Dear Daniel Sir,
After several Hit-And-Trial I can conclude that this "core dumped" error is
independent
of threading, rather depends upon which portion of trajectory I am using. I
am explaining.
Total 1 to 420 number of *.nc files are there and each containing 1000
frames.
Say 414-420 gives me no core dumped message but 1-5 gives. More
specifically *5.nc 1 19
gives but *5.nc 1 18 don't. Anything wrong with my trajectories? It happens
only with lipid
and water but not with other co-solutes as I mentioned before.
Regards
Somdev
On Fri, Jun 14, 2019 at 10:26 AM somdev pahari <somdevpahari1.gmail.com>
wrote:
> Dear Stefano, actually I have to calculate the bridging part for
> comparison. For other co-solute case it works fine but only problem with
> water.
> Dear Daniel Sir, I never tried with single threaded. But before using OMP
> version I used serial version of cpptraj but it took too much time so I
> start using OMP version.
> Ok, I will report quickly after using single threaded.
>
> Thank You
>
> On Thu 13 Jun, 2019, 9:25 PM Daniel Roe, <daniel.r.roe.gmail.com> wrote:
>
>> Hi,
>>
>> Do you get the segfault when running single threaded cpptraj?
>>
>> -Dan
>>
>> On Thu, Jun 13, 2019 at 10:41 AM somdev pahari <somdevpahari1.gmail.com>
>> wrote:
>> >
>> > Dear AMBER community,
>> >
>> > I am using cpptraj.OMP for calculating hbond between lipid and water in
>> my
>> > Desktop.
>> > Everything is running good but at the end I get something "Aborted (core
>> > dumped)"
>> > message. Though output files are created but do not cover my full
>> > trajectory.
>> > The cpptraj.OMP version is V4.14.0 (AmberTools V19.02) OpenMP.
>> > Here below I attach a file containing the message. Please take a look
>> and
>> > give me your suggestions. Thanks in advance.
>> >
>> > Regards
>> > Somdev Pahari
>> > PhD Scholar
>> > NIT Rourkela
>> > Rourkela, Odisha
>> > India
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>>
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Received on Thu Jun 13 2019 - 11:00:02 PDT
