[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-06-16 Thread jdacronym
Lately I've started to wonder if there isn't more than one bug at work
here.  The main barrier to my getting information about this is that I
can't save any files after the problem pops up.  The logs just stop and
then start up again when I restart the machine.

Have you noticed any strange activity by any of your programs BEFORE
your hard-drive goes read-only?  Also, what other programs does top show
eating up your CPU, besides dd, klogd and ksoftirqd?

Mostly, the three procs that are always there are usually accompanied by
firefox, though at least once I saw evince instead.  Lately the pattern
is that firefox suddenly starts thrashing, hopping from one core to the
other (I have a Core 2 Duo in this machine), and then after it stops, I
get the read-only file system and the deadlock with dd/klogd/ksoftirqd
and company.

I, sadly enough, don't have any USB keys or anything like that, but it
recently occurred to me that if I had one mounted, I could save the
output of dmesg or other programs on that, and sift through it for clues
later.  I just have to be sure that the programs I need (mount, umount,
sudo, dmesg, cp, df...) have been used recently, so they'll still be
paged into memory instead of on the hard disk where you only get
input/output errors.

Let me know if you find out anything. I'd love to get to the bottom of this too.
~jdacronym

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-06-05 Thread jdacronym
And yet again I'm having exactly the same problems.  Now I think Firefox
3 may be part of the issue.

This last time, when I unplugged the AC adapter and the laptop switched
over to battery power, my CPU started thrashing.  Last time this
happened it was firefox, so I am presuming that it was the case here (I
couldn't check top to verify this).

Plugging the power back in seemed to stop the thrashing, but the read-
only filesystem problem (which I've read is a last-ditch effort by Linux
to protect the disk and files) had come back, and a minute later my CPU
and disk bandwidth were being totally sucked up by firefox, dd, klogd
and ksoftirqd again.

Rob, you've been really helpful so far; is there anything in Firefox 3
that might freak out because of something going on with ACPI?  I've
switched to Firefox 2 for now; I'll see if the problem happens again.

Thanks for your help,
~jdacronym

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-06-07 Thread jdacronym
Okay, this time I managed to have dmesg paged in.  I missed some that
looked important, but at the end it was overblown with lines like:

sd 2:0:0:0: [sda] Result: hostbyte=DID_BAD_TARGET 
driverbyte=DRIVER_OK,SUGGEST_OK
end_request: I/O error, dev sda, sector 320811575

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-05-31 Thread jdacronym
Sorry, haven't checked this thread in a while.  Finals and all that.

I'm pretty sure nobody's logging into my machine remotely, but I'm not
quite sure how I'd check, short of obsessively checking "who".  I do
have several apache2 instances running:

$ ps -e | grep apache
 6069 ?00:00:00 apache2
25435 ?00:00:00 apache2
25436 ?00:00:00 apache2
25437 ?00:00:00 apache2
25438 ?00:00:00 apache2
25439 ?00:00:00 apache2

I'm not sure what they're there for.

I don't have BOINC installed, so that's not the problem

Oddly enough, some of the "symptoms" of this problem have occurred by
themselves recently.

For instance, yesterday I suddenly lost my entire filesystem.  Every
time I attempted to run something that I hadn't already run that
session, I got something like:

bash: - /usr/bin/perl: input/output error

However, I didn't have klogd or ksoftirqd eating up my CPU and disk
throughput.  I was just suddenly locked out.  I can only think that the
root partition must have been unmounted somehow, and only the programs
that were paged into memory at the time could still be run.  I couldn't
save anything to the disk either.

After some looking around on the net, I saw at least one reference
saying that having input/output errors like mine could be indicative of
a bad optical or hard drive (most of the bugreports were problems with
USB or CD/DVD drives).  I've since run smartctl -H and smartctl --all
against /dev/sda (my hdd):

$ sudo smartctl -H /dev/sda
smartctl version 5.38 [i686-pc-linux-gnu] Copyright (C) 2002-8 Bruce Allen
Home page is http://smartmontools.sourceforge.net/

=== START OF READ SMART DATA SECTION ===
SMART overall-health self-assessment test result: PASSED

I'll attach the output of smartctl --all /dev/sda with this message so
it doesn't take up lots of room here.  The upshot is my hard drive seems
healthy.  I'm glad it's not faulty hardware, but it also means I still
don't know what's wrong.

