Error initializing context: clCreateContext

[352884536@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19041
ChimeraX Version: 1.0 (2020-06-04 23:15:07 UTC)
Description
(Describe the actions that caused this problem to occur here)

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 "E:/D1R LE300/PF/postprocess.mrc"

Opened postprocess.mrc, grid size 256,256,256, pixel 0.824, shown at level
0.0145, step 1, values float32  

> open "E:/D1R LE300/PF/D1R-all.pdb"

Summary of feedback from opening E:/D1R LE300/PF/D1R-all.pdb  
---  
warning | Ignored bad PDB record found on line 13065  
END  
  
Chain information for D1R-all.pdb #2  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
D | No description available  
E | No description available  
  

> show cartoons

> show atoms

> style stick

Changed 12940 atom styles  

> hide #!1 models

> select :0@C02

1 atom, 1 model selected  

> select up

27 atoms, 31 bonds, 1 model selected  

> select up

12940 atoms, 13177 bonds, 1 model selected  

> select down

27 atoms, 31 bonds, 1 model selected  

> delete sel

> addh

Summary of feedback from adding hydrogens to D1R-all.pdb #2  
---  
warnings | Not adding hydrogens to /B HIS 476 CB because it is missing heavy-
atom bond partners  
Not adding hydrogens to /B HIS 477 CB because it is missing heavy-atom bond
partners  
notes | No usable SEQRES records for D1R-all.pdb (#2) chain A; guessing
termini instead  
No usable SEQRES records for D1R-all.pdb (#2) chain B; guessing termini
instead  
No usable SEQRES records for D1R-all.pdb (#2) chain C; guessing termini
instead  
No usable SEQRES records for D1R-all.pdb (#2) chain D; guessing termini
instead  
No usable SEQRES records for D1R-all.pdb (#2) chain E; guessing termini
instead  
Chain-initial residues that are actual N termini: /A LEU 28, /B GLN 353, /C
SER 11  
Chain-initial residues that are not actual N termini: /C ASP 174, /C PHE 254,
/C PHE 296, /D ASP 20, /E MET 23  
Chain-final residues that are actual C termini: /B HIS 477  
Chain-final residues that are not actual C termini: /A PRO 428, /C ARG 339, /C
LYS 157, /C ALA 228, /C CYS 288, /D PRO 242, /E GLU 238  
1149 hydrogen bonds  
Adding 'H' to /C ASP 174  
Adding 'H' to /C PHE 254  
Adding 'H' to /C PHE 296  
/A PRO 428 is not terminus, removing H atom from 'C'  
/C ARG 339 is not terminus, removing H atom from 'C'  
/C LYS 157 is not terminus, removing H atom from 'C'  
/C ALA 228 is not terminus, removing H atom from 'C'  
/C CYS 288 is not terminus, removing H atom from 'C'  
2 messages similar to the above omitted  
6332 hydrogens added  
  

> clipper associate #1 toModel #2

Chain information for D1R-all.pdb  
---  
Chain | Description  
1.2/A | No description available  
1.2/B | No description available  
1.2/C | No description available  
1.2/D | No description available  
1.2/E | No description available  
  

> isolde start

> set selectionWidth 4

Done loading forcefield  

> clipper spotlight radius 120.00

> clipper spotlight radius 120.00

> isolde start

> set bgColor white

Traceback (most recent call last):  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-
packages\chimerax\core\triggerset.py", line 130, in invoke  
return self._func(self._name, data)  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-packages\chimerax\map\volume.py",
line 3947, in _update_drawings  
v.update_drawings()  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-packages\chimerax\map\volume.py",
line 740, in update_drawings  
self._update_surfaces()  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-packages\chimerax\map\volume.py",
line 763, in _update_surfaces  
s.update_surface(ro)  
File "C:\Users\Admin\AppData\Local\UCSF\ChimeraX\1.0\site-
packages\chimerax\clipper\maps\map_handler_base.py", line 195, in
update_surface  
sct.start_compute, (numpy.asfortranarray(v.matrix()), level, det,
vertex_transform.matrix, normal_transform.matrix, False, True),  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-packages\numpy\core\\_asarray.py",
line 220, in asfortranarray  
return array(a, dtype, copy=False, order='F', ndmin=1)  
MemoryError: Unable to allocate 64.0 MiB for an array with shape (256, 256,
256) and data type float32  
  
Error processing trigger "graphics update":  
MemoryError: Unable to allocate 64.0 MiB for an array with shape (256, 256,
256) and data type float32  
  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-packages\numpy\core\\_asarray.py",
line 220, in asfortranarray  
return array(a, dtype, copy=False, order='F', ndmin=1)  
  
See log for complete Python traceback.  
  

> select up

22 atoms, 21 bonds, 1 model selected  

> select up

226 atoms, 226 bonds, 1 model selected  

> select up

6212 atoms, 6287 bonds, 1 model selected  
Traceback (most recent call last):  
File "C:\Users\Admin\AppData\Local\UCSF\ChimeraX\1.0\site-
packages\chimerax\isolde\isolde.py", line 2735, in _start_sim_or_toggle_pause  
self.start_sim()  
File "C:\Users\Admin\AppData\Local\UCSF\ChimeraX\1.0\site-
packages\chimerax\isolde\isolde.py", line 2774, in start_sim  
sm.start_sim()  
File "C:\Users\Admin\AppData\Local\UCSF\ChimeraX\1.0\site-
packages\chimerax\isolde\openmm\openmm_interface.py", line 670, in start_sim  
sh.start_sim()  
File "C:\Users\Admin\AppData\Local\UCSF\ChimeraX\1.0\site-
packages\chimerax\isolde\openmm\openmm_interface.py", line 1597, in start_sim  
self._prepare_sim()  
File "C:\Users\Admin\AppData\Local\UCSF\ChimeraX\1.0\site-
packages\chimerax\isolde\openmm\openmm_interface.py", line 1558, in
_prepare_sim  
integrator, platform, properties)  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-
packages\simtk\openmm\app\simulation.py", line 105, in __init__  
self.context = mm.Context(self.system, self.integrator, platform,
platformProperties)  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-packages\simtk\openmm\openmm.py",
line 6270, in __init__  
this = _openmm.new_Context(*args)  
Exception: Error initializing context: clCreateContext (-6)  
  
Exception: Error initializing context: clCreateContext (-6)  
  
File "D:\chimeraX\ChimeraX 1.0\bin\lib\site-packages\simtk\openmm\openmm.py",
line 6270, in __init__  
this = _openmm.new_Context(*args)  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 456.71
OpenGL renderer: GeForce GTX 1650 SUPER/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: IPASON
Model:  
OS: Microsoft Windows 10 家庭中文版 (Build 19044)
Memory: 17,130,639,360
MaxProcessMemory: 137,438,953,344
CPU: 6 AMD Ryzen 5 3500X 6-Core Processor             "
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.8

[pett]

ChimeraX 1.0

[Tristan Croll]

As for #6955, looks like you're out of memory (-6 is CL_OUT_OF_HOST_MEMORY).