The R package pfm provides some utilities for dealing with FOCUS pesticide fate modelling tools, (currently only TOXSWA cwa and out files), made available under the GNU public license. This means:
This program is free software: you can redistribute it and/or modify it under
the terms of the GNU General Public License as published by the Free Software
Foundation, either version 3 of the License, or (at your option) any later
version.
This program is distributed in the hope that it will be useful, but WITHOUT
ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
details.
You should have received a copy of the GNU General Public License along with
this program. If not, see <http://www.gnu.org/licenses/>
You can install the package from github, e.g. using the devtools
package. Using quick = TRUE
skips docs, multiple-architecture builds, demos, and vignettes, to make installation as fast and painless as possible.
library(devtools)
install_github("jranke/pfm", subdir = "pkg", quick = TRUE)
Read in and analyse a cwa file:
library(pfm, quietly = TRUE)
##
## Initialize Python Version 2.7.9 (default, Jun 29 2016, 13:11:10)
## [GCC 4.9.2]
example_cwa <- read.TOXSWA_cwa("00003s_pa.cwa")
plot(example_cwa)
Get events above thresholds of 20 and 100 µg/L, and do a moving window analysis for windows of 7 days and 21 days, print the results:
example_cwa$get_events(c(20, 100))
example_cwa$moving_windows(c(7, 21))
print(example_cwa)
## <TOXSWA_cwa> data from file 00003s_pa.cwa segment 20
## datetime t t_firstjan t_rel_to_max cwa_mug_per_L
## 20 1978-10-01 00:00:00 0.000 273.0000 -55.333 0
## 40 1978-10-01 01:00:00 0.042 273.0417 -55.291 0
## 60 1978-10-01 02:00:00 0.083 273.0833 -55.250 0
## 80 1978-10-01 03:00:00 0.125 273.1250 -55.208 0
## 100 1978-10-01 04:00:00 0.167 273.1667 -55.166 0
## 120 1978-10-01 05:00:00 0.208 273.2083 -55.125 0
## cwa_tot_mug_per_L
## 20 0
## 40 0
## 60 0
## 80 0
## 100 0
## 120 0
## Moving window analysis
## window max_TWAC max_AUC_h max_AUC_d
## 1 7 days 2.3926551 401.9660 16.74859
## 2 21 days 0.8369248 421.8101 17.57542
## Event statistics for threshold 20
## t_start cwa_max duration pre_interval AUC_h AUC_d
## 1 55.083 40.58401 0.417 55.083 365.7912 15.2413
## Event statistics for threshold 100
## No events found
This can also be done with out files, the function reads out files from current TOXSWA versions as well as cwa files from old TOXSWA versions.
Simple PEC soil calculation for an application rate of 100 g/ha and 25% interception, assuming complete mixing into 5 cm and a soil bulk density of 1.5 kg/L, output in mg/kg:
PEC_soil(100, interception = 0.25)
## scenario
## t_avg default
## 0 0.1
Some of the drift percentage data published by the JKI are included. To see the data for one application:
drift_data_JKI[1]
## [[1]]
## crop
## distance Ackerbau Obstbau frueh Obstbau spaet
## 1 2.77 NA NA
## 3 NA 29.20 15.73
## 5 0.57 19.89 8.41
## 10 0.29 11.81 3.60
## 15 0.20 5.55 1.81
## 20 0.15 2.77 1.09
## 30 0.10 1.04 0.54
## 40 0.07 0.52 0.32
## 50 0.06 0.30 0.22
Initial PEC values for an application of 100 g/ha in the vicinity of a 30 cm deep water body are obtained using
PEC_sw_drift(100, applications = 1)
## 1 m 5 m 10 m 20 m
## 0.92333333 0.19000000 0.09666667 0.05000000