Quick navigation: Home   |    Site Map   ||    References   |    Biography   ||    Copyright   |    Other copyright   |    Contact us   |    Advert   |   
 

Re: [ccp4bb] Strange problem running cpp4i over nx - job reported as failed even though it succeeds-log file has nx errors
- 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: how to improve resolution
From: rui ruisher {- at -} GMAIL {- dot -} COM
Date: 2010-02-04		Next message:
Subject: HKL-MTZ conversion
From: "Dr {- dot -} STEPHEN SIN-YIN, CHUI" chuissy {- at -} HKUCC {- dot -} HKU {- dot -} HK
Date: 2010-02-05


Subject: Re: Strange problem running cpp4i over nx - job reported as failed even though it succeeds-log file has nx errors
From: Francois Berenger berenger {- at -} RIKEN {- dot -} JP
Date: 2010-02-04

Ethan Merritt wrote:
> On Thursday 04 February 2010 05:14:24 hari jayaram wrote:
> [...]
>> The program run with command: /mega/ccp4-6.1.3/ccp4-6.1.3/bin/sortmtz
>> HKLOUT "/mega/hj-8-2-1/hjbr5-1/hjbr5-1_sorted_mosflm.mtz"
>> has failed with error message
>> ERROR: ld.so: object '/usr/NX/lib/libesddsp.so.0' from LD_PRELOAD
>> cannot be preloaded: ignored.
>
> My guess is that your machine configuration includes a file that
> initializes LD_PRELOAD for NX on login. But it should not do this.
>
> The LD_PRELOAD setting applies to all programs, so it should not
> be set blindly to include program-specific libraries.

Unfortunately, some ccp4 configuration files also change PYTHONPATH.
And exactly the same could be said: "The PYTHONPATH setting applies to
all programs, so it should not be set blindly..."

My personal workaround is to start a new shell, then only in this
one source the ccp4 configuration files.
But this is just a workaround, I hope it can be solved in future
releases of ccp4 (ccp4 could creates a CCP4_PYTHONPATH and use this one
instead of using the system-wide one).

Regards,
Francois.

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999
Previous message:
Subject: how to improve resolution
From: rui ruisher {- at -} GMAIL {- dot -} COM
Date: 2010-02-04		Next message:
Subject: HKL-MTZ conversion
From: "Dr {- dot -} STEPHEN SIN-YIN, CHUI" chuissy {- at -} HKUCC {- dot -} HKU {- dot -} HK
Date: 2010-02-05
ProteinCrystallography.org: Copyright 2006-2010 by Quid United Ltd