From 22b36c824fe5e1561868a649216fe079c6fbfb85 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Tue, 10 Jul 2018 18:06:29 +0200 Subject: Update static docs --- docs/authors.html | 2 +- docs/index.html | 4 +- docs/reference/FOCUS_GW_scenarios_2012.html | 2 +- docs/reference/FOCUS_PELMO_crop_sze_names.html | 2 +- docs/reference/FOCUS_PELMO_crops.html | 2 +- docs/reference/FOCUS_PELMO_location_codes.html | 2 +- docs/reference/FOCUS_Step_12_scenarios.html | 2 +- docs/reference/FOMC_actual_twa.html | 2 +- docs/reference/GUS.html | 2 +- docs/reference/PEC_soil.html | 77 ++++++++-- docs/reference/PEC_sw_drainage_UK.html | 2 +- docs/reference/PEC_sw_drift.html | 2 +- docs/reference/PEC_sw_exposit_runoff.html | 2 +- docs/reference/PEC_sw_focus.html | 2 +- docs/reference/PEC_sw_sed.html | 2 +- docs/reference/PELMO_path.html | 2 +- docs/reference/PELMO_runs.html | 4 +- docs/reference/SFO_actual_twa.html | 2 +- docs/reference/SSLRC_mobility_classification.html | 2 +- docs/reference/TOXSWA_cwa.html | 2 +- docs/reference/chent_focus_sw.html | 2 +- docs/reference/create_run_list.html | 2 +- docs/reference/drift_data_JKI.html | 2 +- docs/reference/endpoint.html | 2 +- docs/reference/focus_80th.html | 2 +- docs/reference/geomean.html | 2 +- docs/reference/get_flux.html | 2 +- docs/reference/get_interval.html | 2 +- docs/reference/index.html | 14 +- docs/reference/max_twa.html | 2 +- docs/reference/one_box.html | 2 +- docs/reference/perc_runoff_exposit.html | 3 +- docs/reference/perc_runoff_reduction_exposit.html | 2 +- docs/reference/pesticide.txt | 4 + docs/reference/pfm_degradation.html | 2 +- docs/reference/plot.TOXSWA_cwa.html | 2 +- docs/reference/plot.one_box.html | 2 +- docs/reference/read.TOXSWA_cwa.html | 2 +- docs/reference/sawtooth.html | 2 +- docs/reference/soil_scenario_data_EFSA_2015.html | 10 +- docs/reference/soil_scenario_data_EFSA_2017.html | 177 ++++++++++++++++++++++ docs/reference/sum_periods.html | 2 +- docs/reference/twa.html | 2 +- 43 files changed, 306 insertions(+), 57 deletions(-) create mode 100644 docs/reference/soil_scenario_data_EFSA_2017.html (limited to 'docs') diff --git a/docs/authors.html b/docs/authors.html index 27e5e7c..e128b4d 100644 --- a/docs/authors.html +++ b/docs/authors.html @@ -58,7 +58,7 @@ pfm - 0.4.6 + 0.5.1 diff --git a/docs/index.html b/docs/index.html index b7f32cc..70a1fed 100644 --- a/docs/index.html +++ b/docs/index.html @@ -31,7 +31,7 @@ pfm - 0.4.6 + 0.5.1 @@ -84,7 +84,7 @@ this program. If not, see <http:

Installation

-

The easiest way to install the package is probably to use drat:

+

The easiest way to install the package is probably to use drat:

