[phenixbb] unable to run coot

Dorothee Liebschner dcliebschner at lbl.gov
Thu Feb 11 19:15:27 PST 2021


Did you set the path to Coot in the Phenix preferences?

Also, check some info here:


On Thu, Feb 11, 2021 at 3:40 PM Badmalia, Maulik <maulik.badmalia at uleth.ca>

> hello team phenix,
> I hope this email finds you well.
> I recently downloaded phenix for analysing our cryoEM data, before moving
> to the data analysis I decided to try the tutorial. I decided to use the
> autosharpen option first, I was able to access the tutorial but when I
> clicked on coot I repeatedly got a message saying that "Sorry: the 'coot'
> command could not be located.
> We have installed Coot to run on a CentOS platform and has the latest
> version of Coot on the system. I am a novice with linux and phenix. So any
> help in this regard would be highly appreciated. Do let me know if you have
> any questions.
> Regards,
> Maulik
> *Maulik D. Badmalia*
> *Postdoctoral Researcher*
> *Laboratory of Medicinal Biophysics*
> *Alberta RNA Research and Training Institute*
> *Dept. of Chemistry & Biochemistry*
> *University of Lethbridge, Lethbridge, AB, Canada*
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Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
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Tel: (510) 486-5709
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