I have used do_dssp program to analyze secondary structure during simulation of DMPC/DMPE. But I am not clear on installation of dssp.
The program seems to work, I have set all the environmental variables so that dssp binary is seen in /home/DSSP directory, but I am not sure if I need to download the database of dssp files from the internet to make this program work. There are 14 residues in your selected group Opening library file /usr/local/gromacs/share/gromacs/top/ss.map trn version: GMX_trn_file (single precision) Reading frame 0 time 52.000 Back Off! I just backed up ddoSxMLN to ./#ddoSxMLN.1# Last frame 0 time 52.000 100% And I get ss.xps file that when I open it in image viewer is just a blue line. How should I properly setup the program and whether it will give me %alpha helicity over the course of the trajectory, thank you
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