Also, recently I had a similar deadlock, where my CPU usage went through
the roof, but in this case after a little bit of me trying to figure out
what was going on, Xorg died, and I was left with a blank screen and
blinking cursor (the machine was unresponsive).  It could be that I have
several problems here that are no longer occurring together that I
thought were some nastier bug.

Thanks in advance for any insight you can provide,
~jdacronym

** Attachment added: "output of 'smartctl --all /dev/sda'"
   http://launchpadlibrarian.net/27341284/smartctl.all.output

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-06-02 Thread jdacronym
Well, it's happened yet again, much more like the first time now.  I'm
going to post a link to this on the ubuntu help forums.  Maybe I can get
more eyes on it there.

~jdacronym

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[Bug 249123] Re: Hardy Heron locks up

2009-05-03 Thread jdacronym
Suspend problems are intermittent for me.  Restoring after a long period
usually results in g-p-m telling me that the computer failed to suspend,
but there don't seem to be any ill effects, unless the occaisonal hang
is related.  I'll have to find out more about how suspend/restore works
in ubuntu to be sure.

Thanks for your help.
~jdacronym

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[Bug 371346] [NEW] Hardy: MonoDevelop crashes while checking subversion repositories

2009-05-03 Thread jdacronym
Public bug reported:

Binary package hint: monodevelop

Well, I was trying to use MonoDeveleop to check out mono.XNA from
code.google.com (subversion: http://monoxna.googlecode.com/svn/trunk
monoxna-read-only).  MonoDevelop crashes while the repository browser is
trying to load the monoxna repository.

Terminal output of the crashed session is attached.

thanks in advance for any insight you can give,
~jdacronym

** Affects: monodevelop (Ubuntu)
 Importance: Undecided
 Status: New


** Tags: crash csharp hardy mono mono.xna monodevelop subversion svn xna

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[Bug 371347] [NEW] Hardy: MonoDevelop crashes while checking subversion repositories

2009-05-03 Thread jdacronym
Public bug reported:

Binary package hint: monodevelop

Well, I was trying to use MonoDeveleop to check out mono.XNA from
code.google.com (subversion: http://monoxna.googlecode.com/svn/trunk
monoxna-read-only).  MonoDevelop crashes while the repository browser is
trying to load the monoxna repository.

Terminal output of the crashed session is attached.

thanks in advance for any insight you can give,
~jdacronym

** Affects: monodevelop (Ubuntu)
 Importance: Undecided
 Status: New


** Tags: crash csharp hardy mono mono.xna monodevelop subversion svn xna

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[Bug 371347] Re: Hardy: MonoDevelop crashes while checking subversion repositories

2009-05-03 Thread jdacronym
Sorry, crash log wasn't attached, here it is.

** Attachment added: "Terminal output of crashed MonoDevelop session"
   http://launchpadlibrarian.net/26287962/monodevelop.crash

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[Bug 249123] Re: Hardy Heron locks up

2009-04-25 Thread jdacronym
I think I have a similar problem after updating my Vostro 1500 to Hardy
(5 days after LTS ended on Gutsy).

The problem for me goes about the same: 100% disk and CPU usage with no
end in sight.  GNOME is unresponsive, except for clock and gkrellm
updates, and moving the mouse pointer.  I can try to start firefox, or
gnome-terminal, but they always die, and the programs I have running
refuse to close.  I eventually get impatient and power-cycle the
machine, which sometimes leads to a black screen (maybe xorg didn't
start properly).  Booting in recovery mode seems to work, though one
check comes back "[Failed]" and flies by too fast for me to see.  What
log would I find that in?

