[phenixbb] phenix.refine writing maps error
Peter Zwart
PHZwart at lbl.gov
Fri Aug 22 10:29:30 PDT 2008
oh my ....
can you contact me personally with your data / model?
That wil make it seasy to debug.
P
2008/8/22 Francis E Reyes <Francis.Reyes at colorado.edu>:
> Writing refined structure to PDB file:
> /Users/francisreyes/Desktop/No_Sync/RBD_MOSFLM_P4_processing/
> cns_P41_solution_18/RBD_P4PROCESS_18.1_refine_001.pdb
> n_use = 1586
> n_use_u_iso = 1586
> n_use_u_aniso = 0
> n_grad_site = 0
> n_grad_u_iso = 0
> n_grad_u_aniso = 0
> n_grad_occupancy = 0
> n_grad_fp = 0
> n_grad_fdp = 0
> n_anisotropic_flag = 0
> total number of scatterers = 1586
>
> Traceback (most recent call last):
> File "/usr/local/phenix-1.3-rc2/phenix/phenix/command_line/
> refine.py", line 5, in <module>
> command_line.run(command_name="phenix.refine", args=sys.argv[1:])
> File "/usr/local/phenix-1.3-rc2/phenix/phenix/refinement/
> command_line.py", line 99, in run
> map_manger.write_files()
> File "/usr/local/phenix-1.3-rc2/phenix/phenix/refinement/
> driver.py", line 1170, in write_files
> coeffs =
> self.refine_object.fmodel.map_coefficients(map_type=map_type)
> File "/usr/local/phenix-1.3-rc2/mmtbx/mmtbx/twinning/
> twin_f_model.py", line 2205, in map_coefficients
> result = result.customized_copy( data = result.data()*aniso_scale )
> RuntimeError: scitbx array_family range error
>
>
> Using version
>
> -------------------------------------------------------------------------------
> PHENIX: Python-based Hierarchical ENvironment for Integrated
> Xtallography
> Version: 1.3
> Release tag: rc2
> cctbx tag: 2008_05_25_1144
> Platform: mac-ppc-osx osx-10.5.3
> User: francisreyes
> -------------------------------------------------------------------------------
>
>
> Thanks
>
>
> FR
>
>
> ---------------------------------------------
> Francis Reyes M.Sc.
> 215 UCB
> University of Colorado at Boulder
>
> gpg --keyserver pgp.mit.edu --recv-keys 67BA8D5D
>
> 8AE2 F2F4 90F7 9640 28BC 686F 78FD 6669 67BA 8D5D
>
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>
--
-----------------------------------------------------------------
P.H. Zwart
Beamline Scientist
Berkeley Center for Structural Biology
Lawrence Berkeley National Laboratories
1 Cyclotron Road, Berkeley, CA-94703, USA
Cell: 510 289 9246
BCSB: http://bcsb.als.lbl.gov
PHENIX: http://www.phenix-online.org
CCTBX: http://cctbx.sf.net
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