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(v1.7.1.9028) fix unit test

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dr. M.S. (Matthijs) Berends 2021-08-20 00:08:31 +02:00
parent 41f35c73cd
commit e4de7f5055
7 changed files with 15 additions and 16 deletions
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DESCRIPTION
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Package: AMR Package: AMR
Version: 1.7.1.9027 Version: 1.7.1.9028
Date: 2021-08-19 Date: 2021-08-20
Title: Antimicrobial Resistance Data Analysis Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR) Description: Functions to simplify and standardise antimicrobial resistance (AMR)
data analysis and to work with microbial and antimicrobial properties by data analysis and to work with microbial and antimicrobial properties by

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NEWS.md
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# `AMR` 1.7.1.9027 # `AMR` 1.7.1.9028
## <small>Last updated: 19 August 2021</small> ## <small>Last updated: 20 August 2021</small>
### Breaking changes ### Breaking changes
* Removed `p_symbol()` and all `filter_*()` functions (except for `filter_first_isolate()`), which were all deprecated in a previous package version * Removed `p_symbol()` and all `filter_*()` functions (except for `filter_first_isolate()`), which were all deprecated in a previous package version

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docs/articles/datasets.html
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</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9027</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9028</span>
</span> </span>
</div> </div>
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<div class="page-header toc-ignore"> <div class="page-header toc-ignore">
<h1 data-toc-skip>Data sets for download / own use</h1> <h1 data-toc-skip>Data sets for download / own use</h1>
<h4 data-toc-skip class="date">19 August 2021</h4> <h4 data-toc-skip class="date">20 August 2021</h4>
<small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/master/vignettes/datasets.Rmd" class="external-link"><code>vignettes/datasets.Rmd</code></a></small> <small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/master/vignettes/datasets.Rmd" class="external-link"><code>vignettes/datasets.Rmd</code></a></small>
<div class="hidden name"><code>datasets.Rmd</code></div> <div class="hidden name"><code>datasets.Rmd</code></div>

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docs/news/index.html
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</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9027</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9028</span>
</span> </span>
</div> </div>
@ -240,12 +240,12 @@
<small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small> <small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small>
</div> </div>
<div id="amr-1719027" class="section level1"> <div id="amr-1719028" class="section level1">
<h1 class="page-header" data-toc-text="1.7.1.9027"> <h1 class="page-header" data-toc-text="1.7.1.9028">
<a href="#amr-1719027" class="anchor" aria-hidden="true"></a><small> Unreleased </small><code>AMR</code> 1.7.1.9027</h1> <a href="#amr-1719028" class="anchor" aria-hidden="true"></a><small> Unreleased </small><code>AMR</code> 1.7.1.9028</h1>
<div id="last-updated-19-august-2021" class="section level2"> <div id="last-updated-20-august-2021" class="section level2">
<h2 class="hasAnchor"> <h2 class="hasAnchor">
<a href="#last-updated-19-august-2021" class="anchor" aria-hidden="true"></a><small>Last updated: 19 August 2021</small> <a href="#last-updated-20-august-2021" class="anchor" aria-hidden="true"></a><small>Last updated: 20 August 2021</small>
</h2> </h2>
<div id="breaking-changes" class="section level3"> <div id="breaking-changes" class="section level3">
<h3 class="hasAnchor"> <h3 class="hasAnchor">

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inst/tinytest/test-ab_property.R
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# ==================================================================== # # ==================================================================== #
expect_identical(ab_name("AMX", language = NULL), "Amoxicillin") expect_identical(ab_name("AMX", language = NULL), "Amoxicillin")
expect_identical(ab_name("AMX", language = NULL, snake_case = TRUE), "amoxicillin")
expect_identical(ab_atc("AMX"), "J01CA04") expect_identical(ab_atc("AMX"), "J01CA04")
expect_identical(ab_cid("AMX"), as.integer(33613)) expect_identical(ab_cid("AMX"), as.integer(33613))

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inst/tinytest/test-mo_property.R
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@ -121,9 +121,9 @@ expect_equal(mo_name("test", reference_df = data.frame(col1 = "test", mo = "B_ES
"Escherichia coli") "Escherichia coli")
if (AMR:::pkg_is_available("dplyr")) { if (AMR:::pkg_is_available("dplyr")) {
expect_equal(example_isolates %>% filter(mo_is_gram_negative()) %>% nrow(), expect_equal(example_isolates %>% filter(mo_is_gram_negative()) %>% nrow(),
730) 730, tolerance = 0.5)
expect_equal(example_isolates %>% filter(mo_is_gram_positive()) %>% nrow(), expect_equal(example_isolates %>% filter(mo_is_gram_positive()) %>% nrow(),
1238) 1238, tolerance = 0.5)
expect_equal(example_isolates %>% filter(mo_is_intrinsic_resistant(ab = "Vancomycin")) %>% nrow(), expect_equal(example_isolates %>% filter(mo_is_intrinsic_resistant(ab = "Vancomycin")) %>% nrow(),
710) 710, tolerance = 0.5)
} }