[AMBER] Fwd: WARNING in ptraj(): No input trajectories specified (trajin), aborting...

From: rosy stone <stonerosy.gmail.com>
Date: Tue, 27 Dec 2011 11:22:17 +0530

From: rosy stone <stonerosy.gmail.com>
To: amber.ambermd.org
Cc:
Date: Tue, 27 Dec 2011 11:02:22 +0530
Subject: WARNING in ptraj(): No input trajectories specified (trajin),
aborting...
Hi everybody,
>
> Aftr running MD for my tRNA seq in explicit solvent nw m analysing the
results. when m
> runing ptraj files m getting follwing warnings for RMSD calculation:
>
> \-/

  -/- PTRAJ: a utility for processing trajectory files

  /-\

  \-/ Version: "AMBER 10.0 integrated" (2/15/2008)

  -/- Executable is: "ptraj"

  /-\

  \-/ Residue labels:


  RG5 RC RG RG RA RU RU RU RA3 RC5

 RU RC RA RG3 RG5 RG RG RA RG RA

 RG RC3 RC5 RC RA RG RA3 RU3 RA5 RA3

 RA3 RU5 RG RG RA RG3 RU5 RC3 RU5 RG

 RU RG3 RC5 RG3 RU5 RC RC RA RC RA

 RG RA RA RU RU RC RG RC RA RC

 RC RA3 Q2M H2U H2U M2G OMC OMG YG PSU

 Q5M Q7M Q5M Q5M PSU Q1M Na+ Na+ Na+ Na+

 Na+ Na+ Na+ Na+ Na+ Na+ Na+ Na+ Na+ Na+

 ...

 Na+ Na+ Na+ Na+ WAT WAT WAT WAT WAT WAT

 WAT WAT WAT WAT WAT WAT WAT WAT WAT WAT

 ...

 WAT WAT WAT WAT WAT WAT WAT



 PTRAJ: Processing input from "STDIN" ...


 PTRAJ: trajin fimd.mdcrd

  Checking coordinates: fimd.mdcrd

trajin fimd.mdcrd ignored; could not open file (fimd.mdcrd)


 PTRAJ: rms first mass out m22g_calc_backbone.rms .P,O5', C5', C4', C3',
O3', time 0.2

Mask [.P,O5',] represents 138 atoms

WARNING in ptraj(): No input trajectories specified (trajin), aborting...


> Is dere smthng wrong? m nt able to interpret above
*> lines. please help in dis.... **

*
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Mon Dec 26 2011 - 22:00:02 PST
Custom Search