install.packages("drat")
 drat::addRepo("jranke")
 install.packages("pfm")
diff --git a/docs/reference/FOCUS_GW_scenarios_2012.html b/docs/reference/FOCUS_GW_scenarios_2012.html index 1a9d513..af6d243 100644 --- a/docs/reference/FOCUS_GW_scenarios_2012.html +++ b/docs/reference/FOCUS_GW_scenarios_2012.html @@ -62,7 +62,7 @@ soil definitions are from page 46ff. from FOCUS (2012)." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/FOCUS_PELMO_crop_sze_names.html b/docs/reference/FOCUS_PELMO_crop_sze_names.html index 89348f6..4eed679 100644 --- a/docs/reference/FOCUS_PELMO_crop_sze_names.html +++ b/docs/reference/FOCUS_PELMO_crop_sze_names.html @@ -64,7 +64,7 @@ files used for Beans (field) and Beans (vegetable) are the same." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/FOCUS_PELMO_crops.html b/docs/reference/FOCUS_PELMO_crops.html index 16653d9..e4928cd 100644 --- a/docs/reference/FOCUS_PELMO_crops.html +++ b/docs/reference/FOCUS_PELMO_crops.html @@ -65,7 +65,7 @@ in the three letter code, i.e. 'Peas (animals)' has the code ape." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/FOCUS_PELMO_location_codes.html b/docs/reference/FOCUS_PELMO_location_codes.html index 817d888..8177747 100644 --- a/docs/reference/FOCUS_PELMO_location_codes.html +++ b/docs/reference/FOCUS_PELMO_location_codes.html @@ -62,7 +62,7 @@ indexed by three letter acronyms." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/FOCUS_Step_12_scenarios.html b/docs/reference/FOCUS_Step_12_scenarios.html index 9ceb79d..b9f2e0d 100644 --- a/docs/reference/FOCUS_Step_12_scenarios.html +++ b/docs/reference/FOCUS_Step_12_scenarios.html @@ -62,7 +62,7 @@ The text file is not included in the package as its licence is not clear." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/FOMC_actual_twa.html b/docs/reference/FOMC_actual_twa.html index 7a62183..685edc3 100644 --- a/docs/reference/FOMC_actual_twa.html +++ b/docs/reference/FOMC_actual_twa.html @@ -61,7 +61,7 @@ pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/GUS.html b/docs/reference/GUS.html index 87714e0..65763bc 100644 --- a/docs/reference/GUS.html +++ b/docs/reference/GUS.html @@ -63,7 +63,7 @@ $$GUS = \log_{10} DT50_{soil} (4 - \log_{10} K_{oc})$$" /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/PEC_soil.html b/docs/reference/PEC_soil.html index 5073067..8903470 100644 --- a/docs/reference/PEC_soil.html +++ b/docs/reference/PEC_soil.html @@ -33,9 +33,10 @@ +the concepts layed out in the PPR panel opinion (EFSA PPR panel 2012 +and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017)." /> @@ -64,7 +65,7 @@ the concepts layed out for example in the PPR panel opinion (EFSA 2012)." /> pfm - 0.4.6 + 0.5.1 @@ -108,17 +109,20 @@ the concepts layed out for example in the PPR panel opinion (EFSA 2012)." />

This is a basic calculation of a contaminant concentration in bulk soil -based on complete, instantaneous mixing. If an interval is given, an +based on complete, instantaneous mixing. If an interval is given, an attempt is made at calculating a long term maximum concentration using -the concepts layed out for example in the PPR panel opinion (EFSA 2012).

+the concepts layed out in the PPR panel opinion (EFSA PPR panel 2012 +and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017).

PEC_soil(rate, rate_units = "g/ha", interception = 0, mixing_depth = 5,
   PEC_units = "mg/kg", PEC_pw_units = "mg/L", interval = NA,
-  n_periods = Inf, tillage_depth = 20, chent = NA, DT50 = NA,
+  n_periods = Inf, tillage_depth = 20, leaching_depth = tillage_depth,
+  crop = "annual", cultivation = FALSE, chent = NA, DT50 = NA,
   Koc = NA, Kom = Koc/1.724, t_avg = 0, scenarios = c("default",
-  "EFSA_2015"), porewater = FALSE)
+ "EFSA_2017", "EFSA_2015"), leaching = scenarios == "EFSA_2017", + porewater = FALSE)

Arguments

@@ -160,9 +164,28 @@ degradation rate units are in days

+ + + + + + + + + + + + - @@ -193,6 +216,11 @@ the DT50 is taken to be a modelling half-life at 20°C and pF2 (for when 'chents' is specified, the DegT50 with destination 'PECgw' will be used), and corrected using an Arrhenius activation energy of 65.4 kJ/mol. Also model and scenario adjustment factors from the EFSA guidance are used.

+ + + + @@ -212,14 +240,24 @@ p. 13).

This assumes that the complete load to soil during the time specified by 'interval' (typically 365 days) is dosed at once. As in the PPR panel -opinion cited below (PPR panel 2012), only temperature correction using the +opinion cited below (EFSA PPR panel 2012), only temperature correction using the Arrhenius equation is performed.

Total soil and porewater PEC values for the scenarios as defined in the EFSA -guidance (2015, p. 13) can easily be calculated.

+guidance (2017, p. 14/15) can easily be calculated.

Note

-

If temperature information is available in the selected scenarios, as +

While time weighted average (TWA) concentrations given in the examples +from the EFSA guidance from 2015 (p. 80) are be reproduced, this is not +true for the TWA concentrations given for the same example in the EFSA guidance +from 2017 (p. 92).

+

According to the EFSA guidance (EFSA, 2017, p. 43), leaching should be + taken into account for the EFSA 2017 scenarios, using the evaluation depth + (here mixing depth) as the depth of the layer from which leaching takes + place. However, as the amount leaching below the evaluation depth + (often 5 cm) will partly be mixed back during tillage, the default in this function + is to use the tillage depth for the calculation of the leaching rate.

