Hi,
That shouldn't happen since cpptraj removes whitespace from input commands.
Are you enclosing your input commands in quotes or something?
-Dan
On Monday, March 16, 2015, Vijay Achari <glycoamber.gmail.com> wrote:
> There was a space after "z", as below:
> [vector v1 principal z ]
>
> This should be
>
> [vector v1 principal z]
>
> Regards
>
>
>
>
>
> On Fri, Mar 13, 2015 at 11:40 AM, Vijay Achari <glycoamber.gmail.com
> <javascript:;>> wrote:
>
> > OK,
> >
> > Let me update the cpptraj and test it again.
> > Vj
> >
> > On Fri, Mar 13, 2015 at 11:15 AM, Daniel Roe <daniel.r.roe.gmail.com
> <javascript:;>>
> > wrote:
> >
> >> On Thu, Mar 12, 2015 at 7:24 PM, Vijay Achari <glycoamber.gmail.com
> <javascript:;>>
> >> wrote:
> >> > [vector v1 principal z ]
> >> > VECTOR: Type Principal X, mask [*]
> >> > Error: [vector] Not all arguments handled: [ z ]
> >>
> >> That's weird - when I run the same command I get:
> >>
> >> > vector v1 principal z
> >> VECTOR: Type Principal Z, mask [*]
> >>
> >> I notice that your CPPTRAJ is a bit out of date. Try updating to the
> >> latest version (14.25) and see if that helps. Also make sure all of
> >> your cpptraj test cases are passing.
> >>
> >> -Dan
> >>
> >> > 1 errors encountered reading input.
> >> > TIME: Total execution time: 0.0568 seconds.
> >> >
> >> > vijay.micelle
> >>
> :~/Simulation/chapter6-lyo-paper3-Vj/lyo-Analysis2/struc-10-tail-to-Z-angle-distribution/Chain-Angle-distribution-betaLyo25perR$
> >> >
> >> >
> >> > Thank you.
> >> >
> >> > On Thu, Mar 12, 2015 at 11:20 PM, Daniel Roe <daniel.r.roe.gmail.com
> <javascript:;>>
> >> wrote:
> >> >
> >> >> Hi,
> >> >>
> >> >> On Thu, Mar 12, 2015 at 8:00 AM, Vijay Achari <glycoamber.gmail.com
> <javascript:;>>
> >> >> wrote:
> >> >> > *vector v1 principal z vector v2 :1.C50 :1.C80vectormath vec1
> v1
> >> >> vec2
> >> >> > v2 out vectorTimesdat name chainAngle dotangle*
> >> >> > But I get error.
> >> >>
> >> >> Your input is mangled - seems like your newlines are not making it to
> >> >> your email. Make sure you're sending everything in plain text mode.
> >> >> Also, don't just say you got an "error" - actually report the *exact*
> >> >> error message, otherwise our chances of effectively helping you are
> >> >> slim.
> >> >>
> >> >> -Dan
> >> >>
> >> >> --
> >> >> -------------------------
> >> >> Daniel R. Roe, PhD
> >> >> Department of Medicinal Chemistry
> >> >> University of Utah
> >> >> 30 South 2000 East, Room 307
> >> >> Salt Lake City, UT 84112-5820
> >> >> http://home.chpc.utah.edu/~cheatham/
> >> >> (801) 587-9652
> >> >> (801) 585-6208 (Fax)
> >> >>
> >> >> _______________________________________________
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> >> >>
> >> > _______________________________________________
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> >> > AMBER.ambermd.org <javascript:;>
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> >>
> >>
> >>
> >> --
> >> -------------------------
> >> Daniel R. Roe, PhD
> >> Department of Medicinal Chemistry
> >> University of Utah
> >> 30 South 2000 East, Room 307
> >> Salt Lake City, UT 84112-5820
> >> http://home.chpc.utah.edu/~cheatham/
> >> (801) 587-9652
> >> (801) 585-6208 (Fax)
> >>
> >> _______________________________________________
> >> AMBER mailing list
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> >> http://lists.ambermd.org/mailman/listinfo/amber
> >>
> >
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> _______________________________________________
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--
-------------------------
Daniel R. Roe, PhD
Department of Medicinal Chemistry
University of Utah
30 South 2000 East, Room 307
Salt Lake City, UT 84112-5820
http://home.chpc.utah.edu/~cheatham/
(801) 587-9652
(801) 585-6208 (Fax)
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Received on Mon Mar 16 2015 - 07:00:08 PDT
