wiki:LennyToSqueeze

Version 14 (modified by chris, 5 years ago) (diff)

--

This page is to document the upgrade of the DevelopmentServer and the NewLiveServer from Denian lenny to squeeze, this upgrade was tracked on ticket:301.

Issues for Live

  • ab, which is used for triggering the cron.php script via cron has moved from /usr/sbin/ab to /usr/bin/ab so cron jobs need checking.
  • pecl install uploadprogress needs to be run
  • A manual mysql dump and import needs to be done

Kiwi Upgrade Log

Following http://www.debian.org/releases/stable/amd64/release-notes/ch-upgrading.en.html to upgrade kiwi.

sudo -i
screen
script -t 2>~/upgrade-squeeze1.time -a ~/upgrade-squeeze1.script

Existing state of packages was checked with apt and aptitude:

audacity # a
dpkg --audit
dpkg -l | pager
dpkg --get-selections "*" > ~/curr-pkgs.txt

All the backup scripts were run via ninjahelper.

The following edit was done to /etc/apt/sources.list:

:1,$s/lenny/squeeze/

Then:

apt-get update
apt-get upgrade

...

The following packages have been kept back:
  apache2 apache2-mpm-prefork apache2.2-common apt apt-utils aptitude autoconf automake bash bind9-host
  binutils build-essential cpio cpp cpp-4.3 cron dbus debianutils dhcp3-client dhcp3-common diff
  djvulibre-desktop dnsutils dpkg dpkg-dev e2fsprogs ed findutils g++ g++-4.3 gcc gcc-4.3 gcc-4.3-base gettext
  ghostscript gnuit gnupg gpgv grep html2text hwinfo imagemagick info iproute iptables jed jed-common
  libapache2-mod-php5 libapache2-svn libaprutil1 libbluetooth-dev libc6 libc6-dev libcompress-raw-zlib-perl
  libcompress-zlib-perl libcups2 libcupsimage2 libcurl3 libcurl3-gnutls libdate-manip-perl libdbd-mysql-perl
  libdbi-perl libdevmapper1.02.1 libdigest-sha1-perl libdjvulibre21 libedit2 libffi-dev libffi5 libgcc1
  libgdbm-dev libgdbm3 libglib2.0-0 libglib2.0-data libgomp1 libgs8 libgsf-1-114 libgtk2.0-0 libgtk2.0-bin
  libhtml-parser-perl libio-compress-base-perl libio-compress-zlib-perl libkrb53 liblocale-gettext-perl
  libmail-box-perl libneon27-gnutls libpam-modules libpam-runtime libpango1.0-0 libpq5 librrd4 librrds-perl
  librsvg2-2 libsasl2-2 libsqlite3-0 libstdc++6 libstdc++6-4.3-dev libsvn-perl libsvn1 libthai-data libthai0
  libts-0.0-0 libx11-6 libx11-dev libxcb1 libxcb1-dev libxi6 locales lynx lynx-cur m4 man-db memcached munin
  munin-node mutt mysql-server nano ntp openssh-client openssh-server perl perl-base perl-modules php-apc
  php-pear php5 php5-cli php5-common php5-curl php5-dev php5-gd php5-imagick php5-mcrypt php5-memcache
  php5-mysql php5-suhosin phpmyadmin postfix python python-minimal python-pysqlite2 python-subversion python2.5
  python2.5-minimal rdate readline-common rrdtool screen sed sqlite3 subversion sudo sysv-rc udev update-inetd
  util-linux util-linux-locales wget x11-utils xterm
The following packages will be upgraded:
  adduser apache2-utils automake1.4 automake1.9 autotools-dev backupninja base-files base-passwd blt blt-dev
  bsd-mailx bsdmainutils bsdutils bzip2 ca-certificates coreutils curl db4.6-util dbus-x11 debconf debconf-i18n
  debconf-utils debhelper debian-archive-keyring defoma denyhosts dialog dmidecode e2fslibs esmtp file
  fontconfig fontconfig-config gawk gettext-base git git-core groff-base gs-common gsfonts gzip hdparm
  hicolor-icon-theme hostname ifupdown initscripts iputils-ping javascript-common joe less libacl1 libapr1
  libatk1.0-0 libatk1.0-data libattr1 libblkid1 libbz2-1.0 libbz2-dev libcairo2 libcap2 libcomerr2
  libconfig-inifiles-perl libconsole libcroco3 libcwidget3 libdb4.6 libdbus-1-3 libdigest-hmac-perl libdrm2
  libesmtp5 libexpat1 libfile-remove-perl libfontconfig1 libfontenc1 libfreetype6 libgcrypt11 libgd2-xpm
  libgl1-mesa-glx libgmp3c2 libgnutls26 libgpg-error0 libgpm2 libgsf-1-common libgtk2.0-common libhal1
  libhtml-template-perl libhtml-tree-perl libice-dev libice6 libidn11 libilmbase6 libio-multiplex-perl
  libjasper1 libjpeg62 libjs-jquery libkeyutils1 liblcms1 libldap-2.4-2 liblockfile1 libmagic-dev libmagic1
  libmail-sendmail-perl libmailtools-perl libmcrypt4 libmime-lite-perl libmime-types-perl libncurses5
  libncurses5-dev libncursesw5 libncursesw5-dev libnet-cidr-perl libnet-daemon-perl libnet-snmp-perl
  libnewt0.52 libobject-realize-later-perl libopenexr6 libpam0g libpango1.0-common libpaper-utils libpaper1
  libpcre3 libpixman-1-0 libplrpc-perl libpng12-0 libpopt0 libpthread-stubs0 libpthread-stubs0-dev libreadline5
  libreadline5-dev librsync1 libselinux1 libsepol1 libserf-0-0 libsigc++-2.0-0c2a libslang2 libsm-dev libsm6
  libss2 libssh2-1 libssl-dev libssl0.9.8 libsysfs2 libtasn1-3 libtext-charwidth-perl libtext-iconv-perl
  libtext-wrapi18n-perl libtidy-0.99-0 libtiff4 libtimedate-perl libtool liburi-perl libusb-0.1-4
  libuser-identity-perl libuuid1 libwmf0.2-7 libwrap0 libwww-perl libx11-data libxau-dev libxau6 libxaw7
  libxcb-render-util0 libxcb-render0 libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxext6
  libxfixes3 libxfont1 libxft2 libxinerama1 libxml2 libxmu6 libxmuu1 libxpm4 libxrandr2 libxrender1 libxslt1.1
  libxt-dev libxt6 libxtst6 libxv1 libxxf86dga1 libxxf86vm1 linux-libc-dev locate login logrotate lsb-base
  lsb-release make makedev manpages mawk mime-support mktemp module-init-tools mount munin-plugins-extra
  mysql-common ncftp ncurses-base ncurses-bin net-tools netbase openssl openssl-blacklist passwd patch
  po-debconf procps psfontmgr psmisc pwgen python-central python-chardet python-dnspython python-genshi
  python-pkg-resources python-pygments python-pylibacl python-pyxattr python-setuptools python-support
  python-tz rdiff-backup rsync rsyslog sgml-base shtool ssh ssl-cert subversion-tools sysvinit sysvinit-utils
  tar tasksel tasksel-data tcl8.4 tcl8.4-dev tcpd tidy tk8.4 tk8.4-dev trac trac-spamfilter traceroute
  ttf-dejavu ttf-dejavu-core ttf-dejavu-extra tzdata ucf unzip vim vim-common vim-runtime vim-tiny vsftpd
  whiptail whois wwwconfig-common x-ttcidfont-conf x11-common x11proto-core-dev x11proto-input-dev
  x11proto-kb-dev xauth xbitmaps xfonts-encodings xfonts-utils xml-core xsltproc xtrans-dev zlib1g zlib1g-dev
277 upgraded, 0 newly installed, 0 to remove and 160 not upgraded.
Need to get 92.0MB of archives.
After this operation, 21.6MB of additional disk space will be used.
Do you want to continue [Y/n]? 

Configuration file `/etc/securetty'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : background this process to examine the situation
 The default action is to keep your current version.
*** securetty (Y/I/N/O/D/Z) [default=N] ? N

 Services to restart for PAM library upgrade:                                                                          │  
 │                                                                                                                       │  
 │ vsftpd cron

Configuration file `/etc/sysctl.conf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : background this process to examine the situation
 The default action is to keep your current version.
*** sysctl.conf (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/mysql/my.cnf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : background this process to examine the situation
 The default action is to keep your current version.
*** my.cnf (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/vsftpd.conf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : background this process to examine the situation
 The default action is to keep your current version.
*** vsftpd.conf (Y/I/N/O/D/Z) [default=N] ? N

And then the full upgrade:

apt-get -d dist-upgrade

The following packages will be REMOVED
  libdatrie0 libept0 libgraphviz4 libmagick10 libxcb-xlib0 libxcb-xlib0-dev mysql-server mysql-server-5.0
The following NEW packages will be installed
  apache2.2-bin apt-xapian-index autopoint cpp-4.4 dash dbconfig-common diffutils dmsetup exiv2 fakeroot g++-4.4 gcc-4.4
  gcc-4.4-base geoip-database gnupg-curl insserv install-info isc-dhcp-client isc-dhcp-common iso-codes
  libalgorithm-diff-perl libalgorithm-diff-xs-perl libalgorithm-merge-perl libaprutil1-dbd-sqlite3 libaprutil1-ldap
  libavahi-client3 libavahi-common-data libavahi-common3 libbind9-60 libbluetooth3 libboost-iostreams1.42.0 libbsd0
  libc-bin libc-dev-bin libcdt4 libcompress-raw-bzip2-perl libdatrie1 libdb4.7 libdb4.8 libdbi0 libdjvulibre-text libdns69
  libdpkg-perl libept1 libevent-1.4-2 libexiv2-9 libfile-copy-recursive-perl libgeoip1 libgpgme11 libgraph4
  libgssapi-krb5-2 libgvc5 libhd16 libio-compress-perl libipc-shareable-perl libisc62 libisccc60 libisccfg62 libjbig2dec0
  libjs-mootools libk5crypto3 libkrb5-3 libkrb5support0 liblog-dispatch-perl liblog-log4perl-perl liblqr-1-0 libltdl7
  liblwres60 liblzma2 libmagickcore3 libmagickcore3-extra libmagickwand3 libmpfr4 libmysqlclient16 libnetpbm10
  libnfnetlink0 libonig2 libopts25 libparams-validate-perl libpathplan4 libpci3 libpth20 libqdbm14 libreadline6
  libsasl2-modules libslang2-modules libstdc++6-4.4-dev libtest-pod-perl libtokyocabinet8 libudev0 libunistring0
  libutempter0 libxapian22 libxcb-atom1 libxdot4 libyaml-syck-perl lockfile-progs manpages-dev munin-common
  mysql-server-core-5.1 netpbm pciutils python-apt python-apt-common python-debian python-xapian python2.6
  python2.6-minimal sensible-utils shared-mime-info slsh tsconf ufraw-batch usbutils xz-utils
The following packages will be upgraded:
  apache2 apache2-mpm-prefork apache2.2-common apt apt-utils aptitude autoconf automake bash bind9-host binutils
  build-essential cpio cpp cpp-4.3 cron dbus debianutils dhcp3-client dhcp3-common diff djvulibre-desktop dnsutils dpkg
  dpkg-dev e2fsprogs ed findutils g++ g++-4.3 gcc gcc-4.3 gcc-4.3-base gettext ghostscript gnuit gnupg gpgv grep html2text
  hwinfo imagemagick info iproute iptables jed jed-common libapache2-mod-php5 libapache2-svn libaprutil1 libbluetooth-dev
  libc6 libc6-dev libcompress-raw-zlib-perl libcompress-zlib-perl libcups2 libcupsimage2 libcurl3 libcurl3-gnutls
  libdate-manip-perl libdbd-mysql-perl libdbi-perl libdevmapper1.02.1 libdigest-sha1-perl libdjvulibre21 libedit2
  libffi-dev libffi5 libgcc1 libgdbm-dev libgdbm3 libglib2.0-0 libglib2.0-data libgomp1 libgs8 libgsf-1-114 libgtk2.0-0
  libgtk2.0-bin libhtml-parser-perl libio-compress-base-perl libio-compress-zlib-perl libkrb53 liblocale-gettext-perl
  libmail-box-perl libneon27-gnutls libpam-modules libpam-runtime libpango1.0-0 libpq5 librrd4 librrds-perl librsvg2-2
  libsasl2-2 libsqlite3-0 libstdc++6 libstdc++6-4.3-dev libsvn-perl libsvn1 libthai-data libthai0 libts-0.0-0 libx11-6
  libx11-dev libxcb1 libxcb1-dev libxi6 locales lynx lynx-cur m4 man-db memcached munin munin-node mutt nano ntp
  openssh-client openssh-server perl perl-base perl-modules php-apc php-pear php5 php5-cli php5-common php5-curl php5-dev
  php5-gd php5-imagick php5-mcrypt php5-memcache php5-mysql php5-suhosin phpmyadmin postfix python python-minimal
  python-pysqlite2 python-subversion python2.5 python2.5-minimal rdate readline-common rrdtool screen sed sqlite3
  subversion sudo sysv-rc udev update-inetd util-linux util-linux-locales wget x11-utils xterm
159 upgraded, 115 newly installed, 8 to remove and 0 not upgraded.
Need to get 182MB of archives.
After this operation, 104MB of additional disk space will be used.
Do you want to continue [Y/n]? y

apt-get dist-upgrade

 │ Use dash as the default system shell (/bin/sh)?                                                                       │  
 │                                                                                                                       │  
 │                                   <Yes> 

 │ Services to restart for GNU libc library upgrade:                                                                     │  
 │                                                                                                                       │  
 │ vsftpd ssh postfix mysql cron apache2_
 │                                                                                                                       │  
 │                                                        <Ok>  

Restarting services possibly affected by the upgrade:
  vsftpd: restarting...done.
  ssh: restarting...done.
  postfix: restarting...done.
  mysql: restarting...done.
  cron: restarting...done.
  apache2: restarting...done.

Services restarted successfully.

 ┌────────────────────────────────────────────────┤ Configuring sysv-rc ├────────────────────────────────────────────────┐  
 │                                                                                                                       │  
 │ The boot system is prepared to migrate to dependency-based sequencing. This is an irreversible step, but one that is  │  
 │ recommended: it allows the boot process to be optimized for speed and efficiency, and provides a more resilient       │  
 │ framework for development.                                                                                            │  
 │                                                                                                                       │  
 │ A full rationale is detailed in /usr/share/doc/sysv-rc/README.Debian. If you choose not to migrate now, you can do    │  
 │ so later by running "dpkg-reconfigure sysv-rc".                                                                       │  
 │                                                                                                                       │  
 │ Migrate legacy boot sequencing to dependency-based sequencing?                                                        │  
 │                                                                                                                       │  
 │                                   <No> 

warning: Asked to not convert legacy boot sequence to dependency based boot sequencing.        

 │ A new version of configuration file /etc/php5/cli/php.ini is available, but the version installed currently has been  │  
 │ locally modified.                                                                                                     │  
 │                                                                                                                       │  
 │ What do you want to do about modified configuration file php.ini?                                                     │  
 │                                                                                                                       │  
 │                                  keep the local version currently installed                                           │  
 │                                                                                                                       │  
 │                                                                                                                       │  
 │                                                        <Ok>         


Configuration file `/etc/php5/conf.d/suhosin.ini'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** suhosin.ini (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/apache2/ports.conf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** ports.conf (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/apache2/mods-available/mime.conf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** mime.conf (Y/I/N/O/D/Z) [default=N] ? Y

Configuration file `/etc/apache2/mods-available/deflate.conf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** deflate.conf (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/apache2/sites-available/default-ssl'
 ==> Deleted (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** default-ssl (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/apache2/sites-available/default'
 ==> Deleted (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** default (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/apache2/conf.d/security'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** security (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/apache2/apache2.conf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** apache2.conf (Y/I/N/O/D/Z) [default=N] ? N
Installing new version of config file /etc/bash_completion.d/apache2.2-common ...
activating new config files ...
 done.