+

If temperature information is available in the selected scenarios, as e.g. in the EFSA scenarios, the DT50 for groundwater modelling (destination 'PECgw') is taken from the chent object, otherwise the DT50 with destination 'PECsoil'.

@@ -231,6 +269,11 @@ guidance (2015, p. 13) can easily be calculated.

selection and scenario parameterisation for predicting environmental concentrations of plant protection products in soil. EFSA Journal10(2) 2562, doi:10.2903/j.efsa.2012.2562

+

EFSA (European Food Safety Authority) 2017) EFSA guidance document for + predicting environmental concentrations of active substances of plant + protection products and transformation products of these active substances + in soil. EFSA Journal 15(10) 4982 + doi:10.2903/j.efsa.2017.4982

EFSA (European Food Safety Authority) (2015) EFSA guidance document for predicting environmental concentrations of active substances of plant protection products and transformation products of these active substances @@ -242,6 +285,18 @@ guidance (2015, p. 13) can easily be calculated.

PEC_soil(100, interception = 0.25)
#>      scenario
 #> t_avg default
 #>     0     0.1

+# This is example 1 starting at p. 92 of the EFSA guidance (2017)
+# Note that TWA concentrations differ from the ones given in the guidance
+# for an unknown reason (the values from EFSA (2015) can be reproduced).
+PEC_soil(1000, interval = 365, DT50 = 250, t_avg = c(0, 21),
+               Kom = 1000, scenarios = "EFSA_2017")
#>      scenario
+#> t_avg      CTN     CTC      CTS
+#>    0  19.76834 13.8619 10.53795
+#>    21 19.59345 13.7169 10.39882
PEC_soil(1000, interval = 365, DT50 = 250, t_av = c(0, 21),
+               Kom = 1000, scenarios = "EFSA_2017", porewater = TRUE)
#>      scenario
+#> t_avg       CLN       CLC       CLS
+#>    0  0.5541984 0.6779249 0.9816693
+#>    21 0.5484576 0.6693125 0.9609119

 # This is example 1 starting at p. 79 of the EFSA guidance (2015)
 PEC_soil(1000, interval = 365, DT50 = 250, t_avg = c(0, 21),
                scenarios = "EFSA_2015")
#>      scenario
diff --git a/docs/reference/PEC_sw_drainage_UK.html b/docs/reference/PEC_sw_drainage_UK.html
index 91eeccb..e183ae2 100644
--- a/docs/reference/PEC_sw_drainage_UK.html
+++ b/docs/reference/PEC_sw_drainage_UK.html
@@ -62,7 +62,7 @@ published on the CRC website" />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     

 
diff --git a/docs/reference/PEC_sw_drift.html b/docs/reference/PEC_sw_drift.html
index 02b641f..b5608db 100644
--- a/docs/reference/PEC_sw_drift.html
+++ b/docs/reference/PEC_sw_drift.html
@@ -63,7 +63,7 @@ with input via spray drift." />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/PEC_sw_exposit_runoff.html b/docs/reference/PEC_sw_exposit_runoff.html
index 2942ebb..9fab616 100644
--- a/docs/reference/PEC_sw_exposit_runoff.html
+++ b/docs/reference/PEC_sw_exposit_runoff.html
@@ -62,7 +62,7 @@ in the worksheet "Konzept Runoff". Calculation of sediment PEC values
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/PEC_sw_focus.html b/docs/reference/PEC_sw_focus.html
index 535e82e..88f5b43 100644
--- a/docs/reference/PEC_sw_focus.html
+++ b/docs/reference/PEC_sw_focus.html
@@ -67,7 +67,7 @@ to be used with the FOCUS calculator." />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/PEC_sw_sed.html b/docs/reference/PEC_sw_sed.html
index 532031b..01ccf29 100644
--- a/docs/reference/PEC_sw_sed.html
+++ b/docs/reference/PEC_sw_sed.html
@@ -64,7 +64,7 @@ PEC calculator" />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/PELMO_path.html b/docs/reference/PELMO_path.html
index a678cb6..b390917 100644
--- a/docs/reference/PELMO_path.html
+++ b/docs/reference/PELMO_path.html
@@ -61,7 +61,7 @@
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/PELMO_runs.html b/docs/reference/PELMO_runs.html
index 5d53104..12a4244 100644
--- a/docs/reference/PELMO_runs.html
+++ b/docs/reference/PELMO_runs.html
@@ -67,7 +67,7 @@ and run using wine." />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
@@ -229,7 +229,7 @@ the period.plm file generated by the FOCUS PELMO GUI.

