L498-thermolysin-t003.phil

# -*- mode: conf -*-
integration {
  subpixel_joint_model {
    rotations = \
  0.08784824    0.07586608   -0.24056670   -0.23488591  \
 -0.53587811   -0.55767840   -0.25677729   -0.24162305  \
 -0.37063755   -0.36431530   -0.29087754   -0.31436191  \
 -0.01775368   -0.02332200   -0.14625939   -0.13630001  \
  0.26616030    0.29616388    0.01961986    0.03906939  \
  0.02793548    0.01480748    0.01968022   -0.00306063  \
  0.05039526    0.07277043    0.04020708    0.07712253  \
 -0.01278467   -0.02418700   -0.10259034   -0.10837917  \
 -0.04222492   -0.04034484   -0.10547741   -0.11489878  \
 -0.12340217   -0.19245917    0.01620170   -0.00253942  \
  0.25375480    0.28962958    0.26243937    0.22570546  \
 -0.02360681   -0.02957240   -0.17570939   -0.18964705  \
  0.01290267   -0.00844394    0.11980236    0.12496882  \
 -0.97016502   -0.28981630    0.00000000   -0.13213586  \
  0.25761239    0.29702982    0.10687828    0.15664466  \
 -0.18968090   -0.18555784   -0.20854561   -0.19813884
 
    translations = \
 -0.01091411    0.60624397    0.17518429    0.32015022  \
 -0.16824827   -0.21034649   -0.01244696    0.61768866  \
 -1.48052081    0.66486853    0.36093062    0.40798858  \
 -0.65611847    0.39214211    0.10012695    0.34319722  \
 -0.16562004    1.23445183   -0.55706418   -0.13895835  \
 -0.04146741    0.84448578   -0.39725537   -0.15673608  \
  0.25159917    0.12582723    0.34053543   -0.06731553  \
  0.01781230   -0.10935269    0.50346370   -0.22981912  \
  0.33920072   -0.06890829   -0.66008945   -0.05657858  \
  0.41086480    0.43178750    0.34701981    0.56191587  \
  0.07780933   -0.37122218   -0.48779127   -0.29584131  \
  0.61275557   -0.28760007    0.12797954   -0.33205509  \
 -0.16596486   -0.18710127   -0.08773388   -0.13379421  \
 -0.07088258    0.38167173   -0.06982859    0.41907067  \
 -0.26377930    0.17962823   -0.39046548    0.27734216  \
  0.41304093   -0.02350620    0.32698726   -0.27566595  \
  0.18468180   -0.17834242    0.41092013   -0.24048359  \
  0.01346700    0.25675233    0.18876254   -0.08601800  \
  0.14782264    0.01516420   -0.53182213   -0.27276365  \
 -0.20876160   -0.16313939   -0.28901179   -0.42238730  \
 -0.11985093    0.32779295   -0.10580440   -0.41967254  \
  0.64187108    0.45148796    0.42447993   -0.40944528  \
  0.05696213   -0.42716787    0.08969633   -0.83621638  \
  0.01690127    0.49465279   -0.67083393    0.16914423  \
 -0.16053069   -0.09958014   -0.13473726   -0.32510009  \
 -0.17095192    0.15011910    0.28359132    0.00507247  \
  0.71264642   -2.62232155    0.23460307   -0.55300650  \
  0.00000000    0.00000000   -0.33234785    0.04870643  \
  0.85134007    0.30142704   -0.06217931    0.37417401  \
  0.18754175    0.33967217   -0.29402339    0.46378184  \
  0.36412728   -0.00106759    0.31144078    0.71262755  \
  0.19963932   -0.82773652    0.12937021   -0.11971152

  }
}

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.
  }

}