After power-cycling a couple of times (wasn't patient enough to see if
the deadlock ever ended) I stopped using GNOME and switched back over to
fluxbox (my WM of choice).  The problem hasn't occured under fluxbox
yet, leading me to believe that the problem is related to whatever
happens when you choose "Run Xclient Script" at the session menu.

I was running top a few times that this happened, maybe Rob should try
that, see what's eating the most CPU when this happens again.  I saw dd,
which could explain the disk usage, but it only had 50% or so of my CPU,
and unfortunately I don't remember the others.  There were three or four
of them using the most cpu power, with at least two running at 40% to
50%

Hope this helps,
~jdacronym

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[Bug 249123] Re: Hardy Heron locks up

2009-04-25 Thread jdacronym
Well, it's happened again, this time on Xfce.  I could still move cursor
and windows around and top and the toolbars were still updating, but
unfortunately everything else was shot.  Then the toolbars died as well.
Couldn't even open a terminal to shut down the machine or kill any
processes.

However, top was open, so I was able to write down the top four cpu-
users:

ksoftirqd/1
dd
klogd
firefox

ksoftirqd in particular was using up to 60%, dd anywhere from 30%-50%,
klogd usually around 30s, and firefox about 15% or so (there were
actually two instances running, on account of my clicking the firefox
launcher twice before the machine hung.

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[Bug 249123] Re: Hardy Heron locks up

2009-04-26 Thread jdacronym
I'm a neophyte with regards to linux, so I don't quite know my way
around the system yet.  How would I check to see that the uuid of my
swap partition is correct in fstab?

** Attachment added: "my /etc/fstab"
   http://launchpadlibrarian.net/26002915/jdacronym.fstab

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[Bug 249123] Re: Hardy Heron locks up

2009-04-26 Thread jdacronym
for the record, I've at least tried starting up gparted and checking the
information tab for my swap partition, but I saw no uuid field.  Also,
I'm wondering why this has been happening to me in xfce and gnome but
not fluxbox.  Do the former two edit the swap entry in /etc/fstab for
some reason?

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[Bug 249123] Re: Hardy Heron locks up

2009-04-26 Thread jdacronym
well, after some googling I can report that blkid and /etc/fstab are in
agreement as to what the UUID of my swap partition is.  This seems to
indicate that my bug is different than yours. :/

Any further suggestions?

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[Bug 249123] Re: Hardy Heron locks up

2009-04-27 Thread jdacronym
Well, I'm back running Xfce, and I'm hopeful.  Some things are still
behaving strangely though:

gnome-power-manager says I have 610697 hours and 25 minutes left on my
battery.  My other battery life estimates are sane.  I think there are
several bug reports for that though.

My computer failed to restore from suspend an hour or so ago.  I don't
know why.  It happened after I installed the latest acpi update, but
that might be a coincidence.  Since I've rebooted I haven't had a
hiccup; I'm running one of the WM's that I've known to fail, with all my
usual applications, and so on.  Suspend/Restore and gnome-screensaver
remain to be tested.

I've noticed that mythtvbackend, mysqld and a few other mythtv procs are
running in background.  Is the TV adapter you mentioned mythtv related?
Should I just kill -9 them, or is there some setting I should try
fiddling with first?

I can also see the indexer icon in the gnome system tray as well.  I've
now set it to 50% throttle and told it to use slower indexing.

ksoftirqd/1, klogd and friends seem to be behaving.  Firefox 3 is still
a resource hog, but hey, whatcha gonna do. :/

Thanks for your help.  When I saw that the latest post on this bug was
months ago I wasn't holding out much hope of a fix.  At times I was
considering chucking Ubuntu and converting to Slackware.  I've postponed
that for now (my Slackolyte friends will not be pleased).

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[Bug 249123] Re: Hardy Heron locks up

2009-04-27 Thread jdacronym
Well, scratch that.  It's happening again right now, but for some reason
my system is still usable.  My problem now is that I can't run many
programs or load files.  I get an input/output error or an error saying
that I'm attempting to access a read-only filesystem.

