mmtbx.command_line.cif_as_mtz
index
/net/chevy/raid1/nat/src/cctbx_project/mmtbx/command_line/cif_as_mtz.py

# LIBTBX_SET_DISPATCHER_NAME phenix.cif_as_mtz

 
Modules
       
cctbx.crystal
iotbx.crystal_symmetry_from_any
iotbx.pdb.crystal_symmetry_from_pdb
cctbx.array_family.flex
iotbx
libtbx
mmtbx
os
re
libtbx.runtime_utils
libtbx.smart_open
string
sys

 
Classes
       
libtbx.runtime_utils.target_with_save_result(__builtin__.object)
launcher

 
class launcher(libtbx.runtime_utils.target_with_save_result)
    
Method resolution order:
launcher
libtbx.runtime_utils.target_with_save_result
__builtin__.object

Methods defined here:
run(self)

Methods inherited from libtbx.runtime_utils.target_with_save_result:
__call__(self)
__init__(self, args, file_name, output_dir=None, log_file=None, job_title=None)

Data descriptors inherited from libtbx.runtime_utils.target_with_save_result:
__dict__
dictionary for instance variables (if defined)
__weakref__
list of weak references to the object (if defined)

 
Functions
       
extract(file_name, crystal_symmetry, wavelength_id, crystal_id, show_details_if_error, output_r_free_label, merge_non_unique_under_symmetry, map_to_asu, remove_systematic_absences, incompatible_flags_to_work_set=False, ignore_bad_sigmas=False, extend_flags=False, return_as_miller_arrays=False, log=<open file '<stdout>', mode 'w'>)
finish_job(results)
process_files(file_name, crystal_symmetry, pdb_file_name, output_file_name, wavelength_id, crystal_id, show_details_if_error, output_r_free_label, merge_non_unique_under_symmetry=False, map_to_asu=False, remove_systematic_absences=False, incompatible_flags_to_work_set=False, ignore_bad_sigmas=False, return_as_miller_arrays=False, extend_flags=False, log=<open file '<stdout>', mode 'w'>)
run(args, command_name='phenix.cif_as_mtz', out=<open file '<stdout>', mode 'w'>, return_as_miller_arrays=False)
run2(args, log=<open file '<stdout>', mode 'w'>, check_params=True, params=None)
# TODO replace the old 'run' method
#
# XXX this is still a little unsophisticated with respect to extracting
# crystal symmetry, but it's meant to be run from the Phenix GUI right now.
validate_params(params)

 
Data
        division = _Feature((2, 2, 0, 'alpha', 2), (3, 0, 0, 'alpha', 0), 8192)
master_phil = <libtbx.phil.scope object>