[GE users] Integration of the MPICH2 and SGE

gqc606 gqc606 at hotmail.com
Sat May 29 15:59:08 BST 2010


Hi reuti:
   According to your tips,I entered this command "ps -e f" after submit a job:
[test at cluster ~]$ ps -e f
  PID TTY      STAT   TIME COMMAND
    1 ?        Ss     0:00 init [5]                             
    2 ?        S<     0:00 [migration/0]
    3 ?        SN     0:00 [ksoftirqd/0]
    4 ?        S<     0:00 [watchdog/0]
    5 ?        S<     0:00 [migration/1]
    6 ?        SN     0:00 [ksoftirqd/1]
    7 ?        S<     0:00 [watchdog/1]
    8 ?        S<     0:00 [migration/2]
    9 ?        SN     0:00 [ksoftirqd/2]
   10 ?        S<     0:00 [watchdog/2]
   11 ?        S<     0:00 [migration/3]
   12 ?        SN     0:00 [ksoftirqd/3]
   13 ?        S<     0:00 [watchdog/3]
   14 ?        S<     0:00 [events/0]
   15 ?        S<     0:00 [events/1]
   16 ?        S<     0:00 [events/2]
   17 ?        S<     0:00 [events/3]
   18 ?        S<     0:00 [khelper]
   19 ?        S<     0:00 [kthread]
   25 ?        S<     0:00  \_ [kblockd/0]
   26 ?        S<     0:00  \_ [kblockd/1]
   27 ?        S<     0:00  \_ [kblockd/2]
   28 ?        S<     0:00  \_ [kblockd/3]
   29 ?        S<     0:00  \_ [kacpid]
  133 ?        S<     0:00  \_ [cqueue/0]
  134 ?        S<     0:00  \_ [cqueue/1]
  135 ?        S<     0:00  \_ [cqueue/2]
  136 ?        S<     0:00  \_ [cqueue/3]
  139 ?        S<     0:00  \_ [khubd]
  141 ?        S<     0:00  \_ [kseriod]
  214 ?        S      0:00  \_ [pdflush]
  215 ?        S      0:00  \_ [pdflush]
  216 ?        S<     0:00  \_ [kswapd0]
  217 ?        S<     0:00  \_ [aio/0]
  218 ?        S<     0:00  \_ [aio/1]
  219 ?        S<     0:00  \_ [aio/2]
  220 ?        S<     0:00  \_ [aio/3]
  377 ?        S<     0:00  \_ [kpsmoused]
  424 ?        S<     0:00  \_ [ata/0]
  425 ?        S<     0:00  \_ [ata/1]
  426 ?        S<     0:00  \_ [ata/2]
  427 ?        S<     0:00  \_ [ata/3]
  428 ?        S<     0:00  \_ [ata_aux]
  434 ?        S<     0:00  \_ [scsi_eh_0]
  435 ?        S<     0:00  \_ [scsi_eh_1]
  446 ?        S<     0:00  \_ [kstriped]
  467 ?        S<     0:00  \_ [kjournald]
  494 ?        S<     0:00  \_ [kauditd]
 1656 ?        S<     0:00  \_ [kmpathd/0]
 1657 ?        S<     0:00  \_ [kmpathd/1]
 1658 ?        S<     0:00  \_ [kmpathd/2]
 1659 ?        S<     0:00  \_ [kmpathd/3]
 1660 ?        S<     0:00  \_ [kmpath_handlerd]
 1691 ?        S<     0:00  \_ [kjournald]
 1693 ?        S<     0:00  \_ [kjournald]
 1893 ?        S<     0:00  \_ [kondemand/0]
 1894 ?        S<     0:00  \_ [kondemand/1]
 1895 ?        S<     0:00  \_ [kondemand/2]
 1896 ?        S<     0:00  \_ [kondemand/3]
 1938 ?        S<     0:00  \_ [ib_addr]
 1955 ?        S<     0:00  \_ [ib_mcast]
 1956 ?        S<     0:00  \_ [ib_inform]
 1957 ?        S<     0:00  \_ [local_sa]
 1962 ?        S<     0:00  \_ [iw_cm_wq]
 1969 ?        S<     0:00  \_ [ib_cm/0]
 1970 ?        S<     0:00  \_ [ib_cm/1]
 1971 ?        S<     0:00  \_ [ib_cm/2]
 1972 ?        S<     0:00  \_ [ib_cm/3]
 1978 ?        S<     0:00  \_ [rdma_cm]
 2655 ?        S<     0:00  \_ [rpciod/0]
 2656 ?        S<     0:00  \_ [rpciod/1]
 2657 ?        S<     0:00  \_ [rpciod/2]
 2658 ?        S<     0:00  \_ [rpciod/3]
 2976 ?        S<     0:00  \_ [nfsd4]
  526 ?        S<s    0:00 /sbin/udevd -d
 1549 ?        Ss     0:00 /sbin/change_console -f