 │ A new version of configuration file /etc/php5/apache2/php.ini is available, but the version installed currently has   │  
 │ been locally modified.                                                                                                │  
 │                                                                                                                       │  
 │ What do you want to do about modified configuration file php.ini?                                                     │  
 │                                                                                                                       │  
 │                                  keep the local version currently installed                                           │  
 │                                                                                                                       │  
 │                                                                                                                       │  
 │                                                        <Ok>  

Configuration file `/etc/munin/munin.conf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** munin.conf (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/munin/munin-node.conf'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** munin-node.conf (Y/I/N/O/D/Z) [default=N] ? N

Configuration file `/etc/munin/plugin-conf.d/munin-node'
 ==> Modified (by you or by a script) since installation.
 ==> Package distributor has shipped an updated version.
   What would you like to do about it ?  Your options are:
    Y or I  : install the package maintainer's version
    N or O  : keep your currently-installed version
      D     : show the differences between the versions
      Z     : start a shell to examine the situation
 The default action is to keep your current version.
*** munin-node (Y/I/N/O/D/Z) [default=N] ? N

 ┌──────────────────────────────────────────────┤ Configuring phpmyadmin ├───────────────────────────────────────────────┐  
 │                                                                                                                       │  
 │ The phpmyadmin package must have a database installed and configured before it can be used.  This can be optionally   │  
 │ handled with dbconfig-common.                                                                                         │  
 │                                                                                                                       │  
 │ If you are an advanced database administrator and know that you want to perform this configuration manually, or if    │  
 │ your database has already been installed and configured, you should refuse this option.  Details on what needs to be  │  
 │ done should most likely be provided in /usr/share/doc/phpmyadmin.                                                     │  
 │                                                                                                                       │  
 │ Otherwise, you should probably choose this option.                                                                    │  
 │                                                                                                                       │  
 │ Configure database for phpmyadmin with dbconfig-common?                                                               │  
 │                                                                                                                       │  
 │                                                                              <No>                                     │


See:

http://wiki.debian.org/LSBInitScripts/DependencyBasedBoot

Mysql wouldn't run.

aptitude safe-upgrade
The following packages will be REMOVED:  
  automake1.4{u} dbus-x11{u} djvulibre-desktop{u} g++-4.3{u} gnuit{u} gs-common{u} libbind9-50{u} 
  libbluetooth2{u} libdigest-hmac-perl{u} libdigest-sha1-perl{u} libdirectfb-1.0-0{u} libdns58{u} 
  libevent1{u} libfile-remove-perl{u} libhd14{u} libio-compress-base-perl{u} libio-compress-zlib-perl{u} 
  libio-stringy-perl{u} libisc50{u} libisccc50{u} libisccfg50{u} libkrb53{u} libltdl3{u} libltdl3-dev{u} 
  liblwres50{u} libmail-box-perl{u} libmpfr1ldbl{u} libobject-realize-later-perl{u} libpq5{u} 
  libstdc++6-4.3-dev{u} libsysfs2{u} libtest-pod-perl{u} libts-0.0-0{u} libuser-identity-perl{u} 
  mysql-server-core-5.1{u} openssl-blacklist{u} psfontmgr{u} tsconf{u} 
0 packages upgraded, 0 newly installed, 38 to remove and 0 not upgraded.
Need to get 0 B of archives. After unpacking 64.6 MB will be freed.
Do you want to continue? [Y/n/?] Y

 aptitude install mysql-server-5.1
The following NEW packages will be installed:
  mysql-client-5.1{ab} mysql-server-5.1 mysql-server-core-5.1{a} 
0 packages upgraded, 3 newly installed, 0 to remove and 0 not upgraded.
Need to get 16.7 MB/20.8 MB of archives. After unpacking 53.0 MB will be used.
The following packages have unmet dependencies:
  mysql-client-5.1: Conflicts: mysql-client-5.0 but 5.0.51a-24+lenny5 is installed.
The following actions will resolve these dependencies:

     Remove the following packages:
1)     mysql-client-5.0            

Accept this solution? [Y/n/q/?] y
The following NEW packages will be installed:
  mysql-client-5.1{a} mysql-server-5.1 mysql-server-core-5.1{a} 
The following packages will be REMOVED:
  mysql-client-5.0{a} 
0 packages upgraded, 3 newly installed, 1 to remove and 0 not upgraded.
Need to get 16.7 MB/20.8 MB of archives. After unpacking 33.2 MB will be used.
Do you want to continue? [Y/n/?] y


