Using phenix_rosetta_refine
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Dear all, I tried to install phenix.rosetta_refine for a recently solved structure, which only diffracts up to 3.5-4.0 Angstrom (anisotropic). However, I was unable to get the programs correctly set up. I first tried to compile phenix 1.8.4-1496 from source according to this documentation : http://www.phenix-online.org/version_docs/dev-1500/rosetta_refine.htm. The build process failed during GTK2 building, without an obvious explanation (error code 1, no missing libraries ...) I then realised that the developer version are potentially more suitable, as they seem to be prepared for this. I installed the binary from 1523 and tried to start the building process from there with rosetta.build_phenix_interface nproc=X Unfortunatelly Rosetta 3.5 seems to have a different folder structure. There is no main subfolder, instead there are "rosetta_sources", "rosetta_tools" and so one. After a fast "cp rosetta_sources main/source/" it worked a bit but still exited with: scons: *** Error converting option: extras Invalid value(s) for option: python File ..... /setup.py, line 72, in setup_build_options I have the following questions: 1) Am I right to assume that I do NOT have to recompile the dev 1523 (1520 states "Python shared library for linux) on Linux? 2) Which rosetta version do I have to use? Does 3.5 work? There is no 3.6 on rosettacommons... (or is it hidden?) Regards, Jan -- 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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On Tue, Oct 29, 2013 at 9:47 AM, Jan Gebauer
1) Am I right to assume that I do NOT have to recompile the dev 1523 (1520 states "Python shared library for linux) on Linux?
Correct, and I'll update the documentation now. 2) Which rosetta version do I have to use? Does 3.5 work? There is no 3.6
on rosettacommons... (or is it hidden?)
You should download one of the new weekly releases. I had thought that 3.5 would work but it looks like everyone else who has tried this has been using one of the weeklies instead, and that's generally a good idea since we inevitably find bugs as soon as we distribute something new. -Nat
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Thanks! Downloaded a weekly and started compiling overnight... working smoothly up to know. Sorry, for that "nearly self answered" question, but with this huge download times trial-and-error just takes a lot of time. Regards, Jan Am 29.10.2013 19:09, schrieb Nathaniel Echols:
On Tue, Oct 29, 2013 at 9:47 AM, Jan Gebauer
mailto:[email protected]> wrote: 1) Am I right to assume that I do NOT have to recompile the dev 1523 (1520 states "Python shared library for linux) on Linux?
Correct, and I'll update the documentation now.
2) Which rosetta version do I have to use? Does 3.5 work? There is no 3.6 on rosettacommons... (or is it hidden?)
You should download one of the new weekly releases. I had thought that 3.5 would work but it looks like everyone else who has tried this has been using one of the weeklies instead, and that's generally a good idea since we inevitably find bugs as soon as we distribute something new.
-Nat
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participants (2)
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Jan Gebauer
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Nathaniel Echols