[mpich-discuss] MPICH error on CentOS

bharat gupta bharat.85.monu at gmail.com
Wed Nov 6 18:48:37 CST 2013 

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
>>>>>> >
>>>>>> >
>>>>>> >
>>>>>> > _______________________________________________
>>>>>> > discuss mailing list     discuss at mpich.org
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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
>>>>>> >
>>>>>> >
>>>>>> > _______________________________________________
>>>>>> > 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
>>>>>> >
>>>>>> >
>>>>>> >
>>>>>> >
>>>>>> > --
>>>>>> > 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:
>>>> https://lists.mpich.org/mailman/listinfo/discuss
>>>>
>>>
>>>
>>>
>>> --
>>> 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
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