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53 lines
3.1 KiB
53 lines
3.1 KiB
# ==================================================================== # |
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# TITLE # |
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# Antimicrobial Resistance (AMR) Data Analysis for R # |
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# # |
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# SOURCE # |
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# https://github.com/msberends/AMR # |
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# # |
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# LICENCE # |
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# (c) 2018-2021 Berends MS, Luz CF et al. # |
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# Developed at the University of Groningen, the Netherlands, in # |
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# collaboration with non-profit organisations Certe Medical # |
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# Diagnostics & Advice, and University Medical Center Groningen. # |
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# # |
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# This R package is free software; you can freely use and distribute # |
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# it for both personal and commercial purposes under the terms of the # |
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# GNU General Public License version 2.0 (GNU GPL-2), as published by # |
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# the Free Software Foundation. # |
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# We created this package for both routine data analysis and academic # |
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# research and it was publicly released in the hope that it will be # |
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# useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY. # |
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# # |
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# Visit our website for the full manual and a complete tutorial about # |
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# how to conduct AMR data analysis: https://msberends.github.io/AMR/ # |
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# ==================================================================== # |
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expect_equal(AMR:::percentage(0.25), "25%") |
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expect_equal(AMR:::percentage(0.5), "50%") |
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expect_equal(AMR:::percentage(0.500, digits = 1), "50.0%") |
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expect_equal(AMR:::percentage(0.1234), "12.3%") |
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# round up 0.5 |
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expect_equal(AMR:::percentage(0.0054), "0.5%") |
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expect_equal(AMR:::percentage(0.0055), "0.6%") |
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expect_equal(AMR:::strrep("A", 5), "AAAAA") |
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expect_equal(AMR:::strrep(c("A", "B"), c(5, 2)), c("AAAAA", "BB")) |
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expect_equal(AMR:::trimws(" test "), "test") |
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expect_equal(AMR:::trimws(" test ", "l"), "test ") |
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expect_equal(AMR:::trimws(" test ", "r"), " test") |
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expect_warning(AMR:::generate_warning_abs_missing(c("AMP", "AMX"))) |
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expect_warning(AMR:::generate_warning_abs_missing(c("AMP", "AMX"), any = TRUE)) |
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expect_warning(AMR:::get_column_abx(example_isolates, hard_dependencies = "FUS")) |
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expect_message(AMR:::get_column_abx(example_isolates, soft_dependencies = "FUS")) |
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if (AMR:::pkg_is_available("dplyr", min_version = "1.0.0")) { |
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expect_warning(AMR:::get_column_abx(rename(example_isolates, thisone = AMX), amox = "thisone", tmp = "thisone", verbose = TRUE)) |
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expect_warning(AMR:::get_column_abx(rename(example_isolates, thisone = AMX), amox = "thisone", tmp = "thisone", verbose = FALSE)) |
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} |
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# we rely on "grouped_tbl" being a class of grouped tibbles, so implement a test that checks for this: |
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if (AMR:::pkg_is_available("dplyr", min_version = "1.0.0")) { |
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expect_true(AMR:::is_null_or_grouped_tbl(example_isolates %>% group_by(hospital_id))) |
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}
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