I will fire up an Ubuntu 12.04 virtual machine and try to reproduce this, but it's going to take a while.  If you could send me your input files off-list, it will help to verify whether the problem is specific to Ubuntu, or something in your data that isn't being handled properly.

thanks,
Nat


On Thu, Oct 31, 2013 at 8:48 AM, Jan Gebauer <jan.gebauer@uni-koeln.de> wrote:
Dear all,

I'm trying to get rosetta_refine working on ubuntu 12.04 LTS.

This was the (latest) way I tried it:

1) Downloaded phenix-dev-1523 binary & installed it via installer in /usr/local/science/phenix4rosetta/phenix-dev-1523
2) Downloaded rosetta 2031wk42 and extracted it in /usr/local/science/phenix4rosetta/rosetta_2013wk42_bundle
3) Inserted into phenix_env.sh
export ROSETTA_BIN=/usr/local/science/phenix4rosetta/rosetta_2013wk42_bundle/main/source/bin
export PHENIX_ROSETTA_PATH=/usr/local/science/phenix4rosetta/rosetta_2013wk42_bundle/
export ROSETTA_BIN=/usr/local/science/phenix4rosetta/rosetta_2013wk42_bundle/main/database
4) sources phenix_env.sh
5) build the interface via
rosetta.build_phenix_interface nproc=4
6) exceute the refinement via phenix.rosetta_refine phasermodel.pdb data.mtz nproc=4

The programm runs fine, up to the point where it should generate models via rosetta, it then stops and crashes.
I have attached some logfiles

Has anyone managed to run rosetta_refine on Ubuntu? Which phenix and rosetta versions did you use? Ist there anything wrong on my above mentioned build protocol?

I'm thankful for any help.

Regards,
Jan Gebauer



-- 
Dr. Jan Gebauer
AG Prof. Baumann
Institut für Biochemie / Uni-Köln
Otto-Fischer-Str. 12-14 / 50674 Köln
Fon: +49 (221) 470 3212	
Fax: +49 (221) 470 5066

http://px.uni-koeln.de/

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