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+                    GNU GENERAL PUBLIC LICENSE
+                       Version 3, 29 June 2007
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data/README

@@ -0,0 +1 @@
+This project holds a Ruby gem implementing various biophysical calculators for agriculture and related disciplines

data/lib/asigbiophys.rb

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+require 'ad_calculator'
+require 'et_calculator'

data/lib/asigbiophys/ad_calculator.rb

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+module ADCalculator
+  # Calculations for all one-time and daily water balance parameters.
+  # These calculations just return the calculated value and assume that
+  # some other code is responsible for stuffing the results into the appropriate storage.
+  # These are all instance methods now, which obviates the necessity for callers to do
+  # ADCalculator::method.
+  # Authors:: Paul Kaarakka, Rick Wayne
+
+  ###############################################
+  # Created:: 18May11
+  # Author:: P Kaarakka
+  # This should be recalculated and saved whenever soils, crop, or root zone depth are changed
+  # TAW is Total Available Water
+  # fc is field capacity
+  # pwp is permanent wilting point
+  # mrzd is managed root zone depth
+  # Result is inches of water
+  def taw(fc, pwp, mrzd)
+    (fc - pwp)*mrzd
+  end # TAW
+
+  ###############################################
+  # Created:: 18May11
+  # Author:: P Kaarakka
+  # This should be recalculated and saved whenever soils, crop, or root zone depth are changed
+  # AD is Allowable Depletion (aka RAW - Readily Available Water)
+  # madFrac is fractional form of Maximum Allowable Depletion
+  # taw is Total Available Water
+  # Result is in inches of water
+  def ad_max_inches(mad_frac, taw)
+    mad_frac * taw
+  end # Max_AD
+
+  ###############################################
+  # Created:: 18May11
+  # Author:: P Kaarakka
+  # This should be recalculated and saved whenever soils, crop, or root zone depth are changed
+  # fc is field capacity
+  # mrzd is managed root zone depth
+  # adMax is calculated in AD_Max_inches
+  # Result is in percent
+  def pct_moisture_at_ad_min(fc, ad_max, mrzd)
+    (fc - (ad_max/mrzd)) * 100
+  end  # Pct_Moisture_At_AD_Min
+  ###############################################
+  # Created:: 18May11
+  # Author:: P Kaarakka
+  # daily_Rain is accumulated rainfall for the day in inches
+  # daily_Irrigation is accumulated irigation for the day in inches
+  # adj_ET is calculated in module EtCalculator
+  # Result is in inches of water
+  def change_in_daily_storage(daily_rain, daily_irrig, adj_et)
+    # If any of these are nil, use 0.0 for the calculation instead of blowing up
+    daily_rain ||= 0.0; daily_irrig ||= 0.0; adj_et ||= 0.0
+    (daily_rain + daily_irrig) - adj_et
+  end # Change_In_Daily_Storage
+
+  ###############################################
+  # Created:: 18May11
+  # Author:: P Kaarakka
+  # AD is Allowable Depletion (aka RAW - Readily Available Water)
+  # prev_Daily_AD is previous day's daily AD
+  # delta_Stor is calculated in Change_In_Daily_Storage
+  # Result is in inches of water, the smaller of max_ad_inches and the sum of previous + delta
+  def daily_ad(prev_daily_ad, delta_stor, mad_frac, taw)
+    max_ad_inches = ad_max_inches(mad_frac,taw)
+    [max_ad_inches,prev_daily_ad + delta_stor].min
+  end # Daily_AD
+  
+
+  ###############################################
+  # Created:: 05Dec12
+  # Author:: R Wayne
+  # AD is Allowable Depletion (aka RAW - Readily Available Water)
+  # prev_Daily_AD is previous day's daily AD
+  # delta_Stor is calculated in Change_In_Daily_Storage
+  # Results are in inches of water: [AD,DD]
+  #  AD is the smaller of max_ad_inches and the sum of previous + delta
+  #  Deep Drainage is what's left over above max_ad_inches
+  def daily_ad_and_dd(prev_daily_ad, delta_stor, mad_frac, taw)
+    max_ad_inches = ad_max_inches(mad_frac,taw)
+    water_inches = prev_daily_ad + delta_stor
+    # For some reason we're getting a rounding error here, where the water is coming up
+    # infinitesmially greater than max_ad_inches. So only look for significant DD.
+    drainage = water_inches - max_ad_inches
+    if drainage > 0.00001
+      # Return maximum possible AD -- the rest drains out
+      [max_ad_inches,drainage]
+    else
+      # Return actual AD and no drainage
+      [water_inches,0.0]
+    end
+  end
+  
+  ###############################################
+  # Created:: 15Jun11
+  # Author:: P Kaarakka & Rick Wayne
+  # mad_frac and taw are used to calculate Max AD in inches
+  # mrzd, pct_mad_min and obs_pct_moisture are used to calculate the new AD
+  # Result is Allowable Depletion in inches of water (aka RAW - Readily Available Water)
+  def daily_ad_from_moisture(mad_frac,taw,mrzd,pct_mad_min,obs_pct_moisture)
+    max_ad_inches = ad_max_inches(mad_frac,taw)
+    [max_ad_inches,mrzd * ((obs_pct_moisture - pct_mad_min) / 100)].min
+  end
+  
+  ###############################################
+  # Created:: 18May11
+  # Author:: P Kaarakka
+  # pwp is permanent wilting point
+  # mrzd is managed root zone depth
+  # pct_Moisture_At_AD_Min is calculated in Pct_Moisture_At_AD_Min
+  # ad is current day's AD
+  # pct_Moisture_Obs is observed soil moisture for the day
+  # if pct_moisture_obs is supplied, just return that
+  # Result is in percent  
+  def pct_moisture_from_ad(pwp, fc, ad_max, ad, mrzd, pct_moisture_obs=nil)
+    pct_moisture_at_ad_min = pct_moisture_at_ad_min(fc, ad_max, mrzd)
+    pct_moisture_obs || ([(pct_moisture_at_ad_min+((ad/mrzd)*100)),pwp].max)
+  end # Daily_TWC
+  
+  ###############################################
+  # Created:: 18May11
+  # Author:: P Kaarakka
+  # ad_Max is calculated in AD_Max_inches
+  # prev_Daily_AD is previous day's daily AD
+  # delta_Stor is calculated in Change_In_Daily_Storage
+  # Result is in inches/day
+  def daily_deep_drainage_volume(ad_max, prev_daily_ad, delta_stor)
+    temp_ddv = prev_daily_ad + delta_stor
+    if temp_ddv > ad_max
+      ddv = temp_ddv - ad_max
+    else
+      ddv = 0
+    end
+  end # Daily_Deep_Drainage_Volume
+end
+