 1988 ?        Ss     0:00 iscsid
 1989 ?        S<Ls   0:00 iscsid
 2389 ?        S<sl   0:00 auditd
 2391 ?        S<sl   0:00  \_ /sbin/audispd
 2512 ?        Sl     0:08 /opt/rocks/bin/python /opt/rocks/bin/greceptor
 2523 ?        Ss     0:00 syslogd -r -m 0
 2526 ?        Ss     0:00 klogd -x
 2538 ?        Ss     0:00 irqbalance
 2572 ?        Ssl    0:00 /usr/sbin/named -u named
 2595 ?        Ss     0:00 portmap
 2620 ?        Ss     0:00 rpc.statd
 2666 ?        Ss     0:00 rpc.idmapd
 2686 ?        Ss     0:05 dbus-daemon --system
 2736 ?        Ssl    0:00 automount
 2756 ?        Ss     0:00 /usr/sbin/acpid
 2857 ?        Sl     0:22 /opt/gridengine/bin/lx26-x86/sge_qmaster
 2888 ?        Sl     0:08 /usr/sbin/snmpd -Lsd -Lf /dev/null -p /var/run/snmpd.pid -a
 2903 ?        Ss     0:00 /usr/sbin/sshd
 2915 ?        Ss     0:00 xinetd -stayalive -pidfile /var/run/xinetd.pid
 2943 ?        Ss     0:00 rpc.rquotad
 2977 ?        S      0:00 [lockd]
 2978 ?        S      0:00 [nfsd]
 2979 ?        S      0:00 [nfsd]
 2980 ?        S      0:00 [nfsd]
 2981 ?        S      0:00 [nfsd]
 2982 ?        S      0:00 [nfsd]
 2983 ?        S      0:00 [nfsd]
 2984 ?        S      0:00 [nfsd]
 2985 ?        S      0:00 [nfsd]
 2988 ?        Ss     0:00 rpc.mountd
 3023 ?        S      0:00 /bin/sh /opt/rocks/bin/mysqld_safe --defaults-file=/opt/rocks/etc/my.cnf --datadir=/var/opt/rocks/
 3096 ?        Sl     0:00  \_ /opt/rocks/libexec/mysqld --defaults-file=/opt/rocks/etc/my.cnf --basedir=/opt/rocks --datadir
 3117 ?        Ss     0:00 /usr/sbin/dhcpd eth0
 3172 ?        Ss     0:00 /usr/libexec/postfix/master
 3182 ?        S      0:00  \_ qmgr -l -t fifo -u
23623 ?        S      0:00  \_ pickup -l -t fifo -u
 3186 ?        Ss     0:00 /usr/sbin/httpd
 3247 ?        S      0:00  \_ /usr/sbin/httpd
 3248 ?        S      0:00  \_ /usr/sbin/httpd
 3249 ?        S      0:00  \_ /usr/sbin/httpd
 3250 ?        S      0:00  \_ /usr/sbin/httpd
 3251 ?        S      0:00  \_ /usr/sbin/httpd
 3253 ?        S      0:00  \_ /usr/sbin/httpd
 3254 ?        S      0:00  \_ /usr/sbin/httpd
 3256 ?        S      0:00  \_ /usr/sbin/httpd
 3197 ?        Ss     0:00 crond
 3228 ?        Ss     0:00 xfs -droppriv -daemon
 3257 ?        Ss     0:00 /usr/sbin/atd
 3279 ?        Ss     0:06 hald
 3280 ?        S      0:00  \_ hald-runner
 3287 ?        S      0:00      \_ hald-addon-acpi: listening on acpid socket /var/run/acpid.socket
 3293 ?        S      0:00      \_ hald-addon-keyboard: listening on /dev/input/event0
 3376 ?        S      0:02 /opt/rocks/bin/python /opt/rocks/bittorrent/bttrack.py --port 7625 --dfile /tmp/dstate
 3402 ?        S      0:00 /usr/sbin/smartd -q never
 3407 tty1     Ss+    0:00 /sbin/mingetty tty1
 3408 tty2     Ss+    0:00 /sbin/mingetty tty2
 3409 tty3     Ss+    0:00 /sbin/mingetty tty3
 3411 tty4     Ss+    0:00 /sbin/mingetty tty4
 3413 tty5     Ss+    0:00 /sbin/mingetty tty5
 3418 tty6     Ss+    0:00 /sbin/mingetty tty6
 3484 ?        Ss     0:00 /usr/sbin/gdm-binary -nodaemon
 3600 ?        S      0:00  \_ /usr/sbin/gdm-binary -nodaemon
 3605 tty7     Ss+    1:50      \_ /usr/bin/Xorg :0 -br -audit 0 -auth /var/gdm/:0.Xauth -nolisten tcp vt7
 3625 ?        Ss     0:00      \_ /usr/bin/gnome-session
 3664 ?        Ss     0:00          \_ /usr/bin/ssh-agent /bin/sh -c exec -l /bin/bash -c "/usr/bin/dbus-launch --exit-with-s