 #> 
 #> 
# We get exactly the same PECgw values (on Linux, calling PELMO using Wine).
 print(time_1)
#>        User      System verstrichen 
-#>       0.384       0.095      30.954 
if(!inherits(try(cpuinfo <- readLines("/proc/cpuinfo")), "try-error")) {
+#>       0.383       0.129      30.547 
if(!inherits(try(cpuinfo <- readLines("/proc/cpuinfo")), "try-error")) {
   cat(gsub("model name\t: ", "CPU model: ", cpuinfo[grep("model name", cpuinfo)[1]]))
 }
#> CPU model: AMD Ryzen 7 1700 Eight-Core Processor

 # Demonstrate some results with metabolites.
diff --git a/docs/reference/SFO_actual_twa.html b/docs/reference/SFO_actual_twa.html
index e5b1e8a..b7b65f5 100644
--- a/docs/reference/SFO_actual_twa.html
+++ b/docs/reference/SFO_actual_twa.html
@@ -61,7 +61,7 @@
       
       
         pfm
-        0.4.6
+        0.5.1
       
     

 
diff --git a/docs/reference/SSLRC_mobility_classification.html b/docs/reference/SSLRC_mobility_classification.html
index 49b80e7..06be24e 100644
--- a/docs/reference/SSLRC_mobility_classification.html
+++ b/docs/reference/SSLRC_mobility_classification.html
@@ -62,7 +62,7 @@ checked against the spreadsheet published on the CRC website" />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/TOXSWA_cwa.html b/docs/reference/TOXSWA_cwa.html
index 932e6ef..a1b6bfe 100644
--- a/docs/reference/TOXSWA_cwa.html
+++ b/docs/reference/TOXSWA_cwa.html
@@ -62,7 +62,7 @@ Usually, an instance of this class will be generated by read.TOXSWA_cwa." />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/chent_focus_sw.html b/docs/reference/chent_focus_sw.html
index 1683067..39b3c9e 100644
--- a/docs/reference/chent_focus_sw.html
+++ b/docs/reference/chent_focus_sw.html
@@ -61,7 +61,7 @@
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/create_run_list.html b/docs/reference/create_run_list.html
index 255aa1d..c52719d 100644
--- a/docs/reference/create_run_list.html
+++ b/docs/reference/create_run_list.html
@@ -61,7 +61,7 @@
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/drift_data_JKI.html b/docs/reference/drift_data_JKI.html
index ada93e7..c3f1f4d 100644
--- a/docs/reference/drift_data_JKI.html
+++ b/docs/reference/drift_data_JKI.html
@@ -64,7 +64,7 @@ published by the German Julius-Kühn Institute (JKI)." />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/endpoint.html b/docs/reference/endpoint.html
index a078bd8..819d8bc 100644
--- a/docs/reference/endpoint.html
+++ b/docs/reference/endpoint.html
@@ -64,7 +64,7 @@ this function." />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/focus_80th.html b/docs/reference/focus_80th.html
index 375e15a..0604fa7 100644
--- a/docs/reference/focus_80th.html
+++ b/docs/reference/focus_80th.html
@@ -64,7 +64,7 @@ values obtained by PELMO." />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/geomean.html b/docs/reference/geomean.html
index 5673322..dfcd15e 100644
--- a/docs/reference/geomean.html
+++ b/docs/reference/geomean.html
@@ -64,7 +64,7 @@ returns 0 if at least one element of the vector is 0." />
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/get_flux.html b/docs/reference/get_flux.html
index 025b4ad..518b09c 100644
--- a/docs/reference/get_flux.html
+++ b/docs/reference/get_flux.html
@@ -61,7 +61,7 @@
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/get_interval.html b/docs/reference/get_interval.html
index 0cd69f3..4b73ca2 100644
--- a/docs/reference/get_interval.html
+++ b/docs/reference/get_interval.html
@@ -61,7 +61,7 @@
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
diff --git a/docs/reference/index.html b/docs/reference/index.html
index 162298b..12abbd4 100644
--- a/docs/reference/index.html
+++ b/docs/reference/index.html
@@ -58,7 +58,7 @@
       
       
         pfm
-        0.4.6
+        0.5.1
       
     
 
@@ -160,6 +160,12 @@
           
SFO_actual_twa()
+ + + + @@ -180,6 +186,12 @@

soil_scenario_data_EFSA_2015

+ + + + diff --git a/docs/reference/max_twa.html b/docs/reference/max_twa.html index 6e5ee67..c603fb4 100644 --- a/docs/reference/max_twa.html +++ b/docs/reference/max_twa.html @@ -65,7 +65,7 @@ max_twa." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/one_box.html b/docs/reference/one_box.html index 9cd4d61..f3a6324 100644 --- a/docs/reference/one_box.html +++ b/docs/reference/one_box.html @@ -61,7 +61,7 @@ pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/perc_runoff_exposit.html b/docs/reference/perc_runoff_exposit.html index e243efb..2c7dd2a 100644 --- a/docs/reference/perc_runoff_exposit.html +++ b/docs/reference/perc_runoff_exposit.html @@ -61,7 +61,7 @@ pfm - 0.4.6 + 0.5.1 @@ -113,6 +113,7 @@