Starting MySQL database server: mysqld . . . . . . . . . . . . . . failed!
invoke-rc.d: initscript mysql, action "start" failed.
dpkg: error processing mysql-server-5.1 (--configure):
 subprocess installed post-installation script returned error exit status 1
configured to not write apport reports
                                      Errors were encountered while processing:
 mysql-server-5.1
E: Sub-process /usr/bin/dpkg returned an error code (1)
A package failed to install.  Trying to recover:
Setting up mysql-server-5.1 (5.1.49-3) ...
Stopping MySQL database server: mysqld.
Starting MySQL database server: mysqld . . . . . . . . . . . . . . failed!
invoke-rc.d: initscript mysql, action "start" failed.
dpkg: error processing mysql-server-5.1 (--configure):
 subprocess installed post-installation script returned error exit status 1
Errors were encountered while processing:
 mysql-server-5.1

From the syslog:

Sep 21 21:10:46 localhost mysqld_safe: Starting mysqld daemon with databases from /var/lib/mysql
Sep 21 21:10:46 localhost mysqld: 110921 21:10:46 [Warning] '--log_slow_queries' is deprecated and will be removed in a future release. Please use ''--slow_query_log'/'--slow_query_log_file'' instead.
Sep 21 21:10:46 localhost mysqld: 110921 21:10:46 [Note] Plugin 'FEDERATED' is disabled.
Sep 21 21:10:46 localhost mysqld: /usr/sbin/mysqld: Table 'mysql.plugin' doesn't exist
Sep 21 21:10:46 localhost mysqld: 110921 21:10:46 [ERROR] Can't open the mysql.plugin table. Please run mysql_upgrade to create it.
Sep 21 21:10:46 localhost mysqld: 110921 21:10:46  InnoDB: Started; log sequence number 0 16786674
Sep 21 21:10:46 localhost mysqld: 110921 21:10:46 [ERROR] /usr/sbin/mysqld: unknown option '--skip-bdb'
Sep 21 21:10:46 localhost mysqld: 110921 21:10:46 [ERROR] Aborting
Sep 21 21:10:46 localhost mysqld: 
Sep 21 21:10:46 localhost mysqld: 110921 21:10:46  InnoDB: Starting shutdown...
Sep 21 21:10:51 localhost mysqld: 110921 21:10:51  InnoDB: Shutdown completed; log sequence number 0 16786674
Sep 21 21:10:51 localhost mysqld: 110921 21:10:51 [Note] /usr/sbin/mysqld: Shutdown complete
Sep 21 21:10:51 localhost mysqld: 
Sep 21 21:10:51 localhost mysqld_safe: mysqld from pid file /var/run/mysqld/mysqld.pid ended

Upgrade attempt:

mysql_upgrade

Looking for 'mysql' as: mysql
Looking for 'mysqlcheck' as: mysqlcheck
Running 'mysqlcheck' with connection arguments: '--port=3306' '--socket=/var/run/mysqld/mysqld.sock' '--host=localhost' 
mysqlcheck: Got error: 2002: Can't connect to local MySQL server through socket '/var/run/mysqld/mysqld.sock' (2) when trying to connect
FATAL ERROR: Upgrade failed

Mysql was fixed by uninstalling it and reinstalling and also using the my.cnf.dpkg-dist and merging in the changed we had made and also dumping all the database files and reimporting them.

There was a problem with trac see ticket:301.

This was needed:

pecl install uploadprogress

A fsfs.conf files needed creating in the subversion repo's db directory before the backupninja backup would run, see http://linuxsysadminblog.com/2010/06/svnadmin-cant-open-file-svndbfsfs-conf-no-such-file-or-directory/

Varnish is pulled in via /etc/apt/sources.list.d/varnish.list which contains:

deb http://repo.varnish-cache.org/debian/ lenny varnish-2.1

And 3 is available for squeeze: https://www.varnish-cache.org/installation/debian

See: https://www.varnish-cache.org/docs/trunk/installation/upgrade.html

The changes to the config were saved to /etc/varnish/default.vcl.3.0 and the 2.1 settings backed up to /etc/varnish/default.vcl.2.1