Strange issues while upgrading ports

[Kaya Saman]

Hi,

I'm running FreeBSD version 8.0 x64 edition on my server with multiple 
jails.

#uname -a

FreeBSD Server 8.0-RELEASE FreeBSD 8.0-RELEASE #0: Sat Nov 21 15:02:08 
UTC 2009     root at mason.cse.buffalo.edu:/usr/obj/usr/src/sys/GENERIC  amd64


A few weeks back I performed a portupgrade on all my installed ports for 
the / root filesystem (not jails).


I used the:

portsnap fetch extract upgrade

command in order to get the latest editions of each port.

Then ran portupgrade -a


for some weird reason the packages listed below didn't get upgraded; 
upon the error output 'portupgrade' was trying to replace the port with 
the same version: eg. apache-2.2.13 error came up with the fact that 
apache-2.2.13 was to be installed again but was already installed so I 
needed to run: make deinstall; make install; make clean in order to 
re-install apache22......


# pkg_version -v | grep updating
adodb-4.99.1 <   needs updating (port has 4.99.2)
apache-2.2.13 <   needs updating (port has 2.2.21)
cacti-0.8.7g <   needs updating (port has 0.8.7h)
curl-7.20.1 <   needs updating (port has 7.21.3_2)
drupal5-5.20 <   needs updating (port has 5.22)
gtk-2.16.6 <   needs updating (port has 2.24.6)
libltdl-2.2.6a <   needs updating (port has 2.2.6b)
mod_python-3.3.1_2 <   needs updating (port has 3.3.1_3)
mpg123-1.9.0 <   needs updating (port has 1.13.4)
mutt-1.4.2.3_3 <   needs updating (port has 1.4.2.3_6)
oss-4.2.b2000 <   needs updating (port has 4.2.b2005)
php5-5.2.11 <   needs updating (port has 5.3.8)
php5-bcmath-5.2.11 <   needs updating (port has 5.3.8)
php5-gd-5.2.11 <   needs updating (port has 5.3.8)
php5-mbstring-5.2.11 <   needs updating (port has 5.3.8)
php5-mysql-5.2.11 <   needs updating (port has 5.3.8)
php5-pcre-5.2.11 <   needs updating (port has 5.3.8)
php5-session-5.2.11 <   needs updating (port has 5.3.8)
php5-simplexml-5.2.11 <   needs updating (port has 5.3.8)
php5-snmp-5.2.11 <   needs updating (port has 5.3.8)
php5-sockets-5.2.11 <   needs updating (port has 5.3.8)
php5-spl-5.2.11 <   needs updating (port has 5.3.8)
php5-sqlite-5.2.11 <   needs updating (port has 5.3.8)
php5-xml-5.2.11 <   needs updating (port has 5.3.8)
squid-2.7.7 <   needs updating (port has 2.7.9_1)
xmms2-0.6_1 <   needs updating (port has 0.7_2)


I really can't work out why the versions specified from pkg_version -v 
are not in my ports tree even with updating it with the latest versions??


Additionally I have an issue with Munin and Logwatch since the upgrade 
in that Munin comes up with this error in /var/log/messages:

Nov 25 12:03:03 <user.notice> Server kernel: <6>pid 72181 (perl), uid 
1001: exited on signal 11

(UID of Munin is 1001), and no data is generated in the graphs.


Logwatch doesn't output the full information anymore:


  ################### Logwatch 7.4.0 (03/01/11) ####################
         Processing Initiated: Fri Nov 25 04:02:02 2011
         Date Range Processed: yesterday
                               ( 2011-Nov-24 )
                               Period is day.
         Detail Level of Output: 10
         Type of Output/Format: mail / text
         Logfiles for Host: Server
   ##################################################################

  --------------------- Disk Space Begin ------------------------

  Filesystem  512-blocks       Used      Avail Capacity  Mounted on
  /dev/ad4s1a   71079512   43091732   22301420    66%    /
  devfs                2          2          0   100%    /dev
  ZFS_POOL_1  7662907136 5955981824 1706925312    78%    /mnt/zfs
  devfs                2          2          0   100%    /var/jail/named_1/dev
  devfs                2          2          0   100%    /var/jail/named_2/dev
  devfs                2          2          0   100%    /var/jail/squid/dev
  devfs                2          2          0   100%    /var/jail/postfix/dev
  devfs                2          2          0   100%    /mnt/zfs/jail/imap/dev

  devfs =>  100% Used. Warning. Disk Filling up.
  devfs =>  100% Used. Warning. Disk Filling up.
  devfs =>  100% Used. Warning. Disk Filling up.
  devfs =>  100% Used. Warning. Disk Filling up.
  devfs =>  100% Used. Warning. Disk Filling up.
  devfs =>  100% Used. Warning. Disk Filling up.

  ---------------------- Disk Space End -------------------------


  ###################### Logwatch End #########################


and instead just shows the above.


I'm guessing there's a problem with Perl reading the logfiles hence the 
fact that it's mentioned in Munin's error log in Messages and the fact 
that logwatch is basically a Perl script.


Can anyone help with my issues??

Thanks.


Kaya