[gentoo-dev] Serious: XFree halts system with some C++ codes running (in particular, Diffpack) on SMP kernel 2.4.19-gentoo-r7

[gentoo-dev] Serious: XFree halts system with some C++ codes running (in particular, Diffpack) on SMP kernel 2.4.19-gentoo-r7

[Denis Shcherbakov]

Hello,

I have a very freaky problem here.  I recently ran a few major updates,
such as glibc, threading libraries, some other libraries, and XFree86
4.2.1.  Now the C++ codes that I have to run (in a package called
Diffpack) invoke total system halt.  Screen turns off and goes into
power-save mode, and hard-drive light comes up.  All daemons hang (i can
no longer ssh to my PC after such crash).  With the older X, 4.2.0, I
observed the same kind of system halt, but it was not as frequent as it is
now.  Now, the code runs for several minutes, and the system crashes.

When I booted in TEXT mode, without starting X, this problem DID NOT
OCCUR!!!!  I have no idea what to do.  I got Nvidia GeForce3 chipset in my
system, and I use nvidia's GLX and kernel modules provided with Gentoo.  I
can provide my XF86Config file to anyone who'd be willing to look at it.
I disabled DPMS in the extensions module, but the problem persists.  I
wonder if there are other extension modules I should disable.  I also use
the option "NvAGP" "1", but I have crashes without it just the same.

The codes are run remotely on my machine by one of the users via SSH.

This is the first time I've ever seen anything like this.  Ever since I
installed Gentoo in August 2002, I had not a single major problem!

System details:  2 2.2 GHz Intel Xeons with hyperthreading technology,
Tyan motherboard, 2 IDE Western Digital hard-drives, nVidia GeForce3
chipset on ASUS V8200 card.  I have 2.4.19-gentoo-r7 kernel with SMP
enabled (never had any problems with the kernel before).  XFree 4.2.1,
latest glibc, and other libraries relating to C and C++.

ANY help would be greatly appreciated!!  I really have no idea what to do
and I really do not have time to try to solve this on my own!!

Thank you in advance!
Denis


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[gentoo-dev] XFree halts system with some C++ codes running (in particular, Diffpack) on SMP kernel 2.4.19-gentoo-r7

[Werner Van Belle]

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Hash: SHA1

This sounds like a hardware problem.

If you have a dell, contact dell-support, and let them replace your 
power-supply and io-motherboard. I had similar things happening over here.

With kind regards,

Werner,-


On Tuesday 17 December 2002 16:35, Denis Shcherbakov wrote:
> When I booted in TEXT mode, without starting X, this problem DID NOT
> OCCUR!!!!  I have no idea what to do.  I got Nvidia GeForce3 chipset in my
> system, and I use nvidia's GLX and kernel modules provided with Gentoo.  I
> can provide my XF86Config file to anyone who'd be willing to look at it.
> I disabled DPMS in the extensions module, but the problem persists.  I
> wonder if there are other extension modules I should disable.  I also use
> the option "NvAGP" "1", but I have crashes without it just the same.
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[gentoo-dev] SMP kernel halts system - hyperthreading??

[Denis Shcherbakov]

Dear gentoo-dev,

If some of you recall, I wrote to the list about a system halt resulting
from running C++ codes and it possibly having to do with nVidia graphics
or XFree 4.2.1.

Well, the problem persists in text mode also.  It happens when 3 or more
CPU-intensive processes run simultaneously on the machine.  I have an SMP
kernel (2.4.19-gentoo-r7) with 2 Intel Xeon 2.2-GHz processors equipped
with hyperthreading technology.

I have 4 processors initialized at boot time, and 4 processors show up in
"top".  This is probably because of hyperthreading, as otherwise there
should be only two.

How do I turn off hyperthreading?  Do you think hyperthreading is what's
breaking my system and it could be more stable without hyperthreading?
Can a certain process be confined only to a certain processor?

Thanks for any help!
Denis


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RE: [gentoo-dev] SMP kernel halts system - hyperthreading??

[Riyad Kalla]

Denis,
That sounds like the server at work I'm using, nice machine..

Anywya, there was a thread on something like this in the forums, and it
basically turned out to be the SMP Gentoo kernel, the guy went to
vanilla kernel and everything worked just dandy. Can you verify this?
Maybe the kernel team needs to focus on something?

Can you run 4 threads of Seti@Home to see if it kills the machine? That
should be a good test as it will saturate your CPUs

Best,
-Riyad

-----Original Message-----
From: Denis Shcherbakov [mailto:deniss@Princeton.EDU] 
Sent: Wednesday, December 18, 2002 8:47 PM
To: gentoo-dev@gentoo.org
Subject: [gentoo-dev] SMP kernel halts system - hyperthreading??



