[mpich-discuss] Error in the mpdboot step

Prashantha Hebbar prashantha.hebbar at manipal.edu
Wed Feb 3 01:02:14 CST 2010 

Hi Pavan,

As you have suggested, I have added other host name in both the systems
/etc/hosts. But did not work. Here is the details of mpdcheck command

mlscub1 at mlscub1-desktop:~$ cat /etc/hosts
127.0.0.1       localhost
172.16.17.24    mlscub1-desktop
172.16.17.93    mlscub2-desktop
# The following lines are desirable for IPv6 capable hosts
::1     ip6-localhost ip6-loopback
fe00::0 ip6-localnet
ff00::0 ip6-mcastprefix
ff02::1 ip6-allnodes
ff02::2 ip6-allrouters
ff02::3 ip6-allhosts

=====================================

mlscub1 at mlscub1-desktop:~$ mpdcheck -v
obtaining hostname via gethostname and getfqdn
gethostname gives  mlscub1-desktop
getfqdn gives  mlscub1-desktop
checking out unqualified hostname; make sure is not "localhost", etc.
checking out qualified hostname; make sure is not "localhost", etc.
obtain IP addrs via qualified and unqualified hostnames;  make sure other
than 127.0.0.1
gethostbyname_ex:  ('mlscub1-desktop', [], ['172.16.17.24'])
gethostbyname_ex:  ('mlscub1-desktop', [], ['172.16.17.24'])
checking that IP addrs resolve to same host
now do some gethostbyaddr and gethostbyname_ex for machines in hosts file

======================================
mlscub1 at mlscub1-desktop:~$ mpdcheck -f mpd.hosts -ssh
*** gethostbyname_ex failed for host mlscub1 at mlscub1-desktop.local
*** gethostbyname_ex failed for host mlscub1 at mlscub1-desktop.local
*** gethostbyname_ex failed for host mlscub2 at mlscub2-desktop.local
*** gethostbyname_ex failed for host mlscub2 at mlscub2-desktop.local
** ssh failed to mlscub1 at mlscub1-desktop.local
** here is the output:
Permission denied (publickey).
=============================================================
But I can log in with password to both the systems. Here is the output for
that.
==========================================================================
mlscub1 at mlscub1-desktop:~$ ssh mlscub2 at mlscub2-desktop.local
Linux mlscub2-desktop 2.6.24-16-generic #1 SMP Thu Apr 10 13:23:42 UTC 2008
i686

The programs included with the Ubuntu system are free software;
the exact distribution terms for each program are described in the
individual files in /usr/share/doc/*/copyright.

Ubuntu comes with ABSOLUTELY NO WARRANTY, to the extent permitted by
applicable law.

To access official Ubuntu documentation, please visit:
http://help.ubuntu.com/
Last login: Wed Feb  3 10:34:03 2010 from 172.16.17.98
=================================================================
mlscub2 at mlscub2-desktop:~$ mpdcheck -pc
--- print results of: gethostbyname_ex(gethostname())
('mlscub2-desktop', [], ['172.16.17.93'])
--- try to run /bin/hostname
mlscub2-desktop
--- try to run uname -a
Linux mlscub2-desktop 2.6.24-16-generic #1 SMP Thu Apr 10 13:23:42 UTC 2008
i686 GNU/Linux
--- try to print /etc/hosts
127.0.0.1       localhost
172.16.17.93    mlscub2-desktop
172.16.17.24    mlscub1-desktop
# The following lines are desirable for IPv6 capable hosts
::1     ip6-localhost ip6-loopback
fe00::0 ip6-localnet
ff00::0 ip6-mcastprefix
ff02::1 ip6-allnodes
ff02::2 ip6-allrouters
ff02::3 ip6-allhosts
--- try to print /etc/resolv.conf
search mahe.manipal.net
nameserver 172.16.19.202
nameserver 172.16.19.203
--- try to run /sbin/ifconfig -a
eth0      Link encap:Ethernet  HWaddr 00:e0:81:5e:29:ac
          inet addr:172.16.17.93  Bcast:172.16.17.255  Mask:255.255.255.0
          inet6 addr: fe80::2e0:81ff:fe5e:29ac/64 Scope:Link
          UP BROADCAST RUNNING MULTICAST  MTU:1500  Metric:1
          RX packets:102648 errors:0 dropped:0 overruns:0 frame:0
          TX packets:64731 errors:0 dropped:0 overruns:0 carrier:0
          collisions:0 txqueuelen:1000
          RX bytes:30758211 (29.3 MB)  TX bytes:8244158 (7.8 MB)
          Interrupt:16 Base address:0xc000

lo        Link encap:Local Loopback
          inet addr:127.0.0.1  Mask:255.0.0.0
          inet6 addr: ::1/128 Scope:Host
          UP LOOPBACK RUNNING  MTU:16436  Metric:1
          RX packets:2566 errors:0 dropped:0 overruns:0 frame:0
          TX packets:2566 errors:0 dropped:0 overruns:0 carrier:0
          collisions:0 txqueuelen:0
          RX bytes:144688 (141.2 KB)  TX bytes:144688 (141.2 KB)

