<div> </div><div>Hi all,</div><div> </div><div>I downloaded the original form of DSSP which is recently called DSSPold. Whenever I use the following:</div><div> </div><div><font size="3" face="Times New Roman">
</font><p style="margin:0cm 0cm 10pt 54pt" class="MsoListParagraph"><b style><span style lang="EN-US"><font size="3"><font face="Calibri">do_dssp -s topol.tpr -f t raj.xtc -o ss.xpm </font></font></span></b></p><font size="3" face="Times New Roman">
</font></div><div>It selects "Protein" by it-self without any control from me. I want to choose from the list, for example not protein but C-alpha.</div><div> </div><div>To solve this probIem, I prepared the index file which includes only C-alphas of my system. Then, I use the following:</div>
<div> </div><div> <strong>do_dssp -s topol.tpr -f traj.xtc -n C_alpha.ndx</strong></div><div> </div><div> I get the below fatal error:</div><div> </div><div>Program do_dssp, VERSION 4.5.4<br>Source code file: do_dssp.c, line: 566</div>
<div>Fatal error:<br>Failed to execute command: /home_palamut2/mguler/dssp/dsspcmbi -na ddcblxTU ddq8aNVV > /dev/null 2> /dev/null<br>For more information and tips for troubleshooting, please check the GROMACS<br>website at <a href="http://www.gromacs.org/Documentation/Errors">http://www.gromacs.org/Documentation/Errors</a></div>
<div> </div><div>Are there any suggestions or corrections? Thanks in advance..</div><div> </div><div>Turgay<br></div><div> </div>