angle command

[enricogandini93@…]

The following bug report has been submitted:
Platform:        Linux-4.15.0-144-generic-x86_64-with-debian-buster-sid
ChimeraX Version: 1.0 (2020-06-04 23:15:07 UTC)
Description
I am not able to use `angle` command. There is no help available for `angle` command, and I am not able to use the command. Similar commands `distance` and `torsion` work just fine!

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
> /home/enrico/shared_virtualbox/phd_projects_Enrico_Gandini/pls_activities/chimica_al_pc_2021/tubulin/1jff.pdb
> format pdb

1jff.pdb title:  
Refined structure of α-β tubulin from zinc-induced sheets stabilized with
taxol [more info...]  
  
Chain information for 1jff.pdb #1  
---  
Chain | Description  
A | tubulin α chain  
B | tubulin β chain  
  
Non-standard residues in 1jff.pdb #1  
---  
GDP — guanosine-5'-diphosphate  
GTP — guanosine-5'-triphosphate  
MG — magnesium ion  
TA1 — TAXOL  
ZN — zinc ion  
  

> select /A:71@OE1

1 atom, 1 model selected  

> select /A:71@CD

1 atom, 1 model selected  

> select /A:71@OE2

1 atom, 1 model selected  

> help angle

No help found for 'angle'  

> angle /A:71@OE1 /A:71@CD /A:71@OE2

Unknown command: angle /A:71@OE1 /A:71@CD /A:71@OE2  




OpenGL version: 4.6 (Core Profile) Mesa 20.0.8
OpenGL renderer: Mesa DRI Intel(R) HD Graphics 620 (KBL GT2)
OpenGL vendor: Intel Open Source Technology Center
Manufacturer: Acer
Model: Aspire E5-575G
OS: Ubuntu 18.04 bionic
Architecture: 64bit ELF
CPU: 4 Intel(R) Core(TM) i7-7500U CPU @ 2.70GHz
Cache Size: 4096 KB
Memory:
	              total        used        free      shared  buff/cache   available
	Mem:            15G        4.5G        5.9G        996M        5.1G        9.8G
	Swap:          2.0G          0B        2.0G

Graphics:
	00:02.0 VGA compatible controller [0300]: Intel Corporation HD Graphics 620 [8086:5916] (rev 02)	
	Subsystem: Acer Incorporated [ALI] HD Graphics 620 [1025:1094]	
	Kernel driver in use: i915
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.8

[pett]

Hi Enrico,

The 'angle' command is only available in ChimeraX 1.2 or newer, and you're running 1.0, so if you upgrade then everything should be fine.

--Eric

Eric Pettersen
UCSF Computer Graphics Lab

[enricogandini93@…]

Thank you! I am sorry, I didn't know that my ChimeraX installation was not
up to date.

Il giorno mer 23 giu 2021 alle ore 17:51 ChimeraX <
ChimeraX-bugs-admin@cgl.ucsf.edu> ha scritto:

[pett]

No problem, there's no particular reason you would know -- though it's a bit of mystery to me how you would know about an 'angle' command that doesn't exist in the version you have!

Also, are you really typing "angle /A:71@OE1 /A:71@CD /A:71@OE2"? You can make that shorter: " angle /A:71@oe1,cd,oe2" and you only have to capitalize the chain ID if there are both chains 'A' and 'a' in your structure.

[enricogandini93@…]

Thank you for the information!

I am new to ChimeraX, I wanted to measure angles, and in the online
documentation I discovered the `angle` command, but to my surprise it was
not available, even though other similar commands were.

Yes, I will learn the shorter selection syntax in ChimeraX.

Il giorno mer 23 giu 2021 alle ore 19:54 ChimeraX <
ChimeraX-bugs-admin@cgl.ucsf.edu> ha scritto: