////////////////////////////////////////////////////////////////////
{
  type: "DATACLEANING",
  version: 1,
  index: "bitmask",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  default_apply: ["nothingcut", "nhitcut", "zerozerocut", "prescalecut","ringoffire","crateisotropy","flashergeocut","muontag","owlcut","neckcut","junkcut","qcluster","qvt","qvnhit","itctimespreadcut","ftscut","caencut","thresholdflashercut","pollingcut", "missingcaendata", "emptycrate"],

  muon_study_mask: ["muontag","missedmuonfollower", "tpmuonfollowercut-long"],

  flasher_study_mask: ["flashergeocut","qcluster","qvt","qvnhit","itctimespreadcut","ftscut"],

  nothing_mask: ["nothingcut"],

  analysis_mask: ["zerozerocut", "ringoffire","crateisotropy","flashergeocut","muontag","owlcut","neckcut","junkcut","qcluster","qvt","qvnhit","itctimespreadcut","ftscut","tpmuonfollowercut-short","caencut","pollingcut"],

  reconstruction_filter: ["nothingcut"],

  write_out_filter: ["nothingcut"],

}

{
  type: "DATACLEANING",
  version: 1,
  index: "atmospheric",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",
  primary_nhit_threshold: 200, // minimum nhit to start a atmospheric window
  owl_threshold: 5, // atmospheric event must have less than this many owl hits
  secondary_nhit_threshold: 100, // minimum nhit for a michel electron
  time_window: 20000.0, // maximum follower time in ns (20 us)
  dead_time_window: 50000.0, // dead window after muon event in ns (50 us) 
  cut_time_window: 20000000000.0, // time cut after atmospheric in ns (20 s)
  time_spread_cut: 700, // used for flat TAC cut, specifically for the followers
}

{
  type: "DATACLEANING",
  version: 1,
  index: "missedmuonfollower",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",
  primary_nhit_threshold: 60, // minimum nhit to start a "missed muon" window
  secondary_nhit_threshold: 20, // minimum follower nhit
  time_window: 1000000., // maximum follower time in nano-seconds (1 ms)
}

{
  type: "DATACLEANING",
  version: 1,
  index: "pedcut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",
  time_window: 1000000000., // Length of time before/after a pedestal that should be cut
}

{
  type: "DATACLEANING",
  version: 1,
  index: "tpmuonfollowercut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  owl_lockout_ns: 5000, // ns following an OWL event that candidates are vetoed
  nhit_min: 150, // min nhit for a muon
  trms_max: 90., // max RMS time (in adc counts) of normal tubes
  neck_cut_nhit_max: 5000, // max NHIT to do a neck cut
  max_neck: 3, // max fired neck tubes to fail neck cut part
  min_owls: 5, // min owls for a muon
  min_q: -110, // min charge for neck cut part
  max_q: 70, // max charge for neck cut part
  muon_time_diff: -85., // time diff (ns) for neck cut part

  short_follower_time: 20., // follower time in seconds
  long_follower_time: 60., // follower time in seconds

}

{
  type: "DATACLEANING",
  version: 1,
  index: "ringoffire",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  // lowest/highest FEC/channel considered part of a "ring"
  card_low: 3,
  card_high: 12,
  channel_low: 7,
  channel_high: 24,

  crate_frac: 0.70, // fraction of hits that need to be in one crate
  ring_frac: 0.80, // fraction of hits in crate that need to be in ring
}

{
  type: "DATACLEANING",
  version: 1,
  index: "crateisotropy",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  crate_frac: 0.70, // fraction of hits that need to be in one crate
  card_frac: 0.80, // fraction of hits in crate that need to be in adjacent cards
  chan_frac: 0.70, // fraction of hits in crate that need to be in adjacent channels
}

{
  type: "DATACLEANING",
  version: 1,
  index: "emptycrate",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  minimum_nhit: 200, // minimum number of hits to check the crates
  num_empty_crates: 14, // number of crates the should have hits
}

{
  type: "DATACLEANING",
  version: 1,
  index: "nhitcut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  nhit_value: 1, // flagg events below this value
}

{
  type: "DATACLEANING",
  version: 1,
  index: "prescalecut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  fraction: 0.1, // fraction of hits to keep
}

{
  type: "DATACLEANING",
  version: 1,
  index: "flashergeocut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  max_nhits: 1000, // maximum nhit for which this cut is applied
  min_nhits: 10, // minimum nhit for which this cut is applied
  nhits_psup: 4, // least number of hits in a cluster
  nhits_crate: 4, // least number of hits in a cluster (in electronics space)
  ccc_lower: 8, // least ccc in the cluster
  ccc_upper: 8, // largest ccc in the cluster

  radius_cluster: 1000., // radius of a cluster (mm)
  ratio_cut: 0.5, // cut on the ratio between # of hits outside a cluster and nhit
  tac_cut: 500., // cut on TAC of cluster relative to other hits
  distance_cut: 12000., // cut on avg dist between the cluster and other hits (mm)
}

