L498-thermolysin-t002.phil

# -*- mode: conf -*-

#include file /reg/neh/home3/nksauter/myrelease/cxi84914/L498-subpixel.phil
distl {
  detector_tiling = None
  peripheral_margin = 1
  quad_translations = -3 -4 -3 -7 -12 0 -7 -5     
}
distl {
  tile_translations = """
       1,  0,  1,  0,  0,  0,  0,  0,
       1, -1,  1, -1,  3,  0,  3,  0,
       1, -3,  1, -3,  1, -3,  1, -3,
       0, -4,  0, -4,  0, -2,  0, -2,

       0,  1,  0,  1,  1,  1,  1,  1,
      -1,  1, -1,  1,  0,  1,  0,  1,
      -1,  1, -1,  1,  0,  2,  0,  2,
       0,  2,  0,  2,  0,  1,  0,  1,

       0,  1,  0,  1,  0,  1,  0,  1,
      -1,  1, -1,  1, -1,  0, -1,  0,
      -1,  1, -1,  1, -1,  1, -1,  1,
       0,  1,  0,  1, -1,  1, -1,  1,

       0, -1,  0, -1,  0,  0,  0,  0,
       0, -3,  0, -3,  0, -3,  0, -3,
      -1, -1, -1, -1, -1, -1, -1, -1,
      -1,  0, -1,  0,  0,  0,  0,  0
    """}

# This is from 2tli.
target_cell = 94 94 130 90 90 120
known_setting = 12

distl_highres_limit = 1.8
force_method2_resolution_limit = 1.8

mosaicity_limit = 1

# Set to True to pick up second lattice, if present.
#indexing.outlier_detection.switch = True

distl {
  res.outer = 1.8
  minimum_signal_height = 5
  minimum_spot_height = 10
  minimum_spot_area = 1
  spot_area_maximum_factor = 20
  compactness_filter = False
  method2_cutoff_percentage = 5

  # Avoids intensity filter.
  peak_intensity_maximum_factor = 10000
}

indexing {
  # Set to True to generate correction vectors.
  verbose_cv = True
}

integration {
  mask_pixel_value=-2
  background_factor = 2
  detector_gain = 1.0

  #model = use_case_3_simulated_annealing_7
  model = user_supplied

  signal_penetration = 0.5
  #spot_shape_verbose = True
  spotfinder_subset = spots_non-ice
  mosaic {
    refinement_target=ML
    kludge1=1.0 #normally 1.0, but sometimes set to 2.0 to increase indexing
    domain_size_lower_limit=10.
  }

}