A data frame with percentage values for the dissolved fraction and the fraction bound to eroding particles, with Koc classes used as row names

+
Koc_lower_bound

The lower bound of the Koc class

dissolved

The percentage of the applied substance transferred to an adjacent water body in the dissolved phase

bound

The percentage of the applied substance transferred to an diff --git a/docs/reference/perc_runoff_reduction_exposit.html b/docs/reference/perc_runoff_reduction_exposit.html index 4e10a64..9a8f10a 100644 --- a/docs/reference/perc_runoff_reduction_exposit.html +++ b/docs/reference/perc_runoff_reduction_exposit.html @@ -61,7 +61,7 @@ pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/pesticide.txt b/docs/reference/pesticide.txt index d4fd84e..1f9181a 100644 --- a/docs/reference/pesticide.txt +++ b/docs/reference/pesticide.txt @@ -37,3 +37,7 @@ Dummy 1 cereals, spring n NA Dummy 1 cereals, winter s of Dummy 1 citrus n mm Du M1 cereals, winter n NA M1 cereals, winter s of M1 cereals, winter n mm M1 cereals, winter s js M1 cereals, winter n NA M1 cereals, winter s of M1 cereals, winter n mm M1 cereals, winter s js 250.00 100.00 100.00 50.00 100.00 100.00 0.00E+00 50.00 1000.00 1.00 0.00E+00 1.00 -99.00 -99.00 -99.00 -99.00 0.00E+00 1.00 Dummy 1 cereals, spring n NA Dummy 1 cereals, winter s of Dummy 1 citrus n mm Dummy 1 cotton s js Dummy 1 field beans n NA Dummy 1 grass / alfalfa s of Dummy 1 hops n mm Dummy 1 legumes s js Dummy 1 maize n NA Dummy 1 oil seed rape, spring s of Dummy 1 oil seed rape, winter n mm Dummy 1 olives s js Dummy 1 pome / stone fruit, early applns n NA Dummy 1 pome / stone fruit, late applns s of Dummy 1 potatoes n mm Dummy 1 soybeans s js Dummy 1 sugar beets n NA Dummy 1 sunflowers s of Dummy 1 tobacco n mm Dummy 1 vegetables, bulb s js Dummy 1 vegetables, fruiting n NA Dummy 1 vegetables, leafy s of Dummy 1 vegetables, root n mm Dummy 1 vines, early applns s js Dummy 1 vines, late applns n NA Dummy 1 appln, aerial s of Dummy 1 appln, hand (crop < 50 cm) n mm Dummy 1 appln, hand (crop > 50 cm) s js Dummy 1 no drift (incorp or seed trtmt) n NA Dummy 1 cereals, spring n NA Dummy 1 cereals, winter s of Dummy 1 citrus n mm Dummy 1 cotton s js Dummy 1 field beans n NA Dummy 1 grass / alfalfa s of Dummy 1 hops n mm Dummy 1 legumes s js Dummy 1 maize n NA Dummy 1 oil seed rape, spring s of Dummy 1 oil seed rape, winter n mm Dummy 1 olives s js Dummy 1 pome / stone fruit, early applns n NA Dummy 1 pome / stone fruit, late applns s of Dummy 1 potatoes n mm Dummy 1 soybeans s js Dummy 1 sugar beets n NA Dummy 1 sunflowers s of Dummy 1 tobacco n mm Dummy 1 vegetables, bulb s js Dummy 1 vegetables, fruiting n NA Dummy 1 vegetables, leafy s of Dummy 1 vegetables, root n mm Dummy 1 vines, early applns s js Dummy 1 vines, late applns n NA Dummy 1 appln, aerial s of Dummy 1 appln, hand (crop < 50 cm) n mm Dummy 1 appln, hand (crop > 50 cm) s js Dummy 1 no drift (incorp or seed trtmt) n NA -99.00 -99.00 6000.00 344.80 0.00E+00 6.00 0.00E+00 0.00E+00 3000.00 1.00 0.00E+00 0.00E+00 1.00 2.00 3.00 4.00 5.00 6.00 7.00 8.00 9.00 10.00 11.00 12.00 13.00 14.00 15.00 16.00 17.00 18.00 19.00 20.00 21.00 22.00 23.00 24.00 25.00 26.00 27.00 28.00 0.00E+00 -99.00 -99.00 -99.00 0.00E+00 1.00 M1 cereals, winter n NA M1 cereals, winter s of M1 cereals, winter