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library(pfm)
context("Read and analyse TOXSWA cwa files")
# zipfile_test = tempfile()
# download.file("https://cgit.jrwb.de/pfm/plain/inst/testdata/SwashProjects.zip", zipfile_test)
zipfile_test <- system.file("testdata/SwashProjects.zip", package = "pfm")
basedir_test = "SwashProjects/project_H_sw/TOXSWA" # cwa files from TOXSWA 3.x
# .out file produced with TOXSWA 4.4.2
basedir_test_2 = "SwashProjects/Project_1/TOXSWA"
H_sw_D4_pond <- read.TOXSWA_cwa("00001p_pa.cwa",
basedir = basedir_test,
zipfile = zipfile_test)
H_sw_R1_stream <- read.TOXSWA_cwa("00003s_pa.cwa",
basedir = basedir_test,
zipfile = zipfile_test)
test_that("Old TOXSWA cwa and out files are correctly read and printed", {
# This was the setting when printing the output into text files
options(width = 100)
# Most content of the R6 object is at least partially printed
H_sw_D4_pond_printed <- capture.output(print(H_sw_D4_pond))
expect_equal(H_sw_D4_pond_printed, readLines("H_sw_D4_pond_printed.txt"))
H_sw_R1_stream_printed <- capture.output(print(H_sw_R1_stream))
expect_equal(H_sw_R1_stream_printed, readLines("H_sw_R1_stream_printed.txt"))
# The basedir is not printed, therefore tested separately
expect_equal(H_sw_D4_pond$basedir, basedir_test)
EXSW2_R1_stream <- read.TOXSWA_cwa("3.out",
basedir = basedir_test_2,
zipfile = zipfile_test)
EXSW2_R1_stream_printed <- capture.output(print(EXSW2_R1_stream))
expect_equal(EXSW2_R1_stream_printed, readLines("EXSW2_R1_stream_printed.txt"))
})
test_that("A TOXSWA 5.5.3 out file is correctly read and printed", {
# zipfile_test_3 = tempfile()
# download.file("https://cgit.jrwb.de/pfm/plain/inst/testdata/SwashProjects_TOXSWA_553.zip",
# zipfile_test_3)
zipfile_test_3 <- system.file("testdata/SwashProjects_TOXSWA_553.zip", package = "pfm")
basedir_test_3 = "SwashProjects/Project_1/TOXSWA"
EXSW2_R1_stream_TOXSWA_553 <- read.TOXSWA_cwa("3.out",
basedir = basedir_test_3,
zipfile = zipfile_test_3)
EXSW2_R1_stream_printed_TOXSWA_553 <- capture.output(print(EXSW2_R1_stream_TOXSWA_553))
# We actually get the same results, at least judged by the printed object
expect_equal(EXSW2_R1_stream_printed_TOXSWA_553, readLines("EXSW2_R1_stream_printed.txt"))
})
test_that("Getting events and moving window analysis works", {
# Event analysis with two different thresholds
H_sw_R1_stream$get_events(c(2, 10))
expect_equal_to_reference(H_sw_R1_stream$events, file = "H_sw_R1_stream_events.rds")
# Moving window analysis
H_sw_R1_stream$moving_windows(c(7, 21))
expect_equal_to_reference(H_sw_R1_stream$windows, file = "H_sw_R1_stream_windows.rds")
})
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