Dear gentoo-dev,

If some of you recall, I wrote to the list about a system halt resulting
from running C++ codes and it possibly having to do with nVidia graphics
or XFree 4.2.1.

Well, the problem persists in text mode also.  It happens when 3 or more
CPU-intensive processes run simultaneously on the machine.  I have an
SMP
kernel (2.4.19-gentoo-r7) with 2 Intel Xeon 2.2-GHz processors equipped
with hyperthreading technology.

I have 4 processors initialized at boot time, and 4 processors show up
in
"top".  This is probably because of hyperthreading, as otherwise there
should be only two.

How do I turn off hyperthreading?  Do you think hyperthreading is what's
breaking my system and it could be more stable without hyperthreading?
Can a certain process be confined only to a certain processor?

Thanks for any help!
Denis


--
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Re: [gentoo-dev] SMP kernel halts system - hyperthreading??

[Marko Mikulicic]

Riyad Kalla wrote:
> Denis,
> That sounds like the server at work I'm using, nice machine..
> 
> Anywya, there was a thread on something like this in the forums, and it
> basically turned out to be the SMP Gentoo kernel, the guy went to
> vanilla kernel and everything worked just dandy. Can you verify this?
> Maybe the kernel team needs to focus on something?
> 
> Can you run 4 threads of Seti@Home to see if it kills the machine? That
> should be a good test as it will saturate your CPUs
> 
> Best,
> -Riyad

I have a 2x2.4Ghz Xeon with Hyperthreading enabled on a 2.4.19-xfs 
kernel and everything works great.
  However hyperthreading can be disabled in the BIOS. (when I bought the 
machine HT was disabled indeed ....). Dennis, do you have a E7500 
motherboard ?

Marko



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Re: [gentoo-dev] Serious: XFree halts system with some C++ codes running (in particular, Diffpack) on SMP kernel 2.4.19-gentoo-r7

[Simon Keimer]

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Hash: SHA1

hello Denis,

I had the same problem some time ago, together with the nvidia guys, I found 
that the issue is a memory leak in the X libs.
Adding

    Option "NoRenderAccel" "true"

to your XF86Config's Device section should fix that for now.

Note: This does not disable the 3D-, only the 2D rendering-acceleration 
(that's what they told me)


> Hello,
>
> I have a very freaky problem here.  I recently ran a few major updates,
> such as glibc, threading libraries, some other libraries, and XFree86
> 4.2.1.  Now the C++ codes that I have to run (in a package called
> Diffpack) invoke total system halt.  Screen turns off and goes into
> power-save mode, and hard-drive light comes up.  All daemons hang (i can
> no longer ssh to my PC after such crash).  With the older X, 4.2.0, I
> observed the same kind of system halt, but it was not as frequent as it is
> now.  Now, the code runs for several minutes, and the system crashes.
>
> When I booted in TEXT mode, without starting X, this problem DID NOT
> OCCUR!!!!  I have no idea what to do.  I got Nvidia GeForce3 chipset in my
> system, and I use nvidia's GLX and kernel modules provided with Gentoo.  I
> can provide my XF86Config file to anyone who'd be willing to look at it.
> I disabled DPMS in the extensions module, but the problem persists.  I
> wonder if there are other extension modules I should disable.  I also use
> the option "NvAGP" "1", but I have crashes without it just the same.
>
> The codes are run remotely on my machine by one of the users via SSH.
>
> This is the first time I've ever seen anything like this.  Ever since I
> installed Gentoo in August 2002, I had not a single major problem!
>
> System details:  2 2.2 GHz Intel Xeons with hyperthreading technology,
> Tyan motherboard, 2 IDE Western Digital hard-drives, nVidia GeForce3
> chipset on ASUS V8200 card.  I have 2.4.19-gentoo-r7 kernel with SMP
> enabled (never had any problems with the kernel before).  XFree 4.2.1,
> latest glibc, and other libraries relating to C and C++.
>
> ANY help would be greatly appreciated!!  I really have no idea what to do
> and I really do not have time to try to solve this on my own!!
>
> Thank you in advance!
> Denis
>
>
> --
> gentoo-dev@gentoo.org mailing list

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Simon Keimer
skeimer@gmx.net

Help fighting the software patents delusion!
http://petition.eurolinux.org/
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Re: [gentoo-dev] Serious: XFree halts system with some C++ codes running (in particular, Diffpack) on SMP kernel 2.4.19-gentoo-r7

[Denis Shcherbakov]

Hello,

So I tried the options suggested previously.  Those were to rock the video
card in its slot to make sure it's well-connected and dust-free and to set
"NoRenderAccel" "true" in the device options of XF86Config.  With these
options set, the system was still getting broken from executing the code.
However, it seems to have been resolved temporarily by switching off the
use of X libraries and of X-Motif libraries by the code.  Diffpack is a
comprehensive package for solving differential equations numerically, and
graphical interface can be written to it.  But since our code was simply
text-based, the use of these libraries was not necessary.  Diffpack comes
with outdated versions of Tcl/tk and some of their utilities, and so quite
possibly they are not meant to be used with new versions of XFree86.

