id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
2445	Undesirable center of rotation	satyshur@…	Tristan Croll	"{{{
The following bug report has been submitted:
Platform:        Linux-3.10.0-1062.1.1.el7.x86_64-x86_64-with-redhat-7.7-Maipo
ChimeraX Version: 0.91 (2019-09-26)
Description
camera stereo
camera mono
camera stereo

Also, center of rotation in 3D is on the electron density and not the molceule so density is lost and molecule rotates out of view.

Log:
Startup Messages  
---  
warnings | 'clip' is a prefix of an existing command 'clipper'  
'rota' is a prefix of an existing command 'rotamers'  
  
UCSF ChimeraX version: 0.91 (2019-09-26)  
© 2016-2019 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 6d52 structureFactors true

Summary of feedback from opening 6d52 fetched from pdb  
---  
warnings | Atom H1 is not in the residue template for GLU #1 in chain B  
Atom H1 is not in the residue template for GLU #1 in chain D  
Atom H1 is not in the residue template for GLU #1 in chain C  
Atom H1 is not in the residue template for GLU #1 in chain A  
notes | Resolution: 1.4280533552397077  
Reflection data provided as intensities. Performing French & Wilson scaling to
convert to amplitudes...  
  
6d52 title:  
Superoxide dismutase SodCI of Salmonella enterica serovar Typhimurium at 1.6
Angstrom resolution [more info...]  
  
Chain information for 6d52  
---  
Chain | Description  
1.3/A 1.3/B 1.3/C 1.3/D | Superoxide dismutase [Cu-Zn] 1  
  
Non-standard residues in 6d52 #1.3  
---  
CU — copper (II) ion  
ZN — zinc ion  
  
6d52 mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
  
  

> set bgColor white

> hide #!1.2 models

> hide #!1.3 models

> show #!1.3 models

> ui mousemode rightMode clip

> ui mousemode rightMode ""clip rotate""

> camera stereo

> camera mono

> camera stereo

An error occurred in drawing the scene. Redrawing graphics is now stopped to
avoid a continuous stream of error messages. To restart graphics use the
command ""graphics restart"" after changing the settings that caused the error.  
  
Traceback (most recent call last):  
File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/chimerax/core/updateloop.py"", line 73, in draw_new_frame  
view.draw(check_for_changes = False)  
File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/chimerax/core/graphics/view.py"", line 166, in draw  
self._draw_scene(camera, drawings)  
File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/chimerax/core/graphics/view.py"", line 205, in _draw_scene  
camera.set_render_target(vnum, r)  
File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/chimerax/core/graphics/camera.py"", line 422, in set_render_target  
render.set_stereo_buffer(view_num)  
File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/chimerax/core/graphics/opengl.py"", line 1171, in set_stereo_buffer  
GL.glDrawBuffer(b)  
File ""src/errorchecker.pyx"", line 53, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
OpenGL.error.GLError: GLError(  
err = 1282,  
description = b'invalid operation',  
baseOperation = glDrawBuffer,  
cArguments = (GL_BACK_RIGHT,)  
)  
  




OpenGL version: 3.3.0 NVIDIA 340.107
OpenGL renderer: Quadro FX 4800/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

}}}
"	defect	closed	normal		Graphics		fixed		Tom Goddard				all	ChimeraX