data/lib/asigbiophys/et_calculator.rb

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+# Calculates adjusted evapotranspiration (hereinafter ET) from a "reference ET" number and other stuff like
+# percent canopy cover or leaf-area index.
+# Created:: 31May2011
+# Authors:: P Kaarakka, Rick Wayne
+
+module ETCalculator
+  
+ # Originally these were class methods, but it turns out to make more sense to use "include" in a class
+ # and make then instance methods of that class; ADCalculator is the same way.
+ 
+  # Return the adjusted ET. Uses regression coefficients derived by J. Panuska from the UW Extension pub A3600.
+  def adj_et_pct_cover(ref_et,pctCover)
+    ref_et = 0.0 if ref_et == nil
+    pctCover = 0.0 if pctCover == nil
+    return 0.0 if pctCover < 0.000001
+    # regression coefficients from J. Panuska in Linear_Regressions_for_A3600_Table.doc and based on Table C of UW Extension pub A3600, "Irrigation Management in Wisconsin - the Wisconsin Irrigation Scheduling Program (WISP)" 
+    coeff = [[0,0],[-0.002263,0.2377],[-0.002789,0.3956],[-0.002368,0.5395],[-0.000316,0.6684],[-0.000053,0.7781],[0.001053,0.8772],[0.001947,0.9395],[0.000000,1.000]]
+  
+    #NOTE: coeffIndex and interpolations assume pctCover curves are all exactly 10% apart. 
+    coeffIndex = (pctCover/10).floor
+    case coeffIndex
+      when 0  # Get zero %cover adj_et
+        case ref_et
+          when 0.0 
+            return 0.0  
+          when 0..0.159
+            adj_etLow = 0.0
+          when 0.160..0.319
+            adj_etLow = 0.010
+          else 
+            adj_etLow = 0.020
+          end
+          # Get 10 %cover adj_et
+          adj_etHigh = coeff[1][0] + ref_et*coeff[1][1]
+          # Interpolate adj_et between zero and 10 %cover
+          adj_et = adj_etLow + ((pctCover/10)*(adj_etHigh-adj_etLow))
+
+      when 1..7  # Get low end adj_et
+        adj_etLow  = coeff[coeffIndex][0] + ref_et*coeff[coeffIndex][1]  
+        # Get high end adj_et
+        adj_etHigh = coeff[coeffIndex+1][0] + ref_et*coeff[coeffIndex+1][1]
+        # Interpolate adj_et between low and high %cover
+        adj_et = adj_etLow + (((pctCover - coeffIndex*10)/10) * (adj_etHigh-adj_etLow))
+
+      else     # At 80% cover and above there is no adjustment to the ref_et
+        adj_et = ref_et
+    end
+    return adj_et
+  end #adj_et_pct_cover
+
+  # LAI growth curve function for corn from WI_Irrigation_Scheduler_(WIS)_VV6.3.11.xls
+  def lai_corn(days_since_emergence)
+  (0.000000000009*(days_since_emergence)**7.95)*(Math.exp(-0.1*(days_since_emergence)))
+  end
+  
+  # Return adjusted ET from the reference ET and the days sinçe emergence
+  # Crop coeff math is from WI_Irrigation_Scheduler_(WIS)_VV6.3.11.xls
+  def adj_et_lai_corn(ref_et,days_since_emergence)
+  crop_coeff = 1.1*(1-Math.exp(-1.5*(lai_corn(days_since_emergence))))
+  adj_et = ref_et * crop_coeff
+  end
+
+  # Return adjusted ET from the reference ET if the leaf area index is already in hand
+  # Crop coeff math is from WI_Irrigation_Scheduler_(WIS)_VV6.3.11.xls
+  def adj_et_from_lai_corn(ref_et,lai)
+  crop_coeff = 1.1*(1-Math.exp(-1.5*(lai)))
+  adj_et = ref_et * crop_coeff
+  end
+
+  # Duck Typing at work here; "day" can be anything that responds to the methods:
+  # "et_method", "ref_et", "leaf_area_index", and "pct_cover".
+  # So an ActiveRecord class instance with those table columns will work, or a mock object for testing,
+  # or wrapper around some other class that calls them referenceET and leafAreaIndex.
+  def calc_adj_ET(day)
+    if day.respond_to?('et_method')
+      day.et_method.adj_et(day)
+    else
+      raise "Can't get ET method"
+    end
