Hi Qiang
What is ¡¯ and why do you have it around the DUMPFREQ and END keywords?
Remove that and you'll probably be okay - or find the next error...
Good luck...
Ross
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> -----Original Message-----
> From: owner-amber.scripps.edu
> [mailto:owner-amber.scripps.edu] On Behalf Of Qiang Zhong
> Sent: Friday, August 24, 2007 03:34
> To: amber.scripps.edu
> Subject: AMBER: SMD simulation
>
> Dear Amber Users:
> I am doing SMD simulation, I got some error message,
> Could somebody tell me what wrong with it.Thank you very much!
>
> [internet.localhost sample_0]$ sander -O -i ../../prm/smd.in
> -p ../xxx.parm7 -c
> ../xxx_eq_v.rst -r xxx_push.rst -x xxx_push.crd -o xxx_push.out
> Cannot match namelist object name ¡¯dumpfreq¡¯,
> Cannot match namelist object name ¡¯end¡¯,
> Cannot match namelist object name ¡¯dumpfreq¡¯,
>
> my parameter file is below:
>
> <smd.in>
> Sample pulling input
> &cntrl
> nstlim=1000, cut=99.0, igb=1, saltcon=0.1,
> ntpr=100, ntwr=100000, ntt=3, gamma_ln=5.0,
> ntx=5, irest=1, ntwx=100000000, ig = 256251,
> ntc=2, ntf=2, tol=0.000001,
> dt=0.002, ntb=0, tempi=300., temp0=300.,
> jar=1,
> /
> &wt type=¡¯DUMPFREQ¡¯, istep1=1, /
> &wt type=¡¯END¡¯, /
> DISANG=dist.RST
> DUMPAVE=dist_vs_t
> LISTIN=POUT
> LISTOUT=POUT
>
> <dist.RST>
> # Change distance between group2 and atom CA from 18 A to 8 A
> &rst iat=4269,-1, r2=18., rk2 = 5000., r2a=8. /
> igr1 = 0,igr2 = 4750,4751,0,
> grnam2(1)=¡¯PB¡¯,grnam2(2)=¡¯O2B¡¯
>
>
>
>
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Received on Sun Aug 26 2007 - 06:07:40 PDT
