Python process_args Examples

Example #1

File: solver.py Project: cctbx/cctbx-playground

def run_fresh(args):
  import run_spotfinder
  work_params = run_spotfinder.process_args(
    args=args,
    extra_phil_str="""\
number_of_shots = 10
  .type = int
usable_partiality_threshold = 0.1
  .type = float
scale_estimation_scale_max = 1e3
  .type = float
min_number_of_spots_for_indexing = 16
  .type = int
sample_random_seeds = None
  .type = int
check_refine_uc_cr = False
  .type = bool
index_and_integrate = False
  .type = bool
show_refine_uc_cr = False
  .type = bool
apply_random_reindexing = True
  .type = bool
multiprocessing = False
  .type = bool
refine_scales {
  max_iterations = None
    .type = int
  finite_difference_eps = 1e-4
    .type = float
}
pickle_image_models = False
  .type = bool
write_image_models_to_mtz_files = False
  .type = bool
""")
  from create import build_i_calc
  i_calc = build_i_calc(work_params)
  i_calc.p1_anom.show_comprehensive_summary()
  print
  show_vm_info("After build_i_calc:")
  if (work_params.sample_random_seeds is None):
    process(work_params, i_calc)
  else:
    _ = work_params
    base36_timestamp = _.base36_timestamp
    for _.noise.random_seed in xrange(_.sample_random_seeds):
      _.base36_timestamp = base36_timestamp + "_%04d" % _.noise.random_seed
      process(_, i_calc)
  show_vm_info("Final:")

Example #2

File: solver.py Project: StephenHarkness65/cctbx_project

def run_fresh(args):
  from . import run_spotfinder
  work_params = run_spotfinder.process_args(
    args=args,
    extra_phil_str="""\
number_of_shots = 10
  .type = int
usable_partiality_threshold = 0.1
  .type = float
scale_estimation_scale_max = 1e3
  .type = float
min_number_of_spots_for_indexing = 16
  .type = int
sample_random_seeds = None
  .type = int
check_refine_uc_cr = False
  .type = bool
index_and_integrate = False
  .type = bool
show_refine_uc_cr = False
  .type = bool
apply_random_reindexing = True
  .type = bool
multiprocessing = False
  .type = bool
refine_scales {
  max_iterations = None
    .type = int
  finite_difference_eps = 1e-4
    .type = float
}
pickle_image_models = False
  .type = bool
write_image_models_to_mtz_files = False
  .type = bool
""")
  from .create import build_i_calc
  i_calc = build_i_calc(work_params)
  i_calc.p1_anom.show_comprehensive_summary()
  print
  show_vm_info("After build_i_calc:")
  if (work_params.sample_random_seeds is None):
    process(work_params, i_calc)
  else:
    _ = work_params
    base36_timestamp = _.base36_timestamp
    for _.noise.random_seed in xrange(_.sample_random_seeds):
      _.base36_timestamp = base36_timestamp + "_%04d" % _.noise.random_seed
      process(_, i_calc)
  show_vm_info("Final:")

Example #3

def run(args):
    from rstbx.simage import run_spotfinder
    work_params = run_spotfinder.process_args(args=args,
                                              extra_phil_str="""\
saturation_level = 1.0
  .type = float
""")
    if (work_params.wavelength_2 is None):
        work_params.wavelength_2 = work_params.wavelength
    app = wx.App()
    frame = wx.Frame(parent=None,
                     id=-1,
                     title="wx_simage",
                     pos=wx.DefaultPosition,
                     size=wx.Size(800, 600))
    main_panel(parent=frame, work_params=work_params)
    frame.Show()
    app.MainLoop()

Example #4

File: wx_display.py Project: cctbx/cctbx-playground

def run(args):
  from rstbx.simage import run_spotfinder
  work_params = run_spotfinder.process_args(
    args=args, extra_phil_str="""\
saturation_level = 1.0
  .type = float
""")
  if (work_params.wavelength_2 is None):
    work_params.wavelength_2 = work_params.wavelength
  app = wx.App()
  frame = wx.Frame(
    parent=None,
    id=-1,
    title="wx_simage",
    pos=wx.DefaultPosition,
    size=wx.Size(800, 600))
  main_panel(parent=frame, work_params=work_params)
  frame.Show()
  app.MainLoop()