[phenixbb] phenix.mr_rosetta paths

Tom Terwilliger terwilliger at lanl.gov
Mon Jan 31 12:28:29 PST 2011

Hi Ben,

All you should need is the


and the 


If you set "align_with_sculptor=False" you would also need the (missing) files in pilot_script_dir. (I didn't realize these files are not in the rosetta distribution.)

Let me know of problems. 

Note: it may be helpful to run one or more of the regression tests on this to make sure you have everything set up correctly. You can do this for example with one of these:

phenix_regression.wizards.test_command_line_rosetta_quick_tests test_set_up # 10 sec, quick test for installation

phenix_regression.wizards.test_command_line_rosetta test_mr_rosetta # one full test, takes 15 minutes

phenix_regression.wizards.test_command_line_rosetta_quick_tests  # 34 tests, takes an hour

All the best,
Tom T

On Jan 31, 2011, at 1:15 PM, Ben Eisenbraun wrote:

> Hi,
> I'm testing Rosetta 3.2+PHENIX 1.7-650, and in the phenix.mr_rosetta
> output, I see:
> Checking rosetta paths:
>  rosetta binary: /programs/l/rosetta/3.2/rosetta_source/bin/mr_protocols.default 
>  database_dir: /programs/l/rosetta/3.2/rosetta_database 
>  script_dir: /programs/l/rosetta/3.2/rosetta_source/src/apps/public/electron_density
> pilot_script_dir: /programs/l/rosetta/3.2/rosetta_source/src/apps/pilot/frank/
> In the script directory, the C++ files were not built along with the
> regular Rosetta build.  Do those need to be compiled for the target
> platform?
> Also, the pilot_script_dir is empty.  Is there supposed to be something in
> there?
> Thanks.
> -ben
> --
> | Ben Eisenbraun
> | SBGrid Consortium                          | http://sbgrid.org       |
> | Harvard Medical School                     | http://hms.harvard.edu  |
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Thomas C. Terwilliger
Mail Stop M888
Los Alamos National Laboratory
Los Alamos, NM 87545

Tel:  505-667-0072                 email: terwilliger at LANL.gov
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PHENIX web site: http:www.phenix-online.org
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