[phenixbb] Problems running phenix.rosetta_refine

[Rebuffet Etienne]

Nigel,

Thank you for your help. I forgot to say I am running the soft on linux 
(LMDE). I am sure you will respect strict confidentiality but I can't 
send any file about this project. Based on your comment, I am going to 
try running phenix.rosetta_refine with dataset from other proteins in 
order to see if it is an input file issue. If not I will update my phenix.
Thank you again for your help.


Etienne



Le 03/06/2015 18:46, Nigel Moriarty a écrit :
> Etienne
>
> On OSX with a more recent version of phenix (dev-2057 should be fine)
> and exactly the same Rosetta version, I have not trouble running on the
> command line or in the GUI. Perhaps you could send me your files to be
> sure it's not an input error.
>
> NB. Any files sent to me will be held in strictest confidence.
>
>
> Cheers
>
> Nigel
>
> ---
> Nigel W. Moriarty
> Building 64R0246B, Physical Biosciences Division
> Lawrence Berkeley National Laboratory
> Berkeley, CA 94720-8235
> Phone : 510-486-5709     Email : NWMoriarty at LBL.gov
> Fax   : 510-486-5909       Web  : CCI.LBL.gov <http://CCI.LBL.gov>
>
> On Wed, Jun 3, 2015 at 12:08 AM, Rebuffet Etienne
> <etienne.rebuffet at inserm.fr <mailto:etienne.rebuffet at inserm.fr>> wrote:
>
>     Dear all,
>
>     I get the same error message as Thomas and I would appreciate any
>     help about this issue. I am currently running :
>     Phenix: 1.6-1692
>     Rosetta: 2015.19.57819
>
>     Thanks,
>
>     Etienne
>
>
>
>     Le 28/05/2015 20:59, Klose, Thomas a écrit :
>
>         Dear all,
>
>         I was trying to set up phenix.rosetta_refine to test it for the
>         refinement of a 4.5Å structure. I installed the latest phenix
>         release and compiled the latest rosetta version (2015.19) using
>         rosetta.build_phenix_interface. However, when I try to run
>         phenix.rosetta_refine I get the following error message:
>
>         ….
>         Generating 5 models on 4 processors...
>
>         DEBUG dumping error message
>         ERROR: Rosetta exited with status 1
>         stderr output:
>         Sorry:
>
>         Wrong map type requested: %%map_type%%
>             Allowed format is: [p][m]Fo+[q][D]Fc[kick][filled]
>               where [p] and [q] are any numbers (optional),
>                     [m] and [D] indicate if the requested map is sigmaa
>         (optional),
>                     Fo and Fc are Fobs and Fcalc,
>                     [kick] is for Average Kick Map (optional),
>                     [filled] is for missing Fobs filled map.
>             Examples: 2mFo-DFc, 3.2Fo-2.3Fc, mFobs-DFcalc_kick,
>         2mFobs-DFcalc_filled, Fc,
>                       2mFobs-DFcalc_kick_fill, anom, anom_diff,
>         anomalous_difference, Fo
>
>
>         ERROR: PhenixInterface::calculateDensityMap() : error writing map
>         ERROR:: Exit from: src/core/scoring/cryst/PhenixInterface.cc
>         line: 1122
>
>         This happens with our actual data as well as test data that I
>         downloaded (PDB: 1yip).
>
>         Any help in solving this problem would be greatly appreciated.
>
>         Thanks,
>         Thomas
>
>
>
>
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