+  end
+  
+  # In addition to the four methods expected above for "day", this one expects "day" to have a
+  # adj_et=(et_value) method
+  def update_adj_et_single_day(day)
+    day.adj_et =  calc_adj_ET(day)
+  end
+  
+  #
+  # Percent Cover methods
+  #
+  def surrounding(wx_arr,middle,parameter)
+    max_index = wx_arr.size - 1
+    return nil if max_index < 2 || middle > max_index || middle < 0
+    res = [0,max_index]
+    if middle > 0
+      (middle - 1).downto(0) do |ii|
+        if wx_arr[ii].respond_to?('[]') && (wx_arr[ii][parameter])
+          res[0] = ii
+          break
+        end
+      end
+    end
+    if middle < max_index
+      (middle + 1).upto(max_index) do |ii|
+        if wx_arr[ii].respond_to?('[]') && (wx_arr[ii][parameter])
+          res[1] = ii
+          break
+        end
+      end
+    end
+    res
+  end
+  
+  def linear_increment(start_val,finish_val,n_vals)
+    (finish_val - start_val) / (n_vals - 1)
+  end
+  
+  def linear_interpolation(wx_arr,start,finish,entered_method,calc_method)
+    return unless wx_arr && wx_arr.size > 2 # Can't interpolate nothin', or if arr has fewer than 3 values
+    return unless (n_vals = 1 + finish - start) > 1 # Finish and start have to be far enough apart
+    return if start >= finish && start < 0 && finish > wx_arr.size - 1
+    start_val = wx_arr[start][entered_method] || wx_arr[start][calc_method] || 0.0
+    finish_val = wx_arr[finish][entered_method] || wx_arr[finish][calc_method] || 0.0
+    incr = linear_increment(start_val,finish_val,n_vals)
+    start.upto(finish).each do |ii|
+      # Note that this sets the calculated_pct_cover fields of the days with entered_pct_cover,
+      # but should be to the same value
+      wx_arr[ii][calc_method] = start_val + (ii - start)*incr
+      if wx_arr[ii].respond_to?('save!')
+        begin
+          wx_arr[ii].save!
+        rescue Exception => e
+          dbg = <<-END
+          ETCalculator::linear_interpolation: Could not save wx_arr[#{ii}]
+            start #{start} finish #{finish} entered_method #{entered_method} calc_method #{calc_method}
+            start_val #{start_val} finish_val #{finish_val} incr #{incr}
+            #{wx_arr[ii].inspect}
+          END
+          logger.warn dbg
+        end
+      end
+    end
+  end
+  
+end # module EtCalculator

metadata

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+--- !ruby/object:Gem::Specification
+name: asigbiophys
+version: !ruby/object:Gem::Version
+  version: 0.1.1
+  prerelease: 
+platform: ruby
+authors:
+- Paul Kaarakka
+- Rick Wayne
+autorequire: 
+bindir: bin
+cert_chain: []
+date: 2011-05-31 00:00:00.000000000 Z
+dependencies: []
+description: ASIGBiophys provides biophysical calculators for use in agriculture and
+  related disciplines.
+email: fewayne@wisc.edu
+executables: []
+extensions: []
+extra_rdoc_files: []
+files:
+- README
+- CHANGELOG
+- LICENSE
+- lib/asigbiophys.rb
+- lib/asigbiophys/et_calculator.rb
+- lib/asigbiophys/ad_calculator.rb
+homepage: http://www.soils.wisc.edu/asig/ASIG.software/
+licenses: []
+post_install_message: 
+rdoc_options: []
+require_paths:
+- lib
+required_ruby_version: !ruby/object:Gem::Requirement
+  none: false
+  requirements:
+  - - ! '>='
+    - !ruby/object:Gem::Version
+      version: '0'
+required_rubygems_version: !ruby/object:Gem::Requirement
+  none: false
+  requirements:
+  - - ! '>='
+    - !ruby/object:Gem::Version
+      version: '0'
+requirements: []
+rubyforge_project: 
+rubygems_version: 1.8.24
+signing_key: 
+specification_version: 3
+summary: ASIGBiophys provides biophysical calculators for use in agriculture and related
+  disciplines.
+test_files: []