 3602 ?        S      0:00 /usr/libexec/gdm-rh-security-token-helper
 3768 ?        S      0:00 /usr/bin/dbus-launch --exit-with-session /etc/X11/xinit/Xclients
 3769 ?        Ss     0:00 /bin/dbus-daemon --fork --print-pid 4 --print-address 6 --session
 3775 ?        S      0:00 /usr/libexec/gconfd-2 5
 3778 ?        S      0:00 /usr/bin/gnome-keyring-daemon
 3780 ?        Sl     0:01 /usr/libexec/gnome-settings-daemon
 3795 ?        Ss     0:22 metacity --sm-client-id=default1
 3799 ?        Ss     0:06 gnome-panel --sm-client-id default2
 3801 ?        Ssl    1:08 nautilus --no-default-window --sm-client-id default3
 3805 ?        Ssl    0:00 /usr/libexec/bonobo-activation-server --ac-activate --ior-output-fd=16
 3808 ?        Ss     0:00 eggcups --sm-client-id default4
 3809 ?        Ss     0:00 gnome-volume-manager --sm-client-id default5
 3811 ?        S      0:00 /usr/libexec/gnome-vfs-daemon
 3827 ?        Ss     0:00 bt-applet --sm-disable
 3829 ?        S      0:00 /usr/libexec/gam_server
 3831 ?        Ss     0:00 nm-applet --sm-disable
 3840 ?        S      0:16 /usr/libexec/wnck-applet --oaf-activate-iid=OAFIID:GNOME_Wncklet_Factory --oaf-ior-fd=19
 3842 ?        S      0:00 /usr/libexec/trashapplet --oaf-activate-iid=OAFIID:GNOME_Panel_TrashApplet_Factory --oaf-ior-fd=22
 3851 ?        Ss     0:00 pam-panel-icon --sm-client-id default0
 3853 ?        S      0:00  \_ /sbin/pam_timestamp_check -d root
 3854 ?        Ss     0:02 gnome-power-manager
 3857 ?        S      0:00 ./escd --key_Inserted="/usr/bin/esc" --on_Signal="/usr/bin/esc"
 3865 ?        S      0:00 /usr/sbin/nm-system-settings --config /etc/NetworkManager/nm-system-settings.conf
 3875 ?        S      0:00 /usr/libexec/mapping-daemon
 3880 ?        S      0:00 /usr/libexec/notification-area-applet --oaf-activate-iid=OAFIID:GNOME_NotificationAreaApplet_Facto
 3882 ?        S      0:00 /usr/libexec/clock-applet --oaf-activate-iid=OAFIID:GNOME_ClockApplet_Factory --oaf-ior-fd=29
 3884 ?        Sl     0:00 /usr/libexec/mixer_applet2 --oaf-activate-iid=OAFIID:GNOME_MixerApplet_Factory --oaf-ior-fd=24
 3890 ?        Rl     0:12 gnome-terminal
 3891 ?        S      0:00  \_ gnome-pty-helper
11812 pts/2    Ss     0:00  \_ bash
16637 pts/2    S+     0:00  |   \_ ssh compute-0-0
14186 pts/1    Ss     0:00  \_ bash
14277 pts/1    S      0:00  |   \_ su test
14278 pts/1    S      0:00  |       \_ bash
23779 pts/1    R+     0:00  |           \_ ps -e f
16642 pts/3    Ss     0:00  \_ bash
16734 pts/3    S+     0:00      \_ ssh compute-0-1
 4085 ?        Ss     0:02 gnome-screensaver
 4540 ?        SLs    0:00 ntpd -A -u ntp:ntp -p /var/run/ntpd.pid -g
 4545 ?        S      0:00  \_ ntpd -A -u ntp:ntp -p /var/run/ntpd.pid -g
[test at cluster ~]$ qstat -f
queuename                      qtype resv/used/tot. load_avg arch          states
---------------------------------------------------------------------------------
all.q at compute-0-0.local        BIP   0/3/4          0.00     lx26-x86      
    258 0.55500 flat_aireb test         dr    05/29/2010 14:42:56     3        
---------------------------------------------------------------------------------
all.q at compute-0-1.local        BIP   0/3/4          0.00     lx26-x86      
    258 0.55500 flat_aireb test         dr    05/29/2010 14:42:56     3       

I don't know how to analysis it;Can you give me some tips?Thanks!

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