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fixes
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Package: AMR
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Package: AMR
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Version: 1.8.2.9067
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Version: 1.8.2.9068
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Date: 2022-12-20
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Date: 2022-12-20
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Title: Antimicrobial Resistance Data Analysis
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Title: Antimicrobial Resistance Data Analysis
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Description: Functions to simplify and standardise antimicrobial resistance (AMR)
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Description: Functions to simplify and standardise antimicrobial resistance (AMR)
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2
NEWS.md
2
NEWS.md
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# AMR 1.8.2.9067
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# AMR 1.8.2.9068
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*(this beta version will eventually become v2.0! We're happy to reach a new major milestone soon!)*
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*(this beta version will eventually become v2.0! We're happy to reach a new major milestone soon!)*
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@ -67,8 +67,8 @@ expect_equal(
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# first non-ICU isolates
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# first non-ICU isolates
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expect_equal(
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expect_identical(
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sum(
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as.integer(sum(
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first_isolate(example_isolates,
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first_isolate(example_isolates,
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col_mo = "mo",
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col_mo = "mo",
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col_date = "date",
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col_date = "date",
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@ -78,8 +78,8 @@ expect_equal(
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icu_exclude = TRUE
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icu_exclude = TRUE
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),
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),
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na.rm = TRUE
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na.rm = TRUE
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),
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)),
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942
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942L
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)
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)
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# set 1500 random observations to be of specimen type 'Urine'
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# set 1500 random observations to be of specimen type 'Urine'
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@ -114,7 +114,7 @@ expect_identical(
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"Paraburkholderia nodosa"
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"Paraburkholderia nodosa"
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))
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))
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),
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),
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rep("B_PRBRK_NODS", 4)
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rep("B_PRBRK_NODS", 2)
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)
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)
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# empty values
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# empty values
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@ -198,9 +198,6 @@ if (AMR:::pkg_is_available("dplyr", min_version = "1.0.0")) {
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expect_true(example_isolates %>% pull(mo) %>% is.mo())
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expect_true(example_isolates %>% pull(mo) %>% is.mo())
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}
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}
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# unknown results
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expect_warning(as.mo("INVALID"))
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# print
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# print
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expect_stdout(print(as.mo(c("B_ESCHR_COLI", NA))))
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expect_stdout(print(as.mo(c("B_ESCHR_COLI", NA))))
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