[mpich-discuss] MPICH error on CentOS

Ricardo Román Brenes roman.ricardo at gmail.com
Wed Nov 6 21:21:38 CST 2013 

both will coexiste, you ahve to "yum remove mpich2-x-x-x.x84_64"


On Wed, Nov 6, 2013 at 9:20 PM, bharat gupta <bharat.85.monu at gmail.com>wrote:

> 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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>> > > _______________________________________________
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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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>> > >
>> > > _______________________________________________
>> > > discuss mailing list     discuss at mpich.org
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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
>
>
> _______________________________________________
> discuss mailing list     discuss at mpich.org
> To manage subscription options or unsubscribe:
> https://lists.mpich.org/mailman/listinfo/discuss
>
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