Difference between revisions of "Gd-Lysozyme-3-t003.phil"

Revision as of 21:23, 26 September 2014

# -*- mode: conf -*-
integration {
  subpixel_joint_model {
  rotations \
  0.09674731    0.07989730   -0.19901338   -0.20726174  \
 -0.23830834   -0.54561116   -0.32254118   -0.23491938  \
 -0.38213480   -0.40568805    0.00000000   -0.38117534  \
 -0.04345543    0.03274763   -0.11864964   -0.09977684  \
  0.36115415    0.37260401    0.05477929    0.11149904  \
 -0.01711986    0.04739852    0.09445341    0.03838210  \
  0.32400027    0.13304732    0.00000000   -0.65457856  \
  0.08287607    0.07008890   -0.03954289   -0.03622002  \
 -0.00756307   -0.01077960   -0.08730015   -0.08697513  \
  0.02778883   -0.13734546    0.03048996    0.02011849  \
 -0.07152487    0.29026432    0.00000000    0.06048312  \
  0.13779893    0.13067054   -0.16007059   -0.18625599  \
  0.03336204    0.00450910    0.15636569    0.14043021  \
 -0.25321101   -0.29161931   -0.14166711   -0.11677828  \
  0.17978186    0.25283190    0.00000000    0.16777737  \
 -0.18476683   -0.20782213   -0.19189638   -0.17657794  \

translations \
  0.01645599    0.06357114    0.31182856   -0.18587159  \
 -0.33064024   -0.01687369   -0.12924445    0.79448784  \
 -1.42820923    0.90388123   -0.19540951    0.30820419  \
 -0.45668958    0.83076082    0.20661251    0.13509025  \
  1.11720423    1.63726722    0.24337533   -0.16778626  \
  0.00000000    0.00000000   -1.58479802    2.73609856  \
  0.61802135    0.93311678    0.28939476    0.02838854  \
 -0.49137103    0.40110532   -0.27727766   -0.07446340  \
  0.39254526    0.01270432   -0.79533756   -0.06979216  \
  0.36702082   -0.26706710    0.15538574   -0.14033772  \
  0.97014944    0.06933318   -0.14560628    0.34449643  \
  0.77364546   -0.63267645   -0.32425343   -0.41274074  \
 -0.09048855   -0.27351375    0.28195963    0.23814589  \
  0.00000000    0.00000000    2.68328835   -1.12698624  \
  0.46091929   -0.20983287    0.19411799    0.20929951  \
  0.22846055   -0.22224587   -0.01548936   -0.07354274  \
 -0.07176753    0.12591826    0.36147747    0.16694129  \
 -0.10596766    0.50311655    0.30566388    0.26395658  \
  0.75836529    0.29925123    0.22504273    0.13251012  \
  0.33620364   -0.16595709    0.28349104   -0.23108832  \
  0.49086749    0.91005835   -0.07767814   -0.03281312  \
  0.00000000    0.00000000    2.05137291    0.20557855  \
  0.26748940    0.14474252    0.59710369   -0.22904529  \
  0.19027123   -0.05061881   -0.40129730   -0.45381425  \
 -0.02407400    0.09955869   -0.01526240   -0.03750652  \
 -0.17394381    0.23114235    0.34458238    0.09777947  \
  0.33094527   -0.87490899    0.33281045   -0.13360106  \
  0.04645859    0.07084981   -0.15622817    0.33973182  \
  0.50990247    0.55352531   -0.21437150    0.11181816  \
  0.00000000    0.00000000    0.31198077    3.31932355  \
  0.35255043   -0.93410007    0.41454344   -0.24832485  \
  0.31014590   -0.43458163    0.16026995    0.19435965  \

  }
}
distl {
  detector_tiling = None
  peripheral_margin = 1
  quad_translations =2 -6 4 -6 -6 1 0 -4
  tile_translations = """
       2,  1,  2,  1,  1,  2,  1,  2,
       1,  0,  1,  0,  4,  1,  4,  1,
       2, -2,  2, -2,  0,  0,  0,  0,
       0, -2,  0, -2,  0,  0,  0,  0,

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

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

       0, -2,  0, -2,  0, -1,  0, -1,
       0, -4,  0, -4,  0, -4,  0, -4,
      -1, -3, -1, -3,  0,  0,  0,  0,
      -1, -3, -1, -3,  0, -1,  0, -1"""
} 





# This is from 4ET8.
target_cell = 79 79 38 90 90 90
known_setting = 9

distl_highres_limit = 1.9
force_method2_resolution_limit = 1.9

mosaicity_limit = 1

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

distl {
  res.outer = 1.9
  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.
  }

}