echo -n 1 > /proc/sys/vm/overcommit_memory
This is a lot easier than recompiling, but eventually I ordered a new computer though- I guess the problem will be recurrent and is anyway symptomatic of low swap.
Taken from
http://www.ccp4.ac.uk/problems/ccp4-FC3-HOWTO.html)
Also:
http://list.coin-or.org/pipermail/coin-lpsolver/2005-September/000354.html
Mark
On 19/06/06, Flip Hoedemaeker <
[EMAIL PROTECTED]> wrote:
*** For details on how to be removed from this list visit the ***
*** CCP4 home page http://www.ccp4.ac.uk ***
OK. I did the wise thing and ordered a few extra memory chips to boost this
old coffeemachine...
Thanks again.
Flip
-----Original Message-----
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED]] On Behalf Of Ian
Tickle
Sent: Monday, 19 June, 2006 13:39
To: Flip Hoedemaeker
Cc: [email protected]
Subject: RE: [ccp4bb]: Refmac problems in 6.0.1
*** For details on how to be removed from this list visit the ***
*** CCP4 home page http://www.ccp4.ac.uk ***
Flip,
A less painful option might be to cut down Refmac's memory requirements,
assuming of course you're not working with big structures. This is
controlled by the parameters QQDEN in $CPROG/refmac5_/pls_incl.fh and
MAXATOM and/or MAXRESID in atom_com.fh . I used to have to do this when I
had only 128 Mb of main memory on an ancient laptop. I haven't needed to do
it for a while so I've lost the exact numbers, but Garib will be able to
advise.
-- Ian
> -----Original Message-----
> From: Andy Purkiss-Trew [mailto: [EMAIL PROTECTED]]
> Sent: Monday, June 19, 2006 12:32 PM
> To: Flip Hoedemaeker
> Cc: 'Tim Gruene'; Ian Tickle; [email protected]
> Subject: RE: [ccp4bb]: Refmac problems in 6.0.1
>
> Dear Flip,
>
> You can add swap space as a file these days.
>
> See http://www.faqs.org/docs/linux_admin/x1762.html
>
> for brief details (I think that the link is a bit out of date though).
> and assuming that you are using a linux system of course.
>
> You can still keep your old swap partition too. There can also be some
> performance advantages to having swap space split onto different
> disks, if this is an option.
>
> Hope this helps
>
> Andy Purkiss
>
>
> On Mon, 2006-06-19 at 13:11 +0200, Flip Hoedemaeker wrote:
> > *** For details on how to be removed from this list visit the ***
> > *** CCP4 home page http://www.ccp4.ac.uk ***
> >
> >
> > Thx Ian and Tim,
> >
> > It is indeed a memory problem on my box, I seem only to
> have 250MB swap
> > space... Unless you know of something clever, I probably
> have to change this
> > partition without losing data somehow... Can you assign
> swap space in a
> > different location?
> >
> > Flip
> >
> > -----Original Message-----
> > From: Tim Gruene [mailto: [EMAIL PROTECTED]]
> > Sent: Monday, 19 June, 2006 12:53
> > To: Ian Tickle
> > Cc: Flip Hoedemaeker; [email protected]
> > Subject: RE: [ccp4bb]: Refmac problems in 6.0.1
> >
> >
> > On Mon, 19 Jun 2006, Ian Tickle wrote:
> >
> > > What's your total free memory before starting refmac
> (e.g. add up the
> > > numbers from the 'top' output).
> > >
> > > -- Ian
> > In order to see how much memory you have left, use free. It
> also substracts
> > any cached memory so that you get what really can be used.
> >
> --
> Cat, n.: Lapwarmer with built-in buzzer.
> +-------------------------------------------------------------
> --------+
> | Andy Purkiss, School of Crystallography, Birkbeck College,
> London |
> | E-mail [EMAIL PROTECTED]
> |
> | Phone 020 7631 6869 (Work) or 0776 490 360 (Mobile)
> |
> +-------------------------------------------------------------
> --------+
>
>
>
>
Disclaimer
This communication is confidential and may contain privileged information
intended solely for the named addressee(s). It may not be used or disclosed
except for the purpose for which it has been sent. If you are not the
intended recipient you must not review, use, disclose, copy, distribute or
take any action in reliance upon it. If you have received this communication
in error, please notify Astex Therapeutics Ltd by emailing
[EMAIL PROTECTED] and destroy all copies of the message and
any attached documents.
Astex Therapeutics Ltd monitors, controls and protects all its messaging
traffic in compliance with its corporate email policy. The Company accepts
no liability or responsibility for any onward transmission or use of emails
and attachments having left the Astex Therapeutics domain. Unless expressly
stated, opinions in this message are those of the individual sender and not
of Astex Therapeutics Ltd. The recipient should check this email and any
attachments for the presence of computer viruses. Astex Therapeutics Ltd
accepts no liability for damage caused by any virus transmitted by this
email. E-mail is susceptible to data corruption, interception, unauthorized
amendment, and tampering, Astex Therapeutics Ltd only send and receive
e-mails on the basis that the Company is not liable for any such alteration
or any consequences thereof.
--
Mark BROOKS
Telephone: 0169157968
Fax: 0169853715
INSTITUT de BIOCHIMIE et de BIOPHYSIQUE MOLECULAIRE et CELLULAIRE
UMR8619 - Bât 430 - Université de Paris-Sud
91405 ORSAY CEDEX