n mm M1 cereals, winter s js M1 cereals, winter n NA M1 cereals, winter s of M1 cereals, winter n mm M1 cereals, winter s js 250.00 100.00 100.00 50.00 100.00 100.00 0.00E+00 50.00 1000.00 1.00 0.00E+00 1.00 -99.00 -99.00 -99.00 -99.00 0.00E+00 1.00 +Dummy 1 cereals, spring n NA Dummy 1 cereals, winter s of Dummy 1 citrus n mm Dummy 1 cotton s js Dummy 1 field beans n NA Dummy 1 grass / alfalfa s of Dummy 1 hops n mm Dummy 1 legumes s js Dummy 1 maize n NA Dummy 1 oil seed rape, spring s of Dummy 1 oil seed rape, winter n mm Dummy 1 olives s js Dummy 1 pome / stone fruit, early applns n NA Dummy 1 pome / stone fruit, late applns s of Dummy 1 potatoes n mm Dummy 1 soybeans s js Dummy 1 sugar beets n NA Dummy 1 sunflowers s of Dummy 1 tobacco n mm Dummy 1 vegetables, bulb s js Dummy 1 vegetables, fruiting n NA Dummy 1 vegetables, leafy s of Dummy 1 vegetables, root n mm Dummy 1 vines, early applns s js Dummy 1 vines, late applns n NA Dummy 1 appln, aerial s of Dummy 1 appln, hand (crop < 50 cm) n mm Dummy 1 appln, hand (crop > 50 cm) s js Dummy 1 no drift (incorp or seed trtmt) n NA Dummy 1 cereals, spring n NA Dummy 1 cereals, winter s of Dummy 1 citrus n mm Dummy 1 cotton s js Dummy 1 field beans n NA Dummy 1 grass / alfalfa s of Dummy 1 hops n mm Dummy 1 legumes s js Dummy 1 maize n NA Dummy 1 oil seed rape, spring s of Dummy 1 oil seed rape, winter n mm Dummy 1 olives s js Dummy 1 pome / stone fruit, early applns n NA Dummy 1 pome / stone fruit, late applns s of Dummy 1 potatoes n mm Dummy 1 soybeans s js Dummy 1 sugar beets n NA Dummy 1 sunflowers s of Dummy 1 tobacco n mm Dummy 1 vegetables, bulb s js Dummy 1 vegetables, fruiting n NA Dummy 1 vegetables, leafy s of Dummy 1 vegetables, root n mm Dummy 1 vines, early applns s js Dummy 1 vines, late applns n NA Dummy 1 appln, aerial s of Dummy 1 appln, hand (crop < 50 cm) n mm Dummy 1 appln, hand (crop > 50 cm) s js Dummy 1 no drift (incorp or seed trtmt) n NA -99.00 -99.00 6000.00 344.80 0.00E+00 6.00 0.00E+00 0.00E+00 3000.00 1.00 0.00E+00 0.00E+00 1.00 2.00 3.00 4.00 5.00 6.00 7.00 8.00 9.00 10.00 11.00 12.00 13.00 14.00 15.00 16.00 17.00 18.00 19.00 20.00 21.00 22.00 23.00 24.00 25.00 26.00 27.00 28.00 0.00E+00 -99.00 -99.00 -99.00 0.00E+00 1.00 +M1 cereals, winter n NA M1 cereals, winter s of M1 cereals, winter n mm M1 cereals, winter s js M1 cereals, winter n NA M1 cereals, winter s of M1 cereals, winter n mm M1 cereals, winter s js 250.00 100.00 100.00 50.00 100.00 100.00 0.00E+00 50.00 1000.00 1.00 0.00E+00 1.00 -99.00 -99.00 -99.00 -99.00 0.00E+00 1.00 +Dummy 1 cereals, spring n NA Dummy 1 cereals, winter s of Dummy 1 citrus n mm Dummy 1 cotton s js Dummy 1 field beans n NA Dummy 1 grass / alfalfa s of Dummy 1 hops n mm Dummy 1 legumes s js Dummy 1 maize n NA Dummy 1 oil seed rape, spring s of Dummy 1 oil seed rape, winter n mm Dummy 1 olives s js Dummy 1 pome / stone fruit, early applns n NA Dummy 1 pome / stone fruit, late applns s of Dummy 1 potatoes n mm Dummy 1 soybeans s js Dummy 1 sugar beets n NA Dummy 1 sunflowers s of Dummy 1 tobacco n mm Dummy 1 vegetables, bulb s js Dummy 1 vegetables, fruiting n NA Dummy 1 vegetables, leafy s of Dummy 1 vegetables, root n mm Dummy 1 vines, early applns s js Dummy 1 vines, late applns n NA Dummy 1 appln, aerial s of Dummy 1 appln, hand (crop < 50 