{
  type: "DATACLEANING",
  version: 1,
  index: "itctimespreadcut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  window_size: 93., // time window in ns
  window_step: 1., // step size in ns
  ratio_cut: 0.6, // cut on ratio greater than this
}

{
  type: "DATACLEANING",
  version: 1,
  index: "owlcut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  mode : 1, // 0 = OWLs or BUTTs, 1 = OWLs+BUTTs
  tot_thresh : 3, // threshold for OWL+BUTT
  owl_thresh : 3, // threshold for OWL
  butt_thresh : 2, // threshold for BUTT
}

{
  type: "DATACLEANING",
  version: 1,
  index: "ftscut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  clustermode: 1, // 1=checks for clusters
  deltatthresh: 25, // consider pmt pairs with time diff less than this (ns)
  distthresh: 3000, // consider pmt pairs with distance between less than this (mm)
  countthresh: 15, // need this many valid pairs or skip cut
  mediancut: 6.8, // cut value for median delta t (ns)
}

{
  type: "DATACLEANING",
  version: 1,
  index: "qvnhit",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  ratio: 0.25, // q/nhit threshold, events fail if less than this
  ECA_mask: 0x16 // Required ECA checks for good QHL
  PCA_mask: 0x1C // Required PCA checks for good QHL
  HHP_low: 0.0  // Minimum HHP for a PMT for it to participate
  HHP_high: 100.0 // Maximum HHP for a PMT for it to participate
}

{
  type: "DATACLEANING",
  version: 1,
  index: "zerozerocut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

}

{
  type: "DATACLEANING",
  version: 1,
  index: "junkcut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

}

{
  type: "DATACLEANING",
  version: 1,
  index: "thresholdflashercut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  adjacent_channels: 5, // number of adjacent channels to check
  adjacent_channels_maxed: 4, // number of maxed channels to allow
  ignore_channel_threshold: 0.1, // threshold to ignore the channel
  uncalQHS_low: 200,
  uncalQHS_high: 3500,
  uncalQHL_low: 200,
  uncalQHL_high: 3500,
  uncalQLX_low: 100,
  uncalQLX_high: 2000,
  calQHS_low: -250,
  calQHS_high: 2000,
  calQHL_low: -250,
  calQHL_high: 2000,
  calQLX_low: -200,
  calQLX_high: 1000,

}

{
  type: "DATACLEANING",
  version: 1,
  index: "qcluster",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  cutmode: 3, // 1=raw adc only, 2=ped subtracted only, 3=whatevers available
  maxhits: 3, // max number of hits in sliding window
  maxbad: 1, // threshold of channels with bad charge needed to reject event
  uncalQHS_low: 400,
  uncalQHS_high: 4000,
  uncalQHL_low: 400,
  uncalQHL_high: 4000,
  uncalQLX_low: 350,
  uncalQLX_high: 4000,
  calQHS_low: -250,
  calQHS_high: 2000,
  calQHL_low: -400,
  calQHL_high: 2000,
  calQLX_low: -250,
  calQLX_high: 300,

  window_size: 5, // size of sliding window
  badcrates: [0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0],
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}

{
  type: "DATACLEANING",
  version: 1,
  index: "qvt",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  timemode: 3, // 0=only calibrated, 1=if bad, put any in curl to late bound, 2=use eca only if bad, 3=use raw if pca and eca bad
  cutmode: 2, // 1='or' of QHL and QLX cuts, 2='and' of QHL and QLX cuts
              // 3='or' of QHS and QLX cuts, 4='and of QHS and QLX cuts
              // 5= (QHS&QLX) or (QHL&QLX) cuts
  QHSECAmask: 0xE, //ECA mask that requires ECA constants and good QHS calib.
  QHLECAmask: 0x16, // ECA mask that requires good QHL calibrations
  QLXECAmask: 0x26, // ECA mask that requires good QLX calibrations
  PCAmask: 0x1C, // Good PCA mask to compliment high charge check
  badTACHigh: 3900, // Bound for a bad TAC when trying to use uncalibrated PMTs
  badTACLow: 200, // Bound for a bad TAC when trying to use uncalibrated PMTs
  lowTCAL: -1000, // Lower bound for good TAC to be used in median time
  minPMTs: 10, // PMTs required to run the cut
  negativeRail: -250, //ADC counts seen where a calibrated PMT is considered railed
  tCurlRaw: 3000, //Time where the TAC->time distribution curls
  earlycaltimebound: 60., // bound relative to median time for cut in nanoseconds
  latecaltimebound: 250.,
  earlyuncaltimebound: 500., // bound relative to median time for cut in nanoseconds for uncalibrated
  lateuncaltimebound: 2700.,
  qhbound: 610, // qhl bound relative to average in ped subtracted adc counts
  qlbound: 110, // qlx bound relative to average in ped subtracted adc counts
}