I have not had any other problems with Motif or Tcl/Tk on my system except
for this package.

Hardware conflict is probably what happens here.  Not sure why.  Maybe
some broken dependencies within that software are triggering something in
that regard.

Thank you all for your help with this issue!  It's very much appreciated.

Denis





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RE: [gentoo-dev] SMP kernel halts system - hyperthreading??

[Ciaravino, Tido]

[-- Attachment #1.1: Type: text/plain, Size: 2290 bytes --]

i've been tracking similar issues with the new 1.4 boot CDs

see gentoo bugzilla bug 11095 (and vote for it!!!)

short version:
i've gotten it to work properly with the vanilla-sources
and xfs-sources - but something in the gentoo-sources
causes my machine to lock hard (regardless of hyperthreading)

My boxes are Dell PE2650 with dual 2.4G xeon 2Gig Ram & aacraid (xfs on top)
(hyperthreading can be turned on/off in the bios)

Hope this helps,

odiT

-----Original Message-----
From: Riyad Kalla [mailto:rsk@u.arizona.edu]
Sent: Wednesday, December 18, 2002 10:50 PM
To: 'Denis Shcherbakov'; gentoo-dev@gentoo.org
Subject: RE: [gentoo-dev] SMP kernel halts system - hyperthreading??


Denis,
That sounds like the server at work I'm using, nice machine..

Anywya, there was a thread on something like this in the forums, and it
basically turned out to be the SMP Gentoo kernel, the guy went to
vanilla kernel and everything worked just dandy. Can you verify this?
Maybe the kernel team needs to focus on something?

Can you run 4 threads of Seti@Home to see if it kills the machine? That
should be a good test as it will saturate your CPUs

Best,
-Riyad

-----Original Message-----
From: Denis Shcherbakov [mailto:deniss@Princeton.EDU] 
Sent: Wednesday, December 18, 2002 8:47 PM
To: gentoo-dev@gentoo.org
Subject: [gentoo-dev] SMP kernel halts system - hyperthreading??



Dear gentoo-dev,

If some of you recall, I wrote to the list about a system halt resulting
from running C++ codes and it possibly having to do with nVidia graphics
or XFree 4.2.1.

Well, the problem persists in text mode also.  It happens when 3 or more
CPU-intensive processes run simultaneously on the machine.  I have an
SMP
kernel (2.4.19-gentoo-r7) with 2 Intel Xeon 2.2-GHz processors equipped
with hyperthreading technology.

I have 4 processors initialized at boot time, and 4 processors show up
in
"top".  This is probably because of hyperthreading, as otherwise there
should be only two.

How do I turn off hyperthreading?  Do you think hyperthreading is what's
breaking my system and it could be more stable without hyperthreading?
Can a certain process be confined only to a certain processor?

Thanks for any help!
Denis


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RE: [gentoo-dev] SMP kernel halts system - hyperthreading??

[Denis Shcherbakov]

Hm.  I guess this is the kernel issue then, huh.

Tido- I have a very similar machine.  Not Dell, though.  It's got a Dual
Tyan mobo in it, 2 2.2-GHz Intel Xeons (with hyperthreading), 2 GB of
RDRAM, and a couple IDE hard drives.

Yea - I think there are possibly some sort of scheduling conflicts
happening on my machine.  I use 2.4.19-gentoo-r7, and it was stable until
I started running codes from a C++ numerical package.  I asked the guys
who wrote it, and they are saying that they run these codes all the time
on SMP machines with stock RedHat 7.x installations and Debian boxes with
no incidental hard-lock failures like I have seen.  I have updated glibc
and libc to the latest gentoo ebuilds, where I thought the problem was
initially.

Now since a lot of people are blaming it on the 2.4.19-gentoo-r7 kernel, I
might as well join the list, if this software is proved stable on other
distros using stock SMP kernel from kernel.org.

I guess maybe I should just go with the vanilla's now, since they have
been reported not to have these kinds of issues.

Denis

On Fri, 20 Dec 2002, Ciaravino, Tido wrote:

i've been tracking similar issues with the new 1.4 boot CDs

see gentoo bugzilla bug 11095 (and vote for it!!!)

short version:
i've gotten it to work properly with the vanilla-sources
and xfs-sources - but something in the gentoo-sources
causes my machine to lock hard (regardless of hyperthreading)

My boxes are Dell PE2650 with dual 2.4G xeon 2Gig Ram & aacraid (xfs on top)
(hyperthreading can be turned on/off in the bios)

Hope this helps,

odiT

-----Original Message-----
From: Riyad Kalla [mailto:rsk@u.arizona.edu]
Sent: Wednesday, December 18, 2002 10:50 PM
To: 'Denis Shcherbakov'; gentoo-dev@gentoo.org
Subject: RE: [gentoo-dev] SMP kernel halts system - hyperthreading??


