[R] Output from unix PS

mohan.radhakrishnan at polarisft.com mohan.radhakrishnan at polarisft.com
Fri Aug 16 15:38:15 CEST 2013


This is the output.

> str(data)
'data.frame':   78 obs. of  1 variable:
 $
USER.......PID..CPU..MEM....VSZ...RSS.TTY......STAT.START...TIME.COMMAND:
Factor w/ 78 levels "68        4504  0.0  0.0  31680  4596 ?        Ss
Aug08   0:01 hald",..: 17 18 19 20 21 22 23 24 25 26 ...




> dput(head(data,20))
structure(list
(USER.......PID..CPU..MEM....VSZ...RSS.TTY......STAT.START...TIME.COMMAND =
structure(c(17L,
18L, 19L, 20L, 21L, 22L, 23L, 24L, 25L, 26L, 27L, 28L, 15L, 29L,
30L, 31L, 32L, 33L, 1L, 34L), .Label = c("68        4504  0.0  0.0  31680
4596 ?        Ss   Aug08   0:01 hald",
"68        4513  0.0  0.0  12348   872 ?        S    Aug08   0:00
hald-addon-acpi: listening on acpid socket /var/run/acpid.socket",
"68        4517  0.0  0.0  12348   864 ?        S    Aug08   0:00
hald-addon-keyboard: listening on /dev/input/event1",
"68        4521  0.0  0.0  12348   860 ?        S    Aug08   0:00
hald-addon-keyboard: listening on /dev/input/event0",
"apache   17344  0.0  0.0 174440  2372 ?        S    Aug11
0:00 /usr/sbin/httpd",
"apache   17345  0.0  0.0 174440  2372 ?        S    Aug11
0:00 /usr/sbin/httpd",
"apache   17346  0.0  0.0 174440  2372 ?        S    Aug11
0:00 /usr/sbin/httpd",
"apache   17347  0.0  0.0 174440  2372 ?        S    Aug11
0:00 /usr/sbin/httpd",
"apache   17348  0.0  0.0 174440  2372 ?        S    Aug11
0:00 /usr/sbin/httpd",
"apache   17349  0.0  0.0 174440  2372 ?        S    Aug11
0:00 /usr/sbin/httpd",
"apache   17350  0.0  0.0 174440  2372 ?        S    Aug11
0:00 /usr/sbin/httpd",
"apache   17351  0.0  0.0 174440  2372 ?        S    Aug11
0:00 /usr/sbin/httpd",
"avahi     4830  0.0  0.0  23296  1316 ?        Ss   Aug08   0:00
avahi-daemon: running [DCS-PRO-POL-APP2.local]",
"avahi     4831  0.0  0.0  23172   340 ?        Ss   Aug08   0:00
avahi-daemon: chroot helper",
"dbus      4361  0.0  0.0  21380  1004 ?        Ss   Aug08   0:00
dbus-daemon --system",
"gdm       5030  0.0  0.2 222128 17436 ?        Ss   Aug08
0:00 /usr/libexec/gdmgreeter",
"root      4292  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/6]",
"root      4293  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/7]",
"root      4294  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/8]",
"root      4295  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/9]",
"root      4296  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/10]",
"root      4297  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/11]",
"root      4298  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/12]",
"root      4299  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/13]",
"root      4300  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/14]",
"root      4301  0.0  0.0      0     0 ?        S<   Aug08   0:00
[rpciod/15]",
"root      4322  0.0  0.0  10184   804 ?        Ss   Aug08   0:00
rpc.statd",
"root      4346  0.0  0.0  55204   764 ?        Ss   Aug08   0:00
rpc.idmapd",
"root      4376  0.0  0.0  10456   788 ?        Ss   Aug08
0:00 /usr/sbin/hcid",
"root      4382  0.0  0.0   5960   544 ?        Ss   Aug08
0:00 /usr/sbin/sdpd",
"root      4448  0.0  0.0      0     0 ?        S<   Aug08   0:00
[krfcommd]",
"root      4485  0.0  0.0  31440  1412 ?        Ssl  Aug08   0:00 pcscd",
"root      4495  0.0  0.0   3824   568 ?        Ss   Aug08
0:00 /usr/sbin/acpid",
"root      4505  0.0  0.0  21720  1060 ?        S    Aug08   0:00
hald-runner",
"root      4529  0.0  0.0  10256   704 ?        S    Aug08   1:57
hald-addon-storage: polling /dev/sr0",
"root      4565  0.0  0.0   8540   488 ?        Ss   Aug08
0:00 /usr/bin/hidd --server",
"root      4608  0.0  0.0  54424  1520 ?        Ssl  Aug08   0:00
automount",
"root      4625  0.0  0.0  26348   520 ?        Ss   Aug08   0:00 ./hpiod",
"root      4630  0.0  0.0 154892  6428 ?        S    Aug08
0:00 /usr/bin/python ./hpssd.py",
"root      4643  0.0  0.0  62652  1208 ?        Ss   Aug08
0:00 /usr/sbin/sshd",
"root      4652  0.0  0.0 133456  2740 ?        Ss   Aug08   0:00 cupsd",
"root      4666  0.0  0.0  21668   896 ?        Ss   Aug08   0:00 xinetd
-stayalive -pidfile /var/run/xinetd.pid",
"root      4684  0.0  0.0  66968  2320 ?        Ss   Aug08   0:00 sendmail:
accepting connections",
"root      4702  0.0  0.0   6480   376 ?        Ss   Aug08   0:00 gpm
-m /dev/input/mice -t exps2",
"root      4712  0.0  0.0 174440  3800 ?        Ss   Aug08
0:00 /usr/sbin/httpd",
"root      4767  0.0  0.0 135536  2800 ?        Ss   Aug08   0:00 smbd -D",
"root      4770  0.0  0.0 107776  1544 ?        Ss   Aug08   0:00 nmbd -D",