{
  type: "DATACLEANING",
  version: 1,
  index: "neckcut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  min_nhit: 10, // pass the event if outside these nhit ranges
  max_nhit: 5000,
  max_neck: 2, // fail event if this number of neck tubes hit

  mode_q: 2, // 2 = ped subtracted charge, 1 = ADC values
  ped_minq: -110, // consider a high charge hit if outside these ranges
  ped_maxq: 70,
  adc_minq: 400,
  adc_maxq: 700,

  mode_t: 2, // 2= ECA times, 1= ADC value
  time_diff: 85., // fail if time diff > than this
  tac_diff: 800.,
}

{
  type: "DATACLEANING",
  version: 1,
  index: "muontag",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  owl_lockout_ns: 5000, // ns following an OWL event that candidates are vetoed
  nhit_min: 150, // min nhit for a muon
  trms_max: 90., // max RMS time (in adc counts) of normal tubes
  neck_cut_nhit_max: 5000, // max NHIT to do a neck cut
  max_neck: 3, // max fired neck tubes to fail neck cut part
  min_owls: 5, // min owls for a muon
  min_q: -110, // min charge for neck cut part
  max_q: 70, // max charge for neck cut part
  muon_time_diff: -85., // time diff (ns) for neck cut part
  tag_missed_candidates: 0, // if =1 tag missed-muons (i.e. missed PSUP)
  tag_muon_candidates: 1, // if =1 tag muon candidates (i.e. went through PSUP)
}

{
  type: "DATACLEANING",
  version: 1,
  index: "caencut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  // If cut_mode = 1 to pass the CAENCut an event must pass BOTH the
  // peak AND the integral test.
  // If cut_mode != 1 and event must pass EITHER the peak OR the integral test
  cut_mode: 1,
  use_lower_bound: 1,
  min_nhit: 4,      // Minimum NHit to apply the CAENCut on
  start_sample: 0,  // Which sample should be the first used
  end_sample: 85,  // Which sample should be the last used

  // The following two numbers are used to define the baseline for a CAEN trace.
  // if both values are (say) 10 then the values within
  // [start_sample, start_sample + pre_pulse_ped_samples] and
  // [end_sample - post_pulse_ped_sample, end_sample] are used

  pre_pulse_ped_samples: 20.,
  post_pulse_ped_samples: 20.,

  transition_nhit: 15,
  transition_width: 5,

  peak_low_nhit_upper_bound: 73.4,
  peak_low_nhit_lower_bound: 6.6,
  peak_upper_slope: 1.34,
  peak_lower_slope: 0.45,
  peak_upper_constant: 54.14,
  peak_lower_constant: 5.1,

  attenuated_peak_low_nhit_upper_bound: 27.0,
  attenuated_peak_low_nhit_lower_bound: 9.9,
  attenuated_peak_upper_slope: 0.13,
  attenuated_peak_lower_slope: 0.0728,
  attenuated_peak_upper_constant: 22.8,
  attenuated_peak_lower_constant: 6.7,


  integral_low_nhit_upper_bound: 720.6,
  integral_low_nhit_lower_bound: -834.0,
  integral_upper_slope: -6.61,
  integral_lower_slope: -15.9,
  integral_upper_constant: 658.8,
  integral_lower_constant: -707.0,

  attenuated_integral_low_nhit_upper_bound: 67.85,
  attenuated_integral_low_nhit_lower_bound: -165.4,
  attenuated_integral_upper_slope: -1.22,
  attenuated_integral_lower_slope: -2.54,
  attenuated_integral_upper_constant: 61.45,
  attenuated_integral_lower_constant: -153.14,
}

{
  type: "DATACLEANING",
  version: 1,
  index: "retriggercut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  twin_retrigger: 3,

}

{
  type: "DATACLEANING",
  version: 1,
  index: "tpburstcut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  twin_nhitburst: 4000000,  //nhit burst parameter
  nevents_nhitburst: 6,
  nhit_threshold: 40,
}

{
  type: "DATACLEANING",
  version: 1,
  index: "caenlosscut",
  run_range: [0, 0],
  pass: 0,
  comment: "",
  timestamp: "",

  twin_caenloss: 2000,
  nevents_caenlossburst: 2,

}