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(v2.1.1.9186) replace antibiotics
with antimicrobials
!
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@ -27,33 +27,35 @@
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# how to conduct AMR data analysis: https://msberends.github.io/AMR/ #
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# ==================================================================== #
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expect_true(as.disk(8) == as.disk("8"))
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expect_true(is.disk(as.disk(8)))
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test_that("disk works", {
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expect_true(as.disk(8) == as.disk("8"))
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expect_true(is.disk(as.disk(8)))
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expect_equal(suppressWarnings(as.logical(as.disk("INVALID VALUE"))), NA)
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expect_equal(suppressWarnings(as.logical(as.disk("INVALID VALUE"))), NA)
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# all levels should be valid disks
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x <- as.disk(c(20, 40))
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expect_inherits(x[1], "disk")
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expect_inherits(x[[1]], "disk")
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expect_inherits(c(x[1], x[9]), "disk")
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expect_inherits(unique(x[1], x[9]), "disk")
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# expect_warning(as.disk("INVALID VALUE"))
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x[2] <- 32
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expect_inherits(x, "disk")
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# all levels should be valid disks
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x <- as.disk(c(20, 40))
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expect_inherits(x[1], "disk")
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expect_inherits(x[[1]], "disk")
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expect_inherits(c(x[1], x[9]), "disk")
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expect_inherits(unique(x[1], x[9]), "disk")
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# expect_warning(as.disk("INVALID VALUE"))
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x[2] <- 32
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expect_inherits(x, "disk")
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pdf(NULL) # prevent Rplots.pdf being created
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expect_silent(barplot(as.disk(c(10, 20, 40))))
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expect_silent(plot(as.disk(c(10, 20, 40))))
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expect_silent(plot(as.disk(c(10, 20, 40)), expand = FALSE))
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expect_silent(plot(as.disk(c(10, 20, 40)), mo = "Escherichia coli", ab = "cipr"))
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if (AMR:::pkg_is_available("ggplot2")) {
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expect_inherits(ggplot2::autoplot(as.disk(c(10, 20, 40))), "gg")
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expect_inherits(ggplot2::autoplot(as.disk(c(10, 20, 40)), expand = FALSE), "gg")
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expect_inherits(ggplot2::autoplot(as.disk(c(10, 20, 40)), mo = "Escherichia coli", ab = "cipr"), "gg")
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}
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expect_stdout(print(as.disk(12)))
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pdf(NULL) # prevent Rplots.pdf being created
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expect_silent(barplot(as.disk(c(10, 20, 40))))
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expect_silent(plot(as.disk(c(10, 20, 40))))
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expect_silent(plot(as.disk(c(10, 20, 40)), expand = FALSE))
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expect_silent(plot(as.disk(c(10, 20, 40)), mo = "Escherichia coli", ab = "cipr"))
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if (AMR:::pkg_is_available("ggplot2")) {
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expect_inherits(ggplot2::autoplot(as.disk(c(10, 20, 40))), "gg")
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expect_inherits(ggplot2::autoplot(as.disk(c(10, 20, 40)), expand = FALSE), "gg")
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expect_inherits(ggplot2::autoplot(as.disk(c(10, 20, 40)), mo = "Escherichia coli", ab = "cipr"), "gg")
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}
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expect_output(print(as.disk(12)))
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if (AMR:::pkg_is_available("tibble")) {
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expect_stdout(print(tibble::tibble(d = as.disk(12))))
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}
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if (AMR:::pkg_is_available("tibble")) {
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expect_output(print(tibble::tibble(d = as.disk(12))))
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}
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})
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