"root      4777  0.0  0.0 135536  1400 ?        S    Aug08   0:00 smbd -D",
"root      4788  0.0  0.0  18756   448 ?        Ss   Aug08
0:00 /usr/sbin/atd",
"root      4892  0.0  0.0  18440   480 ?        S    Aug08
0:00 /usr/sbin/smartd -q never",
"root      4897  0.0  0.0   3816   488 tty1     Ss+  Aug08
0:00 /sbin/mingetty tty1",
"root      4898  0.0  0.0   3816   484 tty2     Ss+  Aug08
0:00 /sbin/mingetty tty2",
"root      4899  0.0  0.0   3816   488 tty3     Ss+  Aug08
0:00 /sbin/mingetty tty3",
"root      4900  0.0  0.0   3816   488 tty4     Ss+  Aug08
0:00 /sbin/mingetty tty4",
"root      4902  0.0  0.0   3816   484 tty5     Ss+  Aug08
0:00 /sbin/mingetty tty5",
"root      4903  0.0  0.0   3816   488 tty6     Ss+  Aug08
0:00 /sbin/mingetty tty6",
"root      4906  0.0  0.0 167660  2608 ?        Ss   Aug08
0:00 /usr/sbin/gdm-binary -nodaemon",
"root      5001  0.0  0.0 194772  2356 ?        S    Aug08
0:00 /usr/sbin/gdm-binary -nodaemon",
"root      5003  0.0  0.0 255436  4132 ?        Sl   Aug08
0:00 /usr/libexec/gdm-rh-security-token-helper",
"root      5004  0.0  0.0  83896  6024 tty7     Ss+  Aug08
0:02 /usr/bin/Xorg :0 -br -audit 0 -auth /var/gdm/:0.Xauth -nolisten tcp
vt7",
"root      5017  0.0  0.1 256812 15804 ?        SN   Aug08
0:00 /usr/bin/python -tt /usr/sbin/yum-updatesd",
"root      5019  0.0  0.0  12940  1184 ?        SN   Aug08
0:00 /usr/libexec/gam_server",
"root     10358  0.0  0.0  63888  1204 ?        S    Aug12   0:00
sh /app/rdbapp/Jboss-4.0.3-Node1/bin/run.sh -c node2 -b 172.20.100.3",
"root     10396  2.0 19.2 2757996 1571000 ?     Sl   Aug12  39:10 java
-server -Xms1280m -Xmx1280m -XX:MaxPermSize=768m
-Djava.endorsed.dirs=/app/rdbapp/Jboss-4.0.3-Node",
"root     11041  0.0  0.0  74860  1152 ?        Ss   Aug09   0:00 crond",
"root     11119  0.0  0.0  90152  3436 ?        Ss   Aug12   0:00 sshd:
root at pts/2",
"root     11121  0.0  0.0  66228  1736 pts/2    Ss+  Aug12   0:00 -bash",
"root     18898  0.0  0.0  90152  3420 ?        Ss   09:00   0:01 sshd:
root at pts/1",
"root     18902  0.0  0.0  66224  1640 pts/1    Ss+  09:00   0:00 -bash",
"root     21046  0.0  0.0  90152  3444 ?        Ss   12:22   0:02 sshd:
root at pts/3",
"root     21048  0.0  0.0  66240  1736 pts/3    Ss   12:22   0:00 -bash",
"root     25929  0.0  0.0      0     0 ?        S    16:56   0:00
[pdflush]",
"root     25936  0.0  0.0      0     0 ?        S    16:57   0:00
[pdflush]",
"root     25949  0.1  0.0  91320  4628 ?        Ss   17:00   0:04 sshd:
root at notty",
"root     25951  0.0  0.0  54040  2192 ?        Ss   17:00
0:00 /usr/libexec/openssh/sftp-server",
"root     26312  0.0  0.0  65892  1240 pts/3    R+   17:48   0:00 ps aux
--sort pmem",
"smmsp     4692  0.0  0.0  57716  1768 ?        Ss   Aug08   0:00 sendmail:
Queue runner at 01:00:00 for /var/spool/clientmqueue",
"xfs       4758  0.0  0.0  20984  1792 ?        Ss   Aug08   0:00 xfs
-droppriv -daemon"
), class = "factor")), .Names =
"USER.......PID..CPU..MEM....VSZ...RSS.TTY......STAT.START...TIME.COMMAND",
row.names = c(NA,
20L), class = "data.frame")
>


                                                                            
                                                                            
                                                                            
   Re: [R] Output from unix PS                                              
                                                                            
                                                                            
   Sarah Goslee                                                             
                 to:                                                        
                   mohan.radhakrishnan                                      
                                                        16-08-2013 06:44 PM 
                                                                            
                                                                            
                                                                            
                                                                            
   Cc:                                                                      
       r-help                                                               
                                                                            
                                                                            
                                                                            
                                                                            





What does str(yourdata) return?

