[ccp4bb] phaser:- set a breakpoint in malloc error break to debug

- Protein crystallography

Main steps:

- Protein purification
- Crystallisation

Special:

- Programs for crystallography
- X-ray detectors

Basic tutorials:

   - Chemistry
   - Protein
   - Peptide
   - Amino Acids

Xtal community:

- CCP4BB

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: Bacterial induction at 18C
From: Juergen Bosch jbosch {- at -} U {- dot -} WASHINGTON {- dot -} EDU
Date: 2008-05-01

Next message:
Subject: Re: space group problem
From: Junyu Xiao JUNYU {- at -} UMICH {- dot -} EDU
Date: 2008-05-01

Subject: phaser:- set a breakpoint in malloc error break to debug
From: hari jayaram harijay {- at -} GMAIL {- dot -} COM
Date: 2008-05-01

Hi
I was running phaser on an 8 core Mac pro using the fink 10.5 (intel) ccp4
binaries provided by W.G Scott .
Although the many phaser jobs I have run in the last month have successfully
phased my data.
Today I saw a very strange error and phaser FAILED.

I did rerun phaser and have it work after a slight change in the pdb ( I
removed the heteroatoms) , so I dont think there is something wrong with
phaser or the pdb.

But I thought I would send the error message along in case it is a Mac Pro
specific problem that crops ups every now and then.
Thanks
Hari Jayaram

--------------------
EXIT STATUS: FAILURE
--------------------

CPU Time: 0 days 0 hrs 8 mins 35.41 secs (515.41 secs)
Finished: Thu May 1 14:19:16 2008

***************************************************************************
* Information from CCP4Interface script
***************************************************************************
The program run with command: phaser
has failed with error message
phaser(88098) malloc: *** mmap(size=1185792000) failed (error code=12)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
***************************************************************************

#CCP4I TERMINATION STATUS 0 "phaser(88098) malloc: *** mmap(size=1185792000)
failed (error code=12) *** error: can't allocate region *** set a breakpoint
in malloc_error_break to debug"
#CCP4I TERMINATION TIME 01 May 2008 14:19:16
#CCP4I MESSAGE Task failed

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: Bacterial induction at 18C
From: Juergen Bosch jbosch {- at -} U {- dot -} WASHINGTON {- dot -} EDU
Date: 2008-05-01

Next message:
Subject: Re: space group problem
From: Junyu Xiao JUNYU {- at -} UMICH {- dot -} EDU
Date: 2008-05-01