100% CPU and HD Usage For at least 3 Hours at a Time

My PC has an ASUS P5PE-VM motherboard with 495.3MiB RAM and Intel
Celeron D 3.33MHz. Kernel Linux 2.6.24-19-generic. Available disk space
140.3GiB.

I installed Hardy Heron (for the second time) on 01 July 2008. I
installed it from the LiveCD image in a clean partition on my hard
drive. I have downloaded and installed all updates and confirmed the
update lists regularly. My partitions are:

/dev/sda1 ext3 root partition 20.00 GiB Hardy: clean at install time
/dev/sda3 swap                 2.00 GiB
/dev/sda4 ext3 unmounted      20.00 GiB for next Ubuntu LTS
/dev/sda2 ext3 /home         190.88 GiB contains my on-going /home

I set Swapon in Gparted, but every time I re-boot, I find that swap has
been reset to "off". How do I make it stay on?

THE PROBLEM

Every few days, I suddenly lose all control of my machine. The mouse
only responds about once every few seconds. All open application windows
grey-out. The disk starts hammering away. If I can manage to get the
mouse cursor to the upper tool bar to click on System, It takes 15 to 20
minutes for the System menu to open. Effectively, I have no control of
my computer. The problem can occur with or without applications running.
It appears to be independent of open applications. It can occur with no
applications running.

I mentioned this problem on Launchpad 16 July 2008 (bug 249123). At the
time, through a series of coincidences, I wrongly deduced that amule was
the culprit. I therefore decided to give Hardy a few weeks of soak
testing before making any further proclamation about the problem.

I have taken to opening the System Monitor every time I start a session
to try to catch the process that is occupying the CPU. However, the
rogue process offers so little time to other processes that the System
Monitor cannot never update its display. Apart from the monitor itself
occupying 3 to 4% of CPU time, all other processes are shown as sleeping
(0% CPU). This is not the true state of the system since the monitor's
display is frozen.

I have left the rogue process running for as much as 3 hours at a time,
but obviously, I do have work to do and so I have no option but to pull
the power cord and re-boot. After a re-boot, I notice that there is
always at least one orphaned inode. After a re-boot, I get a few hours
of use of my computer before the rogue process starts again. I have
never allowed the rogue process to go on for more than 3 hours because I
suspect that the process may be looping and would thus go on forever.

I suspected that it might be an indexer of some kind that was not
running "nice". I removed Tracker from my installation completely.
Tracker was not the culprit. Later, I suspected amule. I thought it may
be creating hashes of all the files on my hard drive. I disables amule.
Amule was not the culprit either.

The best guess I can come up with is that it may be something being run
by anacron. The process tries several times to re-run after I pull the
power cord and re-boot. It then leaves me in peace for a few days. A few
days later, it starts all over again. It does not seem to correspond to
any of the anacron time periods. However, this may be because, having
failed to complete on one occasion, it tries the same run again several
times.

The only remaining thought I can come up with is the size of my hard
drive, which is 250 GB with a home partition of 190.88GiB. Could one of
the indexers run by anacron be finding difficulty here. Also, since swap
gets switched off for some reason every time I re-boot, my system is
usually running without swap. Could this be a factor? Why does the
kernel scheduler permit a process to occupy the CPU so solidly?

I really have no idea what the rogue process is or what it does.
Nevertheless, it does, for all practical purposes render Hardy Heron, at
least for the time being, unusable as an operating system for serious
work.

Please could you shed any light on this issue.

Sincerely, Rob Morton

-- 
Ubuntu 8.04 : after installing april 8/2008 updates, hard drive led never stops 
flashing and CPU consuption is VERY high
https://bugs.launchpad.net/bugs/214763
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