cm) n mm Dummy 1 appln, hand (crop > 50 cm) s js Dummy 1 no drift (incorp or seed trtmt) n NA Dummy 1 cereals, spring n NA Dummy 1 cereals, winter s of Dummy 1 citrus n mm Dummy 1 cotton s js Dummy 1 field beans n NA Dummy 1 grass / alfalfa s of Dummy 1 hops n mm Dummy 1 legumes s js Dummy 1 maize n NA Dummy 1 oil seed rape, spring s of Dummy 1 oil seed rape, winter n mm Dummy 1 olives s js Dummy 1 pome / stone fruit, early applns n NA Dummy 1 pome / stone fruit, late applns s of Dummy 1 potatoes n mm Dummy 1 soybeans s js Dummy 1 sugar beets n NA Dummy 1 sunflowers s of Dummy 1 tobacco n mm Dummy 1 vegetables, bulb s js Dummy 1 vegetables, fruiting n NA Dummy 1 vegetables, leafy s of Dummy 1 vegetables, root n mm Dummy 1 vines, early applns s js Dummy 1 vines, late applns n NA Dummy 1 appln, aerial s of Dummy 1 appln, hand (crop < 50 cm) n mm Dummy 1 appln, hand (crop > 50 cm) s js Dummy 1 no drift (incorp or seed trtmt) n NA -99.00 -99.00 6000.00 344.80 0.00E+00 6.00 0.00E+00 0.00E+00 3000.00 1.00 0.00E+00 0.00E+00 1.00 2.00 3.00 4.00 5.00 6.00 7.00 8.00 9.00 10.00 11.00 12.00 13.00 14.00 15.00 16.00 17.00 18.00 19.00 20.00 21.00 22.00 23.00 24.00 25.00 26.00 27.00 28.00 0.00E+00 -99.00 -99.00 -99.00 0.00E+00 1.00 +M1 cereals, winter n NA M1 cereals, winter s of M1 cereals, winter n mm M1 cereals, winter s js M1 cereals, winter n NA M1 cereals, winter s of M1 cereals, winter n mm M1 cereals, winter s js 250.00 100.00 100.00 50.00 100.00 100.00 0.00E+00 50.00 1000.00 1.00 0.00E+00 1.00 -99.00 -99.00 -99.00 -99.00 0.00E+00 1.00 diff --git a/docs/reference/pfm_degradation.html b/docs/reference/pfm_degradation.html index e547ed1..16df913 100644 --- a/docs/reference/pfm_degradation.html +++ b/docs/reference/pfm_degradation.html @@ -61,7 +61,7 @@ pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/plot.TOXSWA_cwa.html b/docs/reference/plot.TOXSWA_cwa.html index 8612bac..65703e8 100644 --- a/docs/reference/plot.TOXSWA_cwa.html +++ b/docs/reference/plot.TOXSWA_cwa.html @@ -62,7 +62,7 @@ segment of a TOXSWA surface water body." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/plot.one_box.html b/docs/reference/plot.one_box.html index a8f62d4..473243a 100644 --- a/docs/reference/plot.one_box.html +++ b/docs/reference/plot.one_box.html @@ -61,7 +61,7 @@ pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/read.TOXSWA_cwa.html b/docs/reference/read.TOXSWA_cwa.html index aa18ec4..5f6aba2 100644 --- a/docs/reference/read.TOXSWA_cwa.html +++ b/docs/reference/read.TOXSWA_cwa.html @@ -66,7 +66,7 @@ renamed to ConLiqWatLay in the out file." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/sawtooth.html b/docs/reference/sawtooth.html index 175e045..87dcab2 100644 --- a/docs/reference/sawtooth.html +++ b/docs/reference/sawtooth.html @@ -63,7 +63,7 @@ times, with an interval i." /> pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/soil_scenario_data_EFSA_2015.html b/docs/reference/soil_scenario_data_EFSA_2015.html index 64c9c28..23fe106 100644 --- a/docs/reference/soil_scenario_data_EFSA_2015.html +++ b/docs/reference/soil_scenario_data_EFSA_2015.html @@ -63,7 +63,7 @@ scenario and model adjustment factors from p. 15 and p. 17 are included." /> pfm - 0.4.6 + 0.5.1 @@ -122,10 +122,10 @@ scenario and model adjustment factors from p. 15 and p. 17 are included.

