_and_repeat
self.atoms.coords = th.coords
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 305, in coords
f(self._c_pointer, n, pointer(coords))
RuntimeError: Release Object
Error processing trigger "new frame":
RuntimeError: Release Object
File "/home/yanyan/.local/share/ChimeraX/1.1/site-
packages/chimerax/isolde/openmm/openmm_interface.py", line 305, in coords
f(self._c_pointer, n, pointer(coords))
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 470.223.02
OpenGL renderer: NVIDIA GeForce GTX 1080/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: ASUS
Model: All Series
OS: Ubuntu 20.04 focal
Architecture: 64bit ELF
CPU: 16 Intel(R) Core(TM) i7-6900K CPU @ 3.20GHz
Cache Size: 20480 KB
Memory:
total used free shared buff/cache available
Mem: 62Gi 8.1Gi 43Gi 737Mi 10Gi 53Gi
Swap: 47Gi 0B 47Gi
Graphics:
05:00.0 VGA compatible controller [0300]: NVIDIA Corporation GP104 [GeForce GTX 1080] [10de:1b80] (rev a1)
Subsystem: PNY GP104 [GeForce GTX 1080] [196e:119e]
Kernel driver in use: nvidia
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.9
Installed Packages:
ahds: 0.2.3
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.8.0
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2020.6.20
chardet: 3.0.4
ChimeraX-AddH: 2.1.3
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.1
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.6.1
ChimeraX-AtomSearch: 2.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 1.0.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.0
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.0
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.1
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.0
ChimeraX-Clipper: 0.15.0
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-CommandLine: 1.1.3
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.1
ChimeraX-CoreFormats: 1.0
ChimeraX-coulombic: 1.0.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-DataFormats: 1.0
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.0
ChimeraX-Hbonds: 2.0
ChimeraX-Help: 1.0
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.0
ChimeraX-ImageFormats: 1.0
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0
ChimeraX-ISOLDE: 1.1.0
ChimeraX-Label: 1.0
ChimeraX-LinuxSupport: 1.0
ChimeraX-ListInfo: 1.0
ChimeraX-Log: 1.1.1
ChimeraX-LookingGlass: 1.1
ChimeraX-Map: 1.0.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.0
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 1.1
ChimeraX-MDcrds: 2.0
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.0
ChimeraX-mmCIF: 2.2
ChimeraX-MMTF: 2.0
ChimeraX-Modeller: 1.0
ChimeraX-ModelPanel: 1.0
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.0
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0
ChimeraX-OpenCommand: 1.2.1
ChimeraX-PDB: 2.1
ChimeraX-PDBBio: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0
ChimeraX-PubChem: 2.0
ChimeraX-Read-Pbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.0
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.2
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SeqView: 2.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.0
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.0
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.0.4
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.0
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.0
ChimeraX-ToolshedUtils: 1.0
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.2.3
ChimeraX-uniprot: 2.0
ChimeraX-ViewDockX: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.3
comtypes: 1.1.7
cxservices: 1.0
cycler: 0.10.0
Cython: 0.29.20
decorator: 4.4.2
distlib: 0.3.1
distro: 1.5.0
docutils: 0.16
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 2.10.0
html2text: 2020.1.16
idna: 2.10
ihm: 0.16
imagecodecs: 2020.5.30
imagecodecs-lite: 2020.1.31
imageio: 2.16.1
imagesize: 1.2.0
ipykernel: 5.3.0
ipython: 7.15.0
ipython-genutils: 0.2.0
jedi: 0.17.2
Jinja2: 2.11.2
jupyter-client: 6.1.3
jupyter-core: 4.6.3
kiwisolver: 1.2.0
line-profiler: 2.1.2
lxml: 4.5.1
MarkupSafe: 1.1.1
matplotlib: 3.2.1
msgpack: 1.0.0
netifaces: 0.10.9
networkx: 2.4
numexpr: 2.7.1
numpy: 1.21.5
numpydoc: 1.0.0
openvr: 1.12.501
packaging: 20.4
parso: 0.7.1
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.0.1
pip: 20.2.2
pkginfo: 1.5.0.1
prompt-toolkit: 3.0.7
psutil: 5.7.0
ptyprocess: 0.6.0
pycollada: 0.7.1
pydicom: 2.0.0
Pygments: 2.6.1
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.12.3
PyQt5-sip: 4.19.19
PyQtWebEngine-commercial: 5.12.1
python-dateutil: 2.8.1
pytz: 2020.1
PyWavelets: 1.3.0
pyzmq: 19.0.2
qtconsole: 4.7.4
QtPy: 1.9.0
RandomWords: 0.3.0
requests: 2.24.0
scikit-image: 0.19.2
scipy: 1.4.1
setuptools: 49.4.0
sfftk-rw: 0.6.6.dev0
SimpleParse: 2.2.2
six: 1.15.0
snowballstemmer: 2.0.0
sortedcontainers: 2.2.2
Sphinx: 3.1.1
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 1.0.3
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.4
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2020.6.3
tinyarray: 1.2.2
tornado: 6.0.4
traitlets: 5.0.4
urllib3: 1.25.10
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.34.2
Change History (2)
comment:1 by , 2 years ago
| Component: | Unassigned → Third Party |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → ISOLDE: RuntimeError: Release Object |
comment:2 by , 2 years ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
Note:
See TracTickets
for help on using tickets.
Duplicate of #10177