How about including
dput(head(yourdata, 20)) in your email to create a reproducible example?

Sarah

On Fri, Aug 16, 2013 at 9:08 AM,  <mohan.radhakrishnan at polarisft.com>
wrote:
> My code is not complete. But the headers I see are
>
> USER       PID %CPU %MEM    VSZ   RSS TTY      STAT START   TIME COMMAND
> 68        4517  0.0  0.0  12348   864 ?        S    Aug08   0:00
> hald-addon-keyboard: listening on /dev/input/event1
> 68        4521  0.0  0.0  12348   860 ?        S    Aug08   0:00
> hald-addon-keyboard: listening on /dev/input/event0
> root      4529  0.0  0.0  10256   704 ?        S    Aug08   1:57
> hald-addon-storage: polling /dev/sr0
>
> The last column value doesn't follow any rule.
>
> Thanks,
> Mohan
>
>
>
>
>
>    Re: [R] Output from unix PS
>
>
>    Sarah Goslee
>                  to:
>                    mohan.radhakrishnan
>                                                         16-08-2013 06:01
PM
>
>
> You don't tell us your OS details or provide an actual reproducible
> example, but the error suggests that COMMAND is not one of the column
> names in your data frame.
>
> Have you checked that? When I run ps on my Fedora system, the column
> name is CMD and not COMMAND.
>
> Sarah
>
> On Fri, Aug 16, 2013 at 7:30 AM,  <mohan.radhakrishnan at polarisft.com>
> wrote:
>> Hi,
>>
>> When I view this output from the unix command ''ps'' the columns seem to
>> properly aligned but it is not read properly into the data frame. The
>> aggregate function throws
>>
>> Error in aggregate.data.frame(data, by = list(COMMAND), FUN = sum) :
>>   object 'COMMAND' not found
>>
>> Is there a recomendation to massage this ?
>>
>> data = read.table("D:\\p..txt",sep="\t")
>>
>> agg<-aggregate(data,by=list(COMMAND),FUN=sum)
>>
>> 68        4524  0.0  0.0  12348   872 ?        S    Aug09   0:00
>> hald-addon-acpi: listening on acpid socket /var/run/acpid.socket
>> 68        4528  0.0  0.0  12348   860 ?        S    Aug09   0:00
>> hald-addon-keyboard: listening on /dev/input/event1
>> 68        4532  0.0  0.0  12348   864 ?        S    Aug09   0:00
>> hald-addon-keyboard: listening on /dev/input/event0
>> root      4540  0.0  0.0  10256   704 ?        S    Aug09   1:02
>> hald-addon-storage: polling /dev/sr0
>> root      4576  0.0  0.0   8540   492 ?        Ss   Aug09
>> 0:00 /usr/bin/hidd --server
>> root      4619  0.0  0.0 122008  1540 ?        Ssl  Aug09   0:00
> automount
>> root      4636  0.0  0.0  26348   524 ?        Ss   Aug09   0:00 ./hpiod
>> root      4641  0.0  0.0 154876  6428 ?        S    Aug09
>> 0:00 /usr/bin/python ./hpssd.py
>> root      4654  0.0  0.0  63544  1212 ?        Ss   Aug09
>> 0:00 /usr/sbin/sshd
>> root      4663  0.0  0.0 134208  2744 ?        Ss   Aug09   0:00 cupsd
>> root      4677  0.0  0.0  21668   896 ?        Ss   Aug09   0:00 xinetd
>> -stayalive -pidfile /var/run/xinetd.pid
>> root      4695  0.0  0.0  66968  2324 ?        Ss   Aug09   0:00
> sendmail:
>> accepting connections
>> smmsp     4703  0.0  0.0  57716  1760 ?        Ss   Aug09   0:00
> sendmail:
>> Queue runner at 01:00:00 for /var/spool/clientmqueue
>> root      4713  0.0  0.0   6480   372 ?        Ss   Aug09   0:00 gpm
>> -m /dev/input/mice -t exps2
>>
>> Thanks.
>>
>>
>>
> --
> Sarah Goslee
> http://www.functionaldiversity.org
>
>




This e-Mail may contain proprietary and confidential information and is sent for the intended recipient(s) only.  If by an addressing or transmission error this mail has been misdirected to you, you are requested to delete this mail immediately. You are also hereby notified that any use, any form of reproduction, dissemination, copying, disclosure, modification, distribution and/or publication of this e-mail message, contents or its attachment other than by its intended recipient/s is strictly prohibited.

Visit us at http://www.polarisFT.com



More information about the R-help mailing list