Source

EFSA (European Food Safety Authority) (2015) -EFSA guidance document for predicting environmental concentrations -of active substances of plant protection products and transformation products of these -active substances in soil. EFSA Journal 13(4) 4093 -doi:10.2903/j.efsa.2015.4093

+ EFSA guidance document for predicting environmental concentrations + of active substances of plant protection products and transformation products of these + active substances in soil. EFSA Journal 13(4) 4093 + doi:10.2903/j.efsa.2015.4093

Examples

diff --git a/docs/reference/soil_scenario_data_EFSA_2017.html b/docs/reference/soil_scenario_data_EFSA_2017.html new file mode 100644 index 0000000..be49263 --- /dev/null +++ b/docs/reference/soil_scenario_data_EFSA_2017.html @@ -0,0 +1,177 @@ + + + + + + + + +Properties of the predefined scenarios from the EFSA guidance from 2017 — soil_scenario_data_EFSA_2017 • pfm + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+
+ + + +
+ +
+
+
+

Properties of the predefined scenarios from the EFSA guidance from 2017

+ Source: R/soil_scenario_data_EFSA_2017.R + +
+ +
+ +

Properties of the predefined scenarios used at Tier 1, Tier 2A and Tier 3A for the +concentration in soil as given in the EFSA guidance (2017, p. 14/15). Also, the +scenario and model adjustment factors from p. 16 and p. 18 are included.

+ +
+ + +

Format

+ +

A data frame with one row for each scenario. Row names are the scenario codes, + e.g. CTN for the Northern scenario for the total concentration in soil. Columns are + mostly self-explanatory. rho is the dry bulk density of the top soil.

+ +

Source

+ +

EFSA (European Food Safety Authority) (2017) + EFSA guidance document for predicting environmental concentrations + of active substances of plant protection products and transformation products of these + active substances in soil. EFSA Journal 15(10) 4982 + doi:10.2903/j.efsa.2017.4982

+ + +

Examples

+ 
soil_scenario_data_EFSA_2017
#>        Zone Country T_arit T_arr Texture  f_om theta_fc   rho f_sce f_mod
+#> CTN   North Estonia    5.7   7.6  Coarse 0.220    0.244 0.707   1.4     3
+#> CTC Central  Poland    7.4   9.3  Coarse 0.122    0.244 0.934   1.4     3
+#> CTS   South  France   10.2  11.7  Medium 0.070    0.349 1.117   1.4     3
+#> CLN   North Denmark    8.0   9.2  Medium 0.025    0.349 1.371   1.6     4
+#> CLC Central Austria    9.3  11.3  Medium 0.018    0.349 1.432   1.6     4
+#> CLS   South   Spain   15.4  16.7  Medium 0.010    0.349 1.521   1.6     4
+#>     FOCUS_zone prec
+#> CTN    Hamburg  639
+#> CTC    Hamburg  617
+#> CTS    Hamburg  667
+#> CLN    Hamburg  602
+#> CLC Châteaudun  589
+#> CLS    Sevilla  526
+
+ +
+ +
+
+

Developed by Johannes Ranke.

+
+ +
+

Site built with pkgdown.

+
+ +
+
+ + + + + + diff --git a/docs/reference/sum_periods.html b/docs/reference/sum_periods.html index ec0c34b..109d9e7 100644 --- a/docs/reference/sum_periods.html +++ b/docs/reference/sum_periods.html @@ -61,7 +61,7 @@ pfm - 0.4.6 + 0.5.1 diff --git a/docs/reference/twa.html b/docs/reference/twa.html index da44f92..f74399c 100644 --- a/docs/reference/twa.html +++ b/docs/reference/twa.html @@ -63,7 +63,7 @@ is after one window has passed." /> pfm - 0.4.6 + 0.5.1 -- cgit v1.2.1
tillage_depth

Periodic (see interval) deeper mixing in cm
leaching_depth

EFSA (2017) uses the mixing depth (ecotoxicological +evaluation depth) to calculate leaching for annual crops where tillage +takes place. By default, losses from the layer down to the tillage +depth are taken into account in this implementation.

crop

Ignored for scenarios other than EFSA_2017. Only annual crops +are supported when these scenarios are used. Only crops with a single cropping +cycle per year are currently supported.

cultivation

Does mechanical cultivation in the sense of EFSA (2017) +take place, i.e. twice a year to a depth of 5 cm? Ignored for scenarios +other than EFSA_2017

chent

An optional chent object holding substance specific information. Can +

An optional chent object holding substance specific information. Can also be a name for the substance as a character string
leaching

Should leaching be taken into account? The default is FALSE, +except when the EFSA_2017 scenarios are used.
porewater

Actual and maximum moving window time average concentrations for SFO kinetics

+

FOMC_actual_twa()

+

Actual and maximum moving window time average concentrations for FOMC kinetics

Properties of the predefined scenarios from the EFSA guidance from 2015

+

soil_scenario_data_EFSA_2017

+

Properties of the predefined scenarios from the EFSA guidance from 2017