Hi Chen and Billy,


Thank you, the problem has been alleviated!


Best wishes,
Reza


Reza Khayat, PhD
Assistant Professor 
City College of New York
Department of Chemistry
New York, NY 10031
From: Chen Zhao <[email protected]>
Sent: Wednesday, November 23, 2016 10:48 AM
To: Reza Khayat
Cc: Billy Poon; [email protected]
Subject: Re: [phenixbb] Crashing Phenix
 
Hi Reza,

Actually Billy helped me solve this problem before. (Below is his previous reply) You just need to enable en_GB for the system. To do so,

1) As root, open /etc/locale.gen and uncomment the entries with en_GB. On my fresh install, I uncommented 3 entries, en_GB.ISO-8859-1, en_GB.ISO-8859-15 ISO-8859-16, and en_GB.UTF-8 UTF-8.
2) Again as root, rebuild the locales with "locale-gen"
3) Try running the Phenix GUI normally.

Good luck,
Chen

On Wed, Nov 23, 2016 at 10:44 AM, Reza Khayat <[email protected]> wrote:

Hi Billy,


CentOS 6 installer is giving me the same error. I've got the CLI version running, which is what I prefer. Nonetheless I'd like to get the GUI working as well.


Best wishes,

Reza


Reza Khayat, PhD
Assistant Professor 
City College of New York
Department of Chemistry
New York, NY 10031
From: Billy Poon <[email protected]>
Sent: Wednesday, November 23, 2016 10:40 AM

To: Reza Khayat
Cc: [email protected]
Subject: Re: [phenixbb] Crashing Phenix
 
Hi Reza,

For Debian/Ubuntu, please try the CentOS 6 installer. That is more compatible with more recent linux distributions.

--
Billy K. Poon
Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
1 Cyclotron Road, M/S 33R0345
Berkeley, CA 94720

On Tue, Nov 22, 2016 at 6:07 PM, Reza Khayat <[email protected]> wrote:

​Debian 8 (jessie)



Reza Khayat, PhD
Assistant Professor 
City College of New York
Department of Chemistry
New York, NY 10031
From: Billy Poon <[email protected]>
Sent: Tuesday, November 22, 2016 6:04 PM

To: Reza Khayat
Cc: [email protected]
Subject: Re: [phenixbb] Crashing Phenix
 
Hi Reza,

What is the linux distribution and version that you are using?

--
Billy K. Poon
Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
1 Cyclotron Road, M/S 33R0345
Berkeley, CA 94720

On Tue, Nov 22, 2016 at 5:22 PM, Reza Khayat <[email protected]> wrote:

Hi,


Typing locale generates:

LANG=en_US.UTF-8

...

LC_ALL=


Running

sudo locale-gen "en_US.UTF-8"

does not change anything


modifying /etc/environment to include

LC_ALL=en_US.UTF-8
LANG=en_US.UTF-8​

Then Running locale indicates that LC_ALL=en_US.UTF-8. However, the problem persists. 


Reza



Reza Khayat, PhD
Assistant Professor 
City College of New York
Department of Chemistry
New York, NY 10031
From: Billy Poon <[email protected]>
Sent: Tuesday, November 22, 2016 4:57 PM
To: Reza Khayat
Cc: [email protected]
Subject: Re: [phenixbb] Crashing Phenix
 
Hi Reza,

Do you have the LANG or LC_ALL environment variables set? If you have LANG can you try setting LC_ALL to the same value? Also, make sure that there is a "UTF-8" somewhere. So for English (U.S.), LC_ALL should be set to en_US.UTF-8.

--
Billy K. Poon
Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
1 Cyclotron Road, M/S 33R0345
Berkeley, CA 94720

On Tue, Nov 22, 2016 at 3:38 PM, Reza Khayat <[email protected]> wrote:

Hi,


I recently installed phenix-1.11.1-2575 (CentOS 5 flavor) and am getting the following crashes when trying to launch the GUI.

15:31:23: Cannot set locale to language "English".
15:31:23: locale 'en_GB' cannot be set.

phenix-1.10.1-2155 (on the same system) also gives me a locale 'en_GB' error but the GUI launches and I can run programs.


Any suggestions on how to fix this problem? Thanks.


Best wishes,
Reza


Reza Khayat, PhD
Assistant Professor 
City College of New York
Department of Chemistry
New York, NY 10031
From: phenixbb-bounces@phenix-online.org <phenixbb-bounces@phenix-online.org> on behalf of Pavel Afonine <[email protected]>
Sent: Wednesday, August 3, 2016 7:39 AM
To: [email protected]
Subject: Re: [phenixbb] Realspace refinement
 

Hi Reza,

yes, it does.

Pavel

On 8/1/16 04:16, Reza Khayat wrote:

Hi,

 

Does realspace refinement consider temperature factors during refinement? Thanks.

 

Best wishes,
Reza

 

Reza Khayat, PhD

Assistant Professor

Department of Chemistry

City College of New York

85 Saint Nicholas Terrace, CDI 2.318

New York, NY 10031

http://www.khayatlab.org/

212-650-6070

 



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