Thank you Dav for your reply
I am jsut trying to understand the information in reduce.log file.
It gives following info at the end of file:-
Optimal score following high resolution, local optimization: -0.001
Found 0 hydrogens (0 hets)
Standardized 0 hydrogens (0 hets)
Added 3934 hydrogens (0 hets)
Removed 0 hydrogens (0 hets)
Adjusted 91 group(s)
Is it fine? I have attached log file of the process.
On Tue, May 28, 2019 at 6:35 PM David A Case <david.case.rutgers.edu> wrote:
> On Tue, May 28, 2019, Sadaf Rani wrote:
>
> >I am new to amber and using pdb4amber command for my pdb file as follows:-
> >pdb4amber -i 2bh9_clean.pdb -o 2bh9_H.pdb --dry --reduce
> >
> >
> >it gives me message for REDUCE:-
> >REDUCE returned non-zero exit status: See reduce_info.log for more details
> >
> >is it normal? we can ignor it?
>
> Depends on what is in the reduce_info.log file. Did you not look at
> that?
>
> That said, reduce often gives a non-zero exit status for very trivial
> things, so the error status can often be ignored.
>
> ...dac
>
>
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Received on Wed May 29 2019 - 03:30:03 PDT
