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Small Angle X-ray Scattering Initiative for Europe :: Forum
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PostPosted: 2017.03.12 06:40 
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Joined: 2010.09.09 19:35
Posts: 8
Location: University of Missouri-Columbia, Columbia, MO, USA
I installed the SASpy plugin from /Applications/ATSAS/share/pymolplugin/saspy.py but when I try to use the plugin, PyMOL says

ERROR
ATSAS executables not found in PATH
Please install ATSAS

I'm running PyMOL 1.8.4.2 - Incentive Product with XQuartz 2.7.11 (xorg-server 1.18.4) on Yosemite 10.10.5.

The ATSAS executables are in /Applications/ATSAS/bin/.

The PATH contains ATSAS binaries directory:

Administrators-MacBook-Air-4:SAXS tannerjj$ echo "$PATH"
/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin:/Applications/ATSAS/bin
Administrators-MacBook-Air-4:SAXS tannerjj$

Thanks,

Jack Tanner


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PostPosted: 2017.03.14 10:03 
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Joined: 2014.03.05 17:56
Posts: 38
Dear Jack,

it this Pymol Incentive version opened from the terminal or by double-clicking an application icon?

I guess you need to edit your pymolrc file (if not there, create it at ~/.pymolrc) by adding the following line:
os.environ["PATH"] += os.pathsep + "/xxx/yyy/bin:"
where /xxx/yyy is the path to the local ATSAS installation.

Restart Pymol and it should work.
If not, please install the open source version of Pymol and run it from the terminal.
You can get it by simply installing homebrew and typing:
brew install homebrew/science/pymol

Please let me know how it goes,

sasha


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