For instance:

$ gnome-terminal
Bonobo-Activation-Message: read-only filesystem locking 
'/tmp/orbit-$USERNAME/bonobo-activation-register.lock'

$ ls /
ls: cannot access /mnt: No such file or directory
ls: cannot access /opt: No such file or directory
ls: cannot access /srv: No such file or directory

[...]

$ sudo killall pidgin
bash: /usr/bin/sudo: Input/output error

Other commands like "man dd" or "xdvi somefile.dvi" just return without
output.

I suspect that the programs I can run right now are the ones that were
already in memory when this all started.  This time top shows
ksoftirqd/0, pidgin, dd, klogd, and soffice.bin as the major cpu hogs,
but I can't kill soffice.bin for instance (input/output error) or start
xkill and try to shut it down that way (read-only filesystem error).

I'm just speculating here, but maybe the indexer is the culprit.  Would
it have to make my whole filesystem read-only in order to scan it?

I guess I'll have to start a new bug report for this one.

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[Bug 368324] [NEW] Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-04-27 Thread jdacronym
Public bug reported:

So since my update to Hardy from Gutsy my Vostro 1500 will deadlock at
seemingly random times.  Three processes in particular (klogd, dd, and
ksoftirqd) use 100% of my CPU and disk bandwidth.  Also, it seems that
my filesystem becomes read-only when this happens.  Killing trackerd
doesn't fix it, and I can only run programs that are still paged into
memory at the time (basically anything I've run that session).  I can't
satisfactorily shut down or restart the computer, and killing xorg
doesn't break the deadlock either.  Usually I have to power-cycle the
machine, and I must then boot in recovery mode or the gdm login screen
never loads, leaving me at a blank screen.

I originally thought the problem was the same as bug #249123
, but with Rob's help I was able
to identify it as something different.

This problem is not rare, apparently.  I've found similar threads and bug 
reports about:
https://bugs.launchpad.net/ubuntu/+source/sysklogd/+bug/291733
http://ubuntuforums.org/showthread.php?t=506891

The one from the ubuntu forums has almost exactly my problem, though my
logfiles are not screwed up: I'll attach my kern.log so you can see it.

I've found some forum posts that indicate that ksoftirqd starts to suck CPU 
time when a big file transfer happens, so maybe ksoftirqd has a separate issue 
from what I'm seeing:
http://www.linuxquestions.org/questions/linux-general-1/ksoftirqd-cpu-usage-and-load-100-388745/
https://bugzilla.novell.com/show_bug.cgi?id=465039
http://lkml.indiana.edu/hypermail/linux/kernel/0407.3/0382.html

Other people seem to have had problems with klogd eating CPU as well:
https://bugs.launchpad.net/ubuntu/+source/sysklogd/+bug/291733
http://boards.fon.com/viewtopic.php?f=2&t=4485

Any help would be appreciated.  I'd love to be able to stabilize my
Hardy system before I consider upgrading to Intrepid.

** Affects: ubuntu
 Importance: Undecided
 Status: New


** Tags: 100percentusage dd deadlock hardy klogd ksoftirqd update

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-04-27 Thread jdacronym

** Attachment added: "/var/log/kern.log after restart"
   http://launchpadlibrarian.net/26050178/var.log.kern.log

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-04-27 Thread jdacronym
finally, here's my /proc/interrupts file just in case that's useful.

** Attachment added: "/proc/interrupts after restart"
   http://launchpadlibrarian.net/26050211/proc.interrupts

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-04-27 Thread jdacronym
Here's my /var/log/messages, for reference.

