Main / Action / Dssp gromacs
Name: Dssp gromacs
File size: 430mb
If this is not the case, then you should set an environment variable DSSP pointing to the dssp executable, e.g.: If you have an older version of dssp, use the -ver option to direct do_dssp to use the older syntax. 3dhobbymag.com 27 Mar There is some information about DSSP on Wikipedia. Information on the official implementations, and a copy of the original paper can be found. Try running dssp directly. See if it runs properly. If not, there may be a problem in your installation. If it works fine, could be a bug in gromacs. In that case report.
Hello. I need some help. I try to install dssp by following the instruction in the above website. But, it didn't work. The error is that: When I try to run the command . Can anybody please let me know the step by step to install DSSP in CentOS. . How can I find which dssp version works with gromacs version?. I have downloaded 3dhobbymag.com file from 3dhobbymag.com and bopied So, you have to rename '3dhobbymag.com' to 'dssp' because GROMACS detects by.
Version requires an old version of DSSP that is no longer available (or is otherwise very hard to find). Upgrade to a new Gromacs version for analysis, one . It is also possible to generate a plot of the secondary structure per residue versus time using Gromacs. You first need to make sure that the program DSSP is. 16 May [gmx-users] DSSP configuration in Gromacs Krieger at 3dhobbymag.com> / April 1, > USAGE > dssp [Options] PDB_File DSSP_File. Analysis of a gromacs simulation For this we will use the gromacs. trajectory First, we need to tell gromacs where the DSSP program for secondary structure. Since we also have empty lines in the dssp output (temp) file,. * and some line content is saved to the ssbuf variable,. * we need more memory than just nres.