[gmx-users] Alternative for do_dssp for secondary structure analysis?

2018-01-25 Thread ZHANG Cheng 
Dear Gromacs,
Can I ask if there is an alternative to do_dssp for secondary structure 
analysis?


I am waiting for our IT staff to install the DSSP on our cluster. But there was 
some errors.
https://github.com/UCL-RITS/rcps-buildscripts/issues/137


While still waiting for that, can I ask if Gromacs has other tools (e.g. 
STRIDE) for secondary structure analysis?


Now I am using the VMD-Timeline tool, which uses the STRIDE
http://webclu.bio.wzw.tum.de/stride/


Thank you.


Yours sincerely
Cheng
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Re: [gmx-users] Alternative for do_dssp for secondary structure analysis?

2018-01-25 Thread Justin Lemkul 



On 1/25/18 10:54 AM, ZHANG Cheng wrote:

Dear Gromacs,
Can I ask if there is an alternative to do_dssp for secondary structure 
analysis?


I am waiting for our IT staff to install the DSSP on our cluster. But there was 
some errors.
https://github.com/UCL-RITS/rcps-buildscripts/issues/137



Normally, users can install anything they like in their home 
directories. Then just set the DSSP environment variable to point to the 
binary.



While still waiting for that, can I ask if Gromacs has other tools (e.g. 
STRIDE) for secondary structure analysis?


It does not.

-Justin

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Justin A. Lemkul, Ph.D.
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Virginia Tech Department of Biochemistry

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