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 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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