Hi,
OK, this may be a problem that has been fixed since that version
because I can't seem to reproduce it. Can you try with a more recent
version (either GitHub or AmberTools 21) and see if the problem still
occurs?
-Dan
On Fri, May 14, 2021 at 1:41 PM Brian Radak <brian.radak.gmail.com> wrote:
>
> This is with 4.26.4
>
> The problem also occurs (and was first observed) with pytraj.load() , but
> does not seem to occur with pytraj.iterload()
>
> On Fri, May 14, 2021, 11:32 AM Daniel Roe <daniel.r.roe.gmail.com> wrote:
>
> > Hi,
> >
> > What version of cpptraj are you using?
> >
> > -Dan
> >
> > On Fri, May 14, 2021 at 11:20 AM Brian Radak <brian.radak.gmail.com>
> > wrote:
> >
> > > I've recently been running a lot of one-dimensional HREMD (-rem 3) with
> > > PMEMDGTI. I started to notice certain analysis scripts failing and traced
> > > it back to a cpptraj segfault whenever one (and only one) REMD trajectory
> > > is read in - literally
> > >
> > > $ cpptraj -p prmtop -y mdcrd
> > > Segmentation fault (core dumped)
> > >
> > > I added -debug 999 and it looks like the trajectory is actually
> > > successfully read and closed and _then_ the segfaults occurs.
> > >
> > > Suggestions? Is this bc of some automatic response to REMD annotations?
> > Is
> > > there a way to suppress that response? My only goal here is to do basic
> > > imaging and centering before extracting a frame. I don't actually have
> > > interest in the REMD data itself.
> > >
> > > Cheers,
> > > Brian
> > > _______________________________________________
> > > AMBER mailing list
> > > AMBER.ambermd.org
> > > http://lists.ambermd.org/mailman/listinfo/amber
> > >
> > _______________________________________________
> > AMBER mailing list
> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
> >
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Fri May 14 2021 - 11:00:03 PDT