** Attachment added: "/var/log/messages after restart"
   http://launchpadlibrarian.net/26050186/var.log.messages

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-05-04 Thread jdacronym
Well, MythTV wasn't the problem.  It's happened again, this time after I
restarted from an update to clamAV and a few other programs.  They
symptoms were the same, except that this time the deadlock was preceded
by a loud CLICK as my disk head parked.  I was able to close most of my
running applications cleanly, then attempt to log out.  Eventually my
Xorg session died but I'm not sure if it died cleanly.  I was then stuck
on the console right where the login screen should start up, but no
dice.

The packages I installed before the reboot were (courtesy of synaptic):

Upgraded the following packages:
clamav (0.94.dfsg.2-1ubuntu0.3~hardy3) to 0.94.dfsg.2-1ubuntu0.3~hardy4
clamav-base (0.94.dfsg.2-1ubuntu0.3~hardy3) to 0.94.dfsg.2-1ubuntu0.3~hardy4
clamav-freshclam (0.94.dfsg.2-1ubuntu0.3~hardy3) to 
0.94.dfsg.2-1ubuntu0.3~hardy4
gparted (0.3.5-1ubuntu3) to 0.3.5-1ubuntu5
libclamav5 (0.94.dfsg.2-1ubuntu0.3~hardy3) to 0.94.dfsg.2-1ubuntu0.3~hardy4
libwmf0.2-7 (0.2.8.4-6) to 0.2.8.4-6ubuntu0.8.04.1
linux-generic (2.6.24.23.25) to 2.6.24.24.26
linux-headers-generic (2.6.24.23.25) to 2.6.24.24.26
linux-image-generic (2.6.24.23.25) to 2.6.24.24.26
linux-libc-dev (2.6.24-23.52) to 2.6.24-24.53
linux-restricted-modules-common (2.6.24.16-23.56) to 2.6.24.17-24.1
linux-restricted-modules-generic (2.6.24.23.25) to 2.6.24.24.26
nvidia-glx-new (169.12+2.6.24.16-23.56) to 169.12+2.6.24.17-24.1

Installed the following packages:
linux-headers-2.6.24-24 (2.6.24-24.53)
linux-headers-2.6.24-24-generic (2.6.24-24.53)
linux-image-2.6.24-24-generic (2.6.24-24.53)
linux-restricted-modules-2.6.24-24-generic (2.6.24.17-24.1)
linux-ubuntu-modules-2.6.24-24-generic (2.6.24-24.39)

After which I installed a load of Ruby packages.  I'm going to post all
of the relevant files (strangely /var/crash was empty) after this one.

** Attachment added: "commit log from synaptic"
   http://launchpadlibrarian.net/26332475/commit.log.5.4.1231

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-05-04 Thread jdacronym

** Attachment added: "/var/log/messages"
   http://launchpadlibrarian.net/26332478/messages

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-05-04 Thread jdacronym

** Attachment added: "/var/log/syslog"
   http://launchpadlibrarian.net/26332481/syslog

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-05-04 Thread jdacronym

** Attachment added: "/var/log/kern.log"
   http://launchpadlibrarian.net/26332487/kern.log

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-05-04 Thread jdacronym

** Attachment added: "/var/log/Xorg.0.log"
   http://launchpadlibrarian.net/26332511/Xorg.0.log

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-05-04 Thread jdacronym
Finally, here's the ruby packages and such that I also installed.  Ruby
wasn't installed on the computer when this happened previously so I'm
not so sure that this is the problem; I'm including it for completeness'
sake.

** Attachment added: "Synaptic commit log for 5/4 14:45pm"
   http://launchpadlibrarian.net/26332570/commit.log.5.4.1445

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[Bug 249123] Re: Hardy Heron locks up

2009-05-04 Thread jdacronym
Well, it appears that mythtv wasn't the problem.  I'm beginning to
wonder if ClamAV might be the problem.  I'm checking my settings to see
if ClamAV might be triggering this.

Rob, you've been supremely helpful so far.  My bug report for this Bug
#368324. I'm posting here in hopes that you might respond.

~jdacronym

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[Bug 249123] Re: Hardy Heron locks up

2009-04-27 Thread jdacronym
Okay, I posted my issue as a new bug report.  It is now Bug #368324.

