Hi,
I couldn't reproduce this error - however, I notice that your 'range'
argument is 1-160, while you only have 154 residues in your topology.
I looked at the code and it's possible that this could cause a
segfault on some systems. Try this command instead and let me know if
the segfault goes away:
rmsd :1-154 reference perres range 1-154 perresout back.tmp perresmask
.CA,C,O,N
In the meantime I will work on a patch.
-Dan
On Thu, Sep 1, 2011 at 2:02 AM, Praapti Jayaswal <praapti.gmail.com> wrote:
> Hi All,
>
> With reference to the query posted by my colleague, Xiao Chen (
> http://archive.ambermd.org/201106/0259.html), I am also getting segmentation
> fault , when i run cpptraj to calculate rmsd for the residues using
> trajectory (with waters stripped, i.e. wt_dry.mdcrd).
>
>
> trajin wt_dry.mdcrd
> reference wt.pdb
> rmsd :1-160 reference perres range 1-160 perresout back.tmp perresmask
> .CA,C,O,N
> go
>
> cpptraj wt_dry.prmtop cpptraj_rmsd.in
>
>
>
> I have performed bugfix for ambertools 1.5 on
> Linux.<http://archive.ambermd.org/201106/0242.html>
>
> Please find attached the pdb file, since the size of the parameter and
> trajectory files exceeds permissible size limit.
>
> Could you please help??
>
> Thanks,
>
> Praapti
>
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Received on Fri Sep 02 2011 - 16:00:02 PDT
