The issue I mentioned was with dssp-2.1.0. I changed to 2.0.1 and it works fine. However, when converting the xpm to eps I get I plot very small, where one barely can see the colour code and the legend is sooo big. Does anyone know how to change that?
2013/3/1 Erik Marklund <er...@xray.bmc.uu.se> > What happens if you execute the command (/usr/local/bin/dssp/ -i ddQ3PqtX > -o ddR1HavD) in your terminal? > > > Erik > > On Mar 1, 2013, at 1:06 PM, Miguel Ángel Mompeán García wrote: > > I am using gromacs 4.6 and dssp-2.1.0 and I am getting that error you got: >> >> dssp cmd='/usr/local/bin/dssp/ -i ddQ3PqtX -o ddR1HavD > /dev/null 2> >> /dev/null' >> Reading frame 0 time 0.000 >> Back Off! I just backed up ddQ3PqtX to ./#ddQ3PqtX.1# >> >> ------------------------------**------------------------- >> Program do_dssp, VERSION 4.6 >> Source code file: /usr/local/bin/gromacs-4.6/**src/tools/gmx_do_dssp.c, >> line: >> 667 >> >> Fatal error: >> Failed to execute command: Try specifying your dssp version with the -ver >> option. >> >> How can I fix that? >> >> Thanks >> >> >> >> >> >> >> >> 2013/1/15 James Starlight <jmsstarli...@gmail.com> >> >> Justin, thanks both options works perfect. >>> >>> >>> James >>> >>> 2013/1/15 Justin Lemkul <jalem...@vt.edu>: >>> >>>> >>>> >>>> On 1/15/13 7:13 AM, James Starlight wrote: >>>> >>>>> >>>>> Justin, >>>>> >>>>> >>>>> I want to obtain timescale on X as well as number of residues on Y >>>>> on the xmp graph . By default that graph has not legend so it's hard >>>>> to analyse it . >>>>> >>>>> >>>> The legends are printed in the .xvg header. I've never had a problem >>>> plotting its contents (though they are usually somewhat unclear when >>>> >>> plotted >>> >>>> together) with xmgrace -nxy scount.xvg >>>> >>>> >>>> By the way have you forced with some problems with dppc ? Simetimes >>>>> I've obtain error like >>>>> >>>>> >>>>> There are 286 residues in your selected group >>>>> dssp cmd='/usr/local/bin/dssp -i dd42GVbd -o ddpu8ln2 > /dev/null 2> >>>>> /dev/null' >>>>> Reading frame 0 time 0.000 >>>>> Back Off! I just backed up dd42GVbd to ./#dd42GVbd.1 >>>>> >>>>> >>>>> Fatal error: >>>>> Failed to execute command: Try specifying your dssp version with the >>>>> -ver option. >>>>> >>>>> and I dont know how to fix it. >>>>> >>>>> I'm using gromacs-4.6-beta 3 with dssp 2.0.3 >>>>> >>>>> >>>> Since dssp changed its command line options, Gromacs had to adapt as >>>> >>> well. >>> >>>> The error tells you to use the -ver option; you should do so. Version 2 >>>> should be the default, so check to make sure you're actually using that >>>> version and not the old dssp. >>>> >>>> >>>> -Justin >>>> >>>> -- >>>> ==============================**========== >>>> >>>> Justin A. Lemkul, Ph.D. >>>> Research Scientist >>>> Department of Biochemistry >>>> Virginia Tech >>>> Blacksburg, VA >>>> jalemkul[at]vt.edu | (540) 231-9080 >>>> http://www.bevanlab.biochem.**vt.edu/Pages/Personal/justin<http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin> >>>> >>>> ==============================**========== >>>> -- >>>> gmx-users mailing list gmx-users@gromacs.org >>>> http://lists.gromacs.org/**mailman/listinfo/gmx-users<http://lists.gromacs.org/mailman/listinfo/gmx-users> >>>> * Please search the archive at >>>> http://www.gromacs.org/**Support/Mailing_Lists/Search<http://www.gromacs.org/Support/Mailing_Lists/Search>before >>>> posting! >>>> * Please don't post (un)subscribe requests to the list. 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