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-04-27 Thread jdacronym
There also appears to be a similar problem in Xubuntu 8.10:
http://ubuntuforums.org/showthread.php?t=1072039&highlight=cpu+load+nonstop+100%25+since+update+klogd+syslogd+dd

I tried updating to the 2.6.24-24-generic kernel in hardy-proposed, but
it didn't support my NVidia 8600M GT, so that's out, apparently

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[Bug 249123] Re: Hardy Heron locks up

2009-04-28 Thread jdacronym
>Hello
>I heard from others that mythtv caused Hardy Heron to lock up. You
>could try killing it or uninstalling it. I suspected the Tracker
>indexer but I was wrong. Tracker has always been very well-behaved on
>my system.

Done.  Would be a shame if mythtv was to blame though; I was hoping to
use it someday.  I'm going to leave the tracker throttled though, since
I basically don't use it.

>One program that can cause long-duration CPU hogging is aMule. If you
>start aMule for the first time or after deleting its log files, it hogs
>CPU time until it has re-indexed and hashed all the files on your system
>that you have permitted it to make available to the world.

I used to use mlDonkey, but no, I've never touched aMule that I know of.

>Certain regular unix services within Ubuntu are scheduled to run at some
>unearthly hour of the night like 3am. If your machine is not on at that
>time, they will run when you next switch it on after the scheduled time.
>Perhaps one of these us hogging your CPU initially.

I've seen these occasionally but they haven't caused me any harm.  My
clock shows the correct time... perhaps there's some other indicator
that my computer and I aren't operating in the same timezone?

>Don't give up on Ubuntu. You'll find the culprit soon.
>Rob

Well, I've done what I can for now, it's just a matter of seeing if it
happens again.

On the whole, I've had a fantastic time running Ubuntu.  I don't feel
that I'm learning as much gritty low-level stuff as with Debian, but
Gutsy was stable, well-behaved, and I could do a lot with it.  I once
had to reboot after accumulating over a month of uptime, and fsck told
me that it had to run because it had been over 200 days since the
filesystem had been checked (ergo, I hadn't rebooted for the better part
of a year).

The attraction of distros like Gentoo and Slackware to me is the
prospect of configuring and tooling with every aspect of my system,
setting it up exactly how I want it and feeling proud of having put
together a working system.  I'll probably save that for my home machine
though; my laptop just has to work.

Thanks for your help.  I'll update my other bug-report in case my
results pan out.

~jdacronym

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[Bug 368324] Re: Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk

2009-04-28 Thread jdacronym
I've been told that mythtv can cause similar behavior, so I've killed it
for now.

Another curious, possibly unrelated development.  My speakers let out
eight loud beeps when restoring from suspend this morning, but seems to
have resumed operation normally.

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[Bug 249123] Re: Hardy Heron locks up

2009-04-29 Thread jdacronym
Well, I've just had another crash, but I'm not sure why it happened.
The system was behaving itself, then refused to restore from suspend.

Strangely the GNU icon on my EMACS launcher in Xfce is gone now, too.

anyway, here's the crash log.  What should I be looking for to see if
it's related?

** Attachment added: "trackerd.crash"
   http://launchpadlibrarian.net/26161841/var.crash.trackerd.log

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[Bug 306600] Re: "r" key toggles logging in chat

2008-12-11 Thread jdacronym
The same thing happened to me, only with the "f" key.  It's actually a
misfeature of Pidgin, not a bug.

If you highlight an item in one of Pidgin's pull-down menus and hit some
random keys, it sets whatever key combination you pressed as a hotkey
for that item.  This can happen inadvertently if you sloppily hit the
Alt key while typing, or if you accidentally thumb the touchpad on your
laptop, for instance.  Just highlight the "enable logging" item and type
a saner key combination to use, like F3 (right next to the default key
to toggle timestamps) or Ctrl+L, which is probably easier to remember.

Hope this helps,
jdacronym

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