--- try to print /etc/nsswitch.conf
# /etc/nsswitch.conf
#
# Example configuration of GNU Name Service Switch functionality.
# If you have the `glibc-doc-reference' and `info' packages installed, try:
# `info libc "Name Service Switch"' for information about this file.

passwd:         compat
group:          compat
shadow:         compat

hosts:          files mdns4_minimal [NOTFOUND=return] dns mdns4
networks:       files

protocols:      db files
services:       db files
ethers:         db files
rpc:            db files

netgroup:       nis

With this output, is it possible to find the problem?

Regards,
Prashantha

-----Original Message-----
From: mpich-discuss-bounces at mcs.anl.gov
[mailto:mpich-discuss-bounces at mcs.anl.gov] On Behalf Of Pavan Balaji
Sent: Tuesday, February 02, 2010 7:14 PM
To: mpich-discuss at mcs.anl.gov
Subject: Re: [mpich-discuss] Error in the mpdboot step


On 02/02/2010 04:52 AM, Prashantha Hebbar wrote:
> mlscub1 at mlscub1-desktop:~$ mpdboot -n 2 -f mpd.hosts --ncpus=1
> unable to obtain IP for host: mlscub1 at mlscub1-desktop.local
> unable to obtain IP for host: mlscub2 at mlscub2-desktop.local
> totalnum=2  numhosts=1
> there are not enough hosts on which to start all processes

The /etc/hosts file on each machine needs to have information on all the
nodes in the system.

> So, can you please tell me what might have gone wrong? I do not think
it is
> a problem of my /etc/hosts setting.
> mlscub1 at mlscub1-desktop:~$ cat /etc/hosts
> 127.0.0.1       localhost
> 172.16.17.24    mlscub1-desktop

The file doesn't contain information on mlscub2-desktop

You can use the mpdcheck utility to look for such errors in your setup.

> I tried it in other way round with specifying hostname of mpd master in
> slave system. That works fine.
>  
> mlscub1 at mlscub1-desktop:~$ mpd &
> [1] 22750
> 
> mlscub1 at mlscub1-desktop:~$ mpdtrace -l
> mlscub1-desktop_50100 (172.16.17.24)
> 
> mlscub2 at mlscub2-desktop:~$ mpd -h mlscub1-desktop.local -p 50100 &
> [1] 11418
> 
> mlscub2 at mlscub2-desktop:~$ mpdtrace -l
> mlscub2-desktop_50514 (172.16.17.93)
> mlscub1-desktop_50100 (172.16.17.24)
> 
> mlscub1 at mlscub1-desktop:~$ mpdtrace -l
> mlscub1-desktop_50100 (172.16.17.24)
> mlscub2-desktop_50514 (172.16.17.93)

Good to know that this works. This is another option, but is more
cumbersome to use, so we don't usually prefer it.

> I have another problem with executing programs. I find something like
> permission denied error messages.
> 
> mlscub1 at mlscub1-desktop:~$ mpiexec -n 5
> /home/mlscub1/libraries/mpich2-1.2.1/examples/cpi.c
> problem with execution of
> /home/mlscub1/libraries/mpich2-1.2.1/examples/cpi.c  on  mlscub1-desktop:
> [Errno 13] Permission denied
> problem with execution of
> /home/mlscub1/libraries/mpich2-1.2.1/examples/cpi.c  on  mlscub2-desktop:
> [Errno 2] No such file or directory
> problem with execution of
> /home/mlscub1/libraries/mpich2-1.2.1/examples/cpi.c  on  mlscub2-desktop:
> [Errno 2] No such file or directory
> problem with execution of
> /home/mlscub1/libraries/mpich2-1.2.1/examples/cpi.c  on  mlscub1-desktop:
> [Errno 13] Permission denied
> problem with execution of
> /home/mlscub1/libraries/mpich2-1.2.1/examples/cpi.c  on  mlscub1-desktop:
> [Errno 13] Permission denied

Why are you trying to execute cpi.c ? Do you mean to compile it and
execute cpi?

% mpicc examples/cpi.c -o examples/cpi

% mpiexec -n 5 ./examples/cpi

 -- Pavan

-- 
Pavan Balaji
http://www.mcs.anl.gov/~balaji
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