Denis,
That sounds like the server at work I'm using, nice machine..

Anywya, there was a thread on something like this in the forums, and it
basically turned out to be the SMP Gentoo kernel, the guy went to
vanilla kernel and everything worked just dandy. Can you verify this?
Maybe the kernel team needs to focus on something?

Can you run 4 threads of Seti@Home to see if it kills the machine? That
should be a good test as it will saturate your CPUs

Best,
-Riyad

-----Original Message-----
From: Denis Shcherbakov [mailto:deniss@Princeton.EDU]
Sent: Wednesday, December 18, 2002 8:47 PM
To: gentoo-dev@gentoo.org
Subject: [gentoo-dev] SMP kernel halts system - hyperthreading??



Dear gentoo-dev,

If some of you recall, I wrote to the list about a system halt resulting
from running C++ codes and it possibly having to do with nVidia graphics
or XFree 4.2.1.

Well, the problem persists in text mode also.  It happens when 3 or more
CPU-intensive processes run simultaneously on the machine.  I have an
SMP
kernel (2.4.19-gentoo-r7) with 2 Intel Xeon 2.2-GHz processors equipped
with hyperthreading technology.

I have 4 processors initialized at boot time, and 4 processors show up
in
"top".  This is probably because of hyperthreading, as otherwise there
should be only two.

How do I turn off hyperthreading?  Do you think hyperthreading is what's
breaking my system and it could be more stable without hyperthreading?
Can a certain process be confined only to a certain processor?

Thanks for any help!
Denis


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RE: [gentoo-dev] SMP kernel halts system - hyperthreading??

[ben]

It's not hyperthreading, I"ve tried both this week (same specs as you, but
with 4GB Ram) in my efforts to get my machine to boot a SMP gentoo-sources
kernel.  so far it appears to be something in 2.4.19-gentoo-r10 - r9 boots
fine.  I was going to spend the evening examining the differences between
these two.



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RE: [gentoo-dev] SMP kernel halts system - hyperthreading??

[Ciaravino, Tido]

[-- Attachment #1.1: Type: text/plain, Size: 885 bytes --]

if you find it let me know
(and add it to bug 11095)

it has worked with vanilla-sources (no patches)
and xfs-sources

This should clear the gentoo-sources patches that are in common with the
xfs-sources patches (which are quite a few if memory serves)

Checking the rest should be a pain...

good luck,

odiT


-----Original Message-----
From: ben [mailto:ben@stonehenge-net.com]
Sent: Friday, December 20, 2002 7:02 PM
To: Ciaravino, Tido
Cc: 'Riyad Kalla'; 'Denis Shcherbakov'; gentoo-dev@gentoo.org
Subject: RE: [gentoo-dev] SMP kernel halts system - hyperthreading??


It's not hyperthreading, I"ve tried both this week (same specs as you, but
with 4GB Ram) in my efforts to get my machine to boot a SMP gentoo-sources
kernel.  so far it appears to be something in 2.4.19-gentoo-r10 - r9 boots
fine.  I was going to spend the evening examining the differences between
these two.


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RE: [gentoo-dev] SMP kernel halts system - hyperthreading??

[oford]

I'm running that kernel on a dual P3 1GHz with no issues.  Tyan mobo w/
2GB pc133.  If my .config would be of assistance just let me know.  Not
sure if the P4 arch is the only problem.

./Owen
On Fri, 2002-12-20 at 20:06, Ciaravino, Tido wrote:
> if you find it let me know
> (and add it to bug 11095)
> 
> it has worked with vanilla-sources (no patches)
> and xfs-sources
> 
> This should clear the gentoo-sources patches that are in common with the
> xfs-sources patches (which are quite a few if memory serves)
> 
> Checking the rest should be a pain...
> 
> good luck,
> 
> odiT
> 
> 
> -----Original Message-----
> From: ben [mailto:ben@stonehenge-net.com]
> Sent: Friday, December 20, 2002 7:02 PM
> To: Ciaravino, Tido
> Cc: 'Riyad Kalla'; 'Denis Shcherbakov'; gentoo-dev@gentoo.org
> Subject: RE: [gentoo-dev] SMP kernel halts system - hyperthreading??
> 
> 
> It's not hyperthreading, I"ve tried both this week (same specs as you, but
> with 4GB Ram) in my efforts to get my machine to boot a SMP gentoo-sources
> kernel.  so far it appears to be something in 2.4.19-gentoo-r10 - r9 boots
> fine.  I was going to spend the evening examining the differences between
> these two.
> 
> ----
> 

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> gentoo-dev@gentoo.org mailing list




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