[mpich-discuss] MPICH error on CentOS

bharat gupta bharat.85.monu at gmail.com
Wed Nov 6 21:20:07 CST 2013 

But how to remove the older version or reinstalling the new one will
override the changes


On Thu, Nov 7, 2013 at 12:18 PM, Pavan Balaji <balaji at mcs.anl.gov> wrote:

>
> Wow.  1.2.1p1 is ancient.  It was used by dinosaurs and such when they
> still roamed the earth.
>
> I don’t use CentOS, but don’t the rpm’s from this page work?
>
> http://www.mpich.org/downloads/
>
> If not, then source compile is always possible.  :-)  It’s an open-source
> project.
>
>   —- Pavan
>
> On Nov 6, 2013, at 6:56 PM, bharat gupta <bharat.85.monu at gmail.com> wrote:
>
> > Okay.. Thanks a lot for your time and help..
> >
> >
> > On Thu, Nov 7, 2013 at 9:54 AM, Ricardo Román Brenes <
> roman.ricardo at gmail.com> wrote:
> > You have to either remove the old rpm and compile a new version or
> remove the old version and create an rpm from the source. Maybe fedora or
> suse have a newer version in their repos but I havent checked
> >
> > On Nov 6, 2013 6:48 PM, "bharat gupta" <bharat.85.monu at gmail.com> wrote:
> > How can that be done in CentOS 6.0, I used the command yum search mpich
> and installed the one that it showed ...
> >
> >
> > On Thu, Nov 7, 2013 at 9:47 AM, Ricardo Román Brenes <
> roman.ricardo at gmail.com> wrote:
> > Still, try to update to a new mpich asap! :-)
> >
> > On Nov 6, 2013 6:45 PM, "bharat gupta" <bharat.85.monu at gmail.com> wrote:
> > Thanks for the command. After issuing mpdboot and making file mdp.conf
> with line secretword=<> in /etc folder solved the problem..
> >
> > Thanks a lot
> >
> >
> > On Thu, Nov 7, 2013 at 9:43 AM, bharat gupta <bharat.85.monu at gmail.com>
> wrote:
> > I didn't use any of these command , I issued the command 'mpirun -np 24
> mdrun -v -deffnm mdrun' for running the gromacs' and after using this
> command I got those errors
> >
> >
> > On Thu, Nov 7, 2013 at 9:42 AM, Ricardo Román Brenes <
> roman.ricardo at gmail.com> wrote:
> > Did you start mpd either with mpd or mpdboot?
> >
> > On Nov 6, 2013 6:39 PM, "Ricardo Román Brenes" <roman.ricardo at gmail.com>
> wrote:
> > He has to. Thats an older mpich than mine!  :-P
> >
> > On Nov 6, 2013 6:34 PM, "Pavan Balaji" <balaji at mcs.anl.gov> wrote:
> >
> > Looks like I’m late to this email chain.
> >
> > Please don’t use mpd.  mpd has been deprecated for many releases of
> mpich now.  You might be using a very old version of mpich.
> >
> >   —- Pavan
> >
> > On Nov 6, 2013, at 6:26 PM, bharat gupta <bharat.85.monu at gmail.com>
> wrote:
> >
> > > DO I need to add some command in mpd.hosts file
> > >
> > >
> > > On Thu, Nov 7, 2013 at 9:22 AM, bharat gupta <bharat.85.monu at gmail.com>
> wrote:
> > > I don't know much about mpi , as I am using gromacs which was complied
> with mpi option. , But I read somewhere that
> > >
> > >  " If a file named .mpd.conf is available in the user's home
> directory, only the user can have read and write privileges. The file must
> minimally contain a line with secretword=<secretword>. If you want to run
> MPD as root, create the mpd.conf file in the /etc directory instead of
> .mpd.conf in the root's home directory to run mpd as root. Avoid starting
> the MPD ring under the root account." Here'e the link
> http://software.intel.com/sites/products/documentation/hpc/ics/impi/41/lin/Reference_Manual/Multipurpose_Daemon_Commands.htm
> > >
> > > And after using chmod 700 , I still get the same error, but when I
> create a file mpd.conf in /etc I get the and added the
> secretword=<secretword> line in the file and run the same command, I get
> this error:-
> > >
> > > root at localhost INGT]# mpirun -np 24 mdrun -v -deffnm mdrun
> > > mpdroot: perror msg: No such file or directory
> > > mpdroot: cannot connect to local mpd at: /tmp/mpd2.console_root
> > >     probable cause:  no mpd daemon on this machine
> > >     possible cause:  unix socket /tmp/mpd2.console_root has been
> removed
> > >
> > > mpiexec_localhost.localdomain (__init__ 1208): forked process failed;
> status=255
> > >
> > >
> > > On Thu, Nov 7, 2013 at 9:11 AM, Ricardo Román Brenes <
> roman.ricardo at gmail.com> wrote:
> > > Try using chmod 700.  Can you run any other mpi example? Like cpi.c
> > >
> > > On Nov 6, 2013 6:08 PM, "bharat gupta" <bharat.85.monu at gmail.com>
> wrote:
> > > It have changed the file permission (rw) for root , ls -l mpd.hosts
> gives the output
> > > -rw-r--r--, 1 root root
> > >
> > >
> > > On Thu, Nov 7, 2013 at 9:02 AM, Ricardo Román Brenes <
> roman.ricardo at gmail.com> wrote:
> > > With rwx permission just for root?
> > >
> > > On Nov 6, 2013 6:00 PM, "bharat gupta" <bharat.85.monu at gmail.com>
> wrote:
> > > I have created the file mpd.hosts in /etc folder in the root , but
> still it shows the same error ... /usr/bin/mpdroot: open failed for root's
> mpd conf filempiexec_localhost.localdomain (__init__ 1208): forked process
> failed; status=255
> > >
> > >
> > > On Thu, Nov 7, 2013 at 8:45 AM, Ricardo Román Brenes <
> roman.ricardo at gmail.com> wrote:
> > > You need to create a mpd.hosts in /etc if you want to run mpd as root
> > >
> > > On Nov 6, 2013 5:41 PM, "bharat gupta" <bharat.85.monu at gmail.com>
> wrote:
> > > Hi,
> > >
> > > I am getting the following error while using the command -
> > >
> > > [root at localhost INGT]# mpirun -np 24 mdrun_mpi -v -deffnm npt
> > >
> > > Error -
> > >
> > > /usr/bin/mpdroot: open failed for root's mpd conf
> filempiexec_localhost.localdomain (__init__ 1208): forked process failed;
> status=255
> > >
> > > I complied gromacs using - ./configure --enable-shared --enable-mpi. I
> have installed the mpich package , this is what I get when I check for
> mpirun and mpiexec -
> > >
> > > [root at localhost /]# which mpirun
> > > /usr/bin/mpirun
> > > [root at localhost /]# which mpiexec
> > > /usr/bin/mpiexec
> > >
> > > What could be the problem here ??
> > >
> > > Thanks
> > > --------
> > > Bharat
> > >
> > >
> > >
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> > >
> > >
> > >
> > > --
> > > Bharat
> > > Ph.D. Candidate
> > > Biomolecular Engineering Laboratory
> > > Pusan National University
> > > South Korea
> > > Mobile no. - 010-5818-3680
> > >
> > >
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> > >
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> > >
> > >
> > >
> > > --
> > > Bharat
> > > Ph.D. Candidate
> > > Biomolecular Engineering Laboratory
> > > Pusan National University
> > > South Korea
> > > Mobile no. - 010-5818-3680
> > >
> > >
> > > _______________________________________________
> > > discuss mailing list     discuss at mpich.org
> > > To manage subscription options or unsubscribe:
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> > >
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> > >
> > >
> > >
> > > --
> > > Bharat
> > > Ph.D. Candidate
> > > Biomolecular Engineering Laboratory
> > > Pusan National University
> > > South Korea
> > > Mobile no. - 010-5818-3680
> > >
> > >
> > >
> > >
> > > --
> > > Bharat
> > > Ph.D. Candidate
> > > Biomolecular Engineering Laboratory
> > > Pusan National University
> > > South Korea
> > > Mobile no. - 010-5818-3680
> > >
> > > _______________________________________________
> > > discuss mailing list     discuss at mpich.org
> > > To manage subscription options or unsubscribe:
> > > https://lists.mpich.org/mailman/listinfo/discuss
> >
> > --
> > Pavan Balaji
> > http://www.mcs.anl.gov/~balaji
> >
> > _______________________________________________
> > discuss mailing list     discuss at mpich.org
> > To manage subscription options or unsubscribe:
> > https://lists.mpich.org/mailman/listinfo/discuss
> >
> > _______________________________________________
> > discuss mailing list     discuss at mpich.org
> > To manage subscription options or unsubscribe:
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> >
> >
> >
> > --
> > Bharat
> > Ph.D. Candidate
> > Biomolecular Engineering Laboratory
> > Pusan National University
> > South Korea
> > Mobile no. - 010-5818-3680
> >
> >
> >
> >
> > --
> > Bharat
> > Ph.D. Candidate
> > Biomolecular Engineering Laboratory
> > Pusan National University
> > South Korea
> > Mobile no. - 010-5818-3680
> >
> >
> > _______________________________________________
> > discuss mailing list     discuss at mpich.org
> > To manage subscription options or unsubscribe:
> > https://lists.mpich.org/mailman/listinfo/discuss
> >
> > _______________________________________________
> > discuss mailing list     discuss at mpich.org
> > To manage subscription options or unsubscribe:
> > https://lists.mpich.org/mailman/listinfo/discuss
> >
> >
> >
> > --
> > Bharat
> > Ph.D. Candidate
> > Biomolecular Engineering Laboratory
> > Pusan National University
> > South Korea
> > Mobile no. - 010-5818-3680
> >
> >
> > _______________________________________________
> > discuss mailing list     discuss at mpich.org
> > To manage subscription options or unsubscribe:
> > https://lists.mpich.org/mailman/listinfo/discuss
> >
> > _______________________________________________
> > discuss mailing list     discuss at mpich.org
> > To manage subscription options or unsubscribe:
> > https://lists.mpich.org/mailman/listinfo/discuss
> >
> >
> >
> > --
> > Bharat
> > Ph.D. Candidate
> > Biomolecular Engineering Laboratory
> > Pusan National University
> > South Korea
> > Mobile no. - 010-5818-3680
> >
> > _______________________________________________
> > discuss mailing list     discuss at mpich.org
> > To manage subscription options or unsubscribe:
> > https://lists.mpich.org/mailman/listinfo/discuss
>
> --
> Pavan Balaji
> http://www.mcs.anl.gov/~balaji
>
> _______________________________________________
> discuss mailing list     discuss at mpich.org
> To manage subscription options or unsubscribe:
> https://lists.mpich.org/mailman/listinfo/discuss
>



-- 
Bharat
Ph.D. Candidate
Biomolecular Engineering Laboratory
Pusan National University
South Korea
